[vistrails-dev] [VisTrails/VisTrails] 91d1f1: Adds a get_column_by_name() convenience method

GitHub noreply at github.com
Tue Feb 3 10:10:35 EST 2015


  Branch: refs/heads/vtk-new-package
  Home:   https://github.com/VisTrails/VisTrails
  Commit: 91d1f13d4da24e7394ed982dec8aac3d241487c8
      https://github.com/VisTrails/VisTrails/commit/91d1f13d4da24e7394ed982dec8aac3d241487c8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/read/read_json.py

  Log Message:
  -----------
  Adds a get_column_by_name() convenience method


  Commit: e5a525d27524bd34a708c5633714ae0a62a4ea98
      https://github.com/VisTrails/VisTrails/commit/e5a525d27524bd34a708c5633714ae0a62a4ea98
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    A examples/mta.vt
    A examples/weather.vt
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/write_csv.py
    M vistrails/packages/tabledata/write/write_numpy.py

  Log Message:
  -----------
  Merge branch 'tabledata-merge-tabdata' into 'master'

Conflicts:
	vistrails/packages/tabledata/common.py
	vistrails/packages/tabledata/read/read_csv.py

Feature: Additional format and operations for the tabledata package


  Commit: 95bf0b28d9f42952bd9b97f5ef38daa9db46d414
      https://github.com/VisTrails/VisTrails/commit/95bf0b28d9f42952bd9b97f5ef38daa9db46d414
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/db/services/action.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py

  Log Message:
  -----------
  Merge branch 'sql-pkg-sqlalchemy' into 'master'


  Commit: 513d363015d5cf7c768e21c740e2d9324984bf05
      https://github.com/VisTrails/VisTrails/commit/513d363015d5cf7c768e21c740e2d9324984bf05
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M dist/mac/Input/LICENSE
    M dist/mac/Input/README
    M dist/mac/fix_itk_libraries.py
    M dist/mac/fix_qtplugin_libs.py
    M dist/mac/make_app
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/ubuntu/create_debian_pkg.sh
    M dist/windows/Input/download_usersguide.py
    M dist/windows/Input/license.txt
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/Input/runvistrails.py
    M dist/windows/Input/startup.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/Makefile
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/example.rst
    M doc/usersguide/example_webservices.rst
    M doc/usersguide/figures/example_webservices/modules_list.png
    R doc/usersguide/figures/example_webservices/pythonsource.png
    R doc/usersguide/figures/example_webservices/version_tree_modules.png
    R doc/usersguide/figures/example_webservices/ws_preferences.png
    R doc/usersguide/figures/packages/after_enabled_package.png
    R doc/usersguide/figures/parameter_exploration/fig6_1.png
    R doc/usersguide/figures/parameter_exploration/fig6_2.png
    R doc/usersguide/figures/parameter_exploration/fig6_4.png
    R doc/usersguide/figures/parameter_exploration/fig6_5.png
    R doc/usersguide/figures/querying/query4.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_cell_control.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode_move.png
    A doc/usersguide/figures/tabledata/pipeline.png
    A doc/usersguide/figures/tabledata/results.png
    R doc/usersguide/figures/version_tree/collapsed.png
    R doc/usersguide/figures/version_tree/creating_versions.png
    R doc/usersguide/figures/version_tree/expanded.png
    M doc/usersguide/parameter_exploration.rst
    M doc/usersguide/querying.rst
    A doc/usersguide/tabledata.rst
    M doc/usersguide/vistrails_server.rst
    A doc/usersguide/vtl/bikes.vtl
    A doc/usersguide/vtl/gcd.vtl
    A examples-internal/XSLTSample.xsl
    A examples-internal/afront.xml
    A examples-internal/corie.xml
    A examples-internal/mummy.xml
    R examples/XSLTSample.xsl
    R examples/afront.xml
    A examples/bikes.vt
    A examples/brain_vistrail.vt
    R examples/corie.xml
    A examples/gcd.vt
    R examples/gcd.xml
    A examples/hadoop-nodeinfo.vt
    A examples/mta.vt
    R examples/mummy.xml
    A examples/primes.vt
    R examples/primes.xml
    M examples/triangle_area.vt
    A examples/weather.vt
    M extensions/http/config.php.sample
    M extensions/http/get_db_vistrail_list.php
    M extensions/http/get_vt_xml.php
    M extensions/http/get_wf_pdf.php
    M extensions/http/get_wf_xml.php
    M extensions/http/run_vistrails.php
    M extensions/latex/crowdlabs.sty
    M extensions/latex/example.tex
    M extensions/latex/head.tex
    M extensions/latex/includecrowdlabs.py
    M extensions/latex/includevistrail.py
    M extensions/latex/vistrails.sty
    M extensions/mediawiki/download.php
    M extensions/mediawiki/functions.php
    M extensions/mediawiki/vistrailsExtension.php
    M scripts/build_usersguide.py
    M scripts/convert_files/convert_files.sh
    M scripts/convert_files/fix_file.py
    M scripts/create_release_wiki_table.py
    M scripts/create_server_media_dir_structure.py
    M scripts/db_utils.py
    M scripts/delete_from_db.py
    M scripts/diff_package.py
    M scripts/extract.py
    M scripts/force_start_vistrails.py
    M scripts/force_start_vistrails_nonohup.py
    M scripts/gen_vtk_examples/check_diffs.py
    M scripts/gen_vtk_examples/colors.py
    M scripts/gen_vtk_examples/convert_to_vt.py
    M scripts/gen_vtk_examples/copy_vtk_examples.py
    M scripts/gen_vtk_examples/gen_vtk_examples.py
    M scripts/gen_vtk_examples/get_vtk_examples.py
    M scripts/gen_vtk_examples/vtk_imposter.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M scripts/mac_update_bin.sh
    M scripts/merge_vistrails.py
    M scripts/module_appearance/main.py
    M scripts/module_appearance/module_appearance.py
    M scripts/opm/opm2dot.py
    M scripts/release_notes.py
    M scripts/restart-vistrails-server.sh
    M scripts/retarget_mpl_libs.sh
    M scripts/run_vistrails_batch_xvfb.sh
    M scripts/sql_delete.py
    M scripts/sql_to_xml.py
    M scripts/start_vistrails.sh
    M scripts/start_vistrails_xvfb.sh
    M scripts/system_info.py
    M scripts/unzip_vistrail.sh
    M scripts/update_copyright_year.py
    M scripts/update_db.py
    M scripts/update_email_contact.py
    A scripts/update_hash.py
    M scripts/update_to_mod_bsd_license.py
    M scripts/update_vistrails_command.py
    M scripts/watch_vistrail_servers.py
    M scripts/win_update_bin.sh
    M vistrails/__init__.py
    M vistrails/api/__init__.py
    M vistrails/core/__init__.py
    M vistrails/core/analogy/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/application.py
    M vistrails/core/bundles/__init__.py
    M vistrails/core/bundles/installbundle.py
    M vistrails/core/bundles/pyimport.py
    M vistrails/core/cache/__init__.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/cache/utils.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/schema.sql
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/command_line.py
    M vistrails/core/common.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/__init__.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/data_structures/queue.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/data_structures/stack.py
    M vistrails/core/db/__init__.py
    M vistrails/core/db/action.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/inspector.py
    M vistrails/core/interpreter/__init__.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/default.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/interpreter/noncached.py
    M vistrails/core/interpreter/utils.py
    M vistrails/core/keychain.py
    M vistrails/core/layout/__init__.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/log/__init__.py
    M vistrails/core/log/controller.py
    M vistrails/core/log/group_exec.py
    M vistrails/core/log/log.py
    M vistrails/core/log/loop_exec.py
    M vistrails/core/log/machine.py
    M vistrails/core/log/module_exec.py
    M vistrails/core/log/opm_graph.py
    M vistrails/core/log/prov_document.py
    M vistrails/core/log/workflow_exec.py
    M vistrails/core/mashup/__init__.py
    M vistrails/core/mashup/alias.py
    M vistrails/core/mashup/component.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/__init__.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_descriptor.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/param_explore.py
    M vistrails/core/paramexplore/__init__.py
    M vistrails/core/paramexplore/function.py
    M vistrails/core/paramexplore/param.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/publishing/__init__.py
    M vistrails/core/publishing/parse_latex.py
    M vistrails/core/query/__init__.py
    M vistrails/core/query/combined.py
    M vistrails/core/query/multiple.py
    M vistrails/core/query/version.py
    M vistrails/core/query/visual.py
    M vistrails/core/recent_vistrails.py
    M vistrails/core/repository/__init__.py
    M vistrails/core/repository/poster/__init__.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/requirements.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/mac_site.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/unix.py
    M vistrails/core/system/windows.py
    M vistrails/core/theme.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/color.py
    M vistrails/core/utils/enum.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/gcutils.py
    M vistrails/core/utils/timemethod.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/utils/uxml.py
    M vistrails/core/vistrail/__init__.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/action.py
    M vistrails/core/vistrail/action_annotation.py
    M vistrails/core/vistrail/annotation.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/location.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/core/vistrail/module_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/plugin_data.py
    M vistrails/core/vistrail/port.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/tag.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/core/vistrail/vistrailvariable.py
    M vistrails/db/__init__.py
    M vistrails/db/bin/__init__.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/generate.py
    M vistrails/db/bin/parser.py
    M vistrails/db/bin/sql_gen_objects.py
    M vistrails/db/bin/templates/domain.py.mako
    M vistrails/db/bin/templates/sql.py.mako
    M vistrails/db/bin/templates/sql_delete.sql.mako
    M vistrails/db/bin/templates/sql_schema.sql.mako
    M vistrails/db/bin/templates/xml.py.mako
    M vistrails/db/bin/templates/xml_schema.xsd.mako
    M vistrails/db/bin/xml_gen_objects.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/__init__.py
    M vistrails/db/services/abstraction.py
    M vistrails/db/services/action.py
    M vistrails/db/services/action_chain.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/log.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/query.py
    M vistrails/db/services/registry.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/services/workflow.py
    M vistrails/db/specs/all.xml
    M vistrails/db/tests/__init__.py
    M vistrails/db/tests/setup_db_tables.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/tests/xml_to_sql.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v0_3_0/__init__.py
    M vistrails/db/versions/v0_3_0/domain/__init__.py
    M vistrails/db/versions/v0_3_0/domain/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/xml/io.py
    M vistrails/db/versions/v0_3_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_3_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_3_0/specs/action.xml
    M vistrails/db/versions/v0_3_0/specs/addConnection.xml
    M vistrails/db/versions/v0_3_0/specs/addModule.xml
    M vistrails/db/versions/v0_3_0/specs/addModulePort.xml
    M vistrails/db/versions/v0_3_0/specs/changeAnnotation.xml
    M vistrails/db/versions/v0_3_0/specs/changeParameter.xml
    M vistrails/db/versions/v0_3_0/specs/deleteAnnotation.xml
    M vistrails/db/versions/v0_3_0/specs/deleteConnection.xml
    M vistrails/db/versions/v0_3_0/specs/deleteFunction.xml
    M vistrails/db/versions/v0_3_0/specs/deleteModule.xml
    M vistrails/db/versions/v0_3_0/specs/deleteModulePort.xml
    M vistrails/db/versions/v0_3_0/specs/moveModule.xml
    M vistrails/db/versions/v0_3_0/specs/tag.xml
    M vistrails/db/versions/v0_3_0/specs/vistrail.xml
    M vistrails/db/versions/v0_3_1/__init__.py
    M vistrails/db/versions/v0_3_1/domain/__init__.py
    M vistrails/db/versions/v0_3_1/persistence/__init__.py
    M vistrails/db/versions/v0_3_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_3_1/specs/action.xml
    M vistrails/db/versions/v0_3_1/specs/addConnection.xml
    M vistrails/db/versions/v0_3_1/specs/addModule.xml
    M vistrails/db/versions/v0_3_1/specs/addModulePort.xml
    M vistrails/db/versions/v0_3_1/specs/changeAnnotation.xml
    M vistrails/db/versions/v0_3_1/specs/changeParameter.xml
    M vistrails/db/versions/v0_3_1/specs/deleteAnnotation.xml
    M vistrails/db/versions/v0_3_1/specs/deleteConnection.xml
    M vistrails/db/versions/v0_3_1/specs/deleteFunction.xml
    M vistrails/db/versions/v0_3_1/specs/deleteModule.xml
    M vistrails/db/versions/v0_3_1/specs/deleteModulePort.xml
    M vistrails/db/versions/v0_3_1/specs/moveModule.xml
    M vistrails/db/versions/v0_3_1/specs/tag.xml
    M vistrails/db/versions/v0_3_1/specs/vistrail.xml
    M vistrails/db/versions/v0_3_1/translate/__init__.py
    M vistrails/db/versions/v0_3_1/translate/v0_3_0.py
    M vistrails/db/versions/v0_5_0/__init__.py
    M vistrails/db/versions/v0_5_0/domain/__init__.py
    M vistrails/db/versions/v0_5_0/domain/auto_gen.py
    M vistrails/db/versions/v0_5_0/domain/id_scope.py
    M vistrails/db/versions/v0_5_0/domain/vistrail.py
    M vistrails/db/versions/v0_5_0/domain/workflow.py
    M vistrails/db/versions/v0_5_0/persistence/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_5_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/xml/io.py
    M vistrails/db/versions/v0_5_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_5_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_5_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_5_0/schemas/xml/log.xsd
    M vistrails/db/versions/v0_5_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_5_0/schemas/xml/workflow.xsd
    M vistrails/db/versions/v0_5_0/specs/action.xml
    M vistrails/db/versions/v0_5_0/specs/add.xml
    M vistrails/db/versions/v0_5_0/specs/annotation.xml
    M vistrails/db/versions/v0_5_0/specs/change.xml
    M vistrails/db/versions/v0_5_0/specs/connection.xml
    M vistrails/db/versions/v0_5_0/specs/delete.xml
    M vistrails/db/versions/v0_5_0/specs/execRec.xml
    M vistrails/db/versions/v0_5_0/specs/function.xml
    M vistrails/db/versions/v0_5_0/specs/location.xml
    M vistrails/db/versions/v0_5_0/specs/log.xml
    M vistrails/db/versions/v0_5_0/specs/machine.xml
    M vistrails/db/versions/v0_5_0/specs/macro.xml
    M vistrails/db/versions/v0_5_0/specs/module.xml
    M vistrails/db/versions/v0_5_0/specs/other.xml
    M vistrails/db/versions/v0_5_0/specs/parameter.xml
    M vistrails/db/versions/v0_5_0/specs/port.xml
    M vistrails/db/versions/v0_5_0/specs/portSpec.xml
    M vistrails/db/versions/v0_5_0/specs/session.xml
    M vistrails/db/versions/v0_5_0/specs/tag.xml
    M vistrails/db/versions/v0_5_0/specs/vistrail.xml
    M vistrails/db/versions/v0_5_0/specs/wfExec.xml
    M vistrails/db/versions/v0_5_0/specs/workflow.xml
    M vistrails/db/versions/v0_5_0/translate/__init__.py
    M vistrails/db/versions/v0_5_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/__init__.py
    M vistrails/db/versions/v0_6_0/domain/__init__.py
    M vistrails/db/versions/v0_6_0/domain/auto_gen.py
    M vistrails/db/versions/v0_6_0/domain/id_scope.py
    M vistrails/db/versions/v0_6_0/domain/vistrail.py
    M vistrails/db/versions/v0_6_0/domain/workflow.py
    M vistrails/db/versions/v0_6_0/persistence/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_6_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/xml/io.py
    M vistrails/db/versions/v0_6_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_6_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_6_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_6_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_6_0/specs/abstraction.xml
    M vistrails/db/versions/v0_6_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_6_0/specs/action.xml
    M vistrails/db/versions/v0_6_0/specs/add.xml
    M vistrails/db/versions/v0_6_0/specs/annotation.xml
    M vistrails/db/versions/v0_6_0/specs/change.xml
    M vistrails/db/versions/v0_6_0/specs/connection.xml
    M vistrails/db/versions/v0_6_0/specs/delete.xml
    M vistrails/db/versions/v0_6_0/specs/function.xml
    M vistrails/db/versions/v0_6_0/specs/location.xml
    M vistrails/db/versions/v0_6_0/specs/log.xml
    M vistrails/db/versions/v0_6_0/specs/machine.xml
    M vistrails/db/versions/v0_6_0/specs/module.xml
    M vistrails/db/versions/v0_6_0/specs/module_exec.xml
    M vistrails/db/versions/v0_6_0/specs/other.xml
    M vistrails/db/versions/v0_6_0/specs/parameter.xml
    M vistrails/db/versions/v0_6_0/specs/port.xml
    M vistrails/db/versions/v0_6_0/specs/portSpec.xml
    M vistrails/db/versions/v0_6_0/specs/tag.xml
    M vistrails/db/versions/v0_6_0/specs/vistrail.xml
    M vistrails/db/versions/v0_6_0/specs/workflow.xml
    M vistrails/db/versions/v0_6_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_6_0/translate/__init__.py
    M vistrails/db/versions/v0_6_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/translate/v0_5_0.py
    M vistrails/db/versions/v0_7_0/__init__.py
    M vistrails/db/versions/v0_7_0/domain/__init__.py
    M vistrails/db/versions/v0_7_0/domain/abstraction.py
    M vistrails/db/versions/v0_7_0/domain/auto_gen.py
    M vistrails/db/versions/v0_7_0/domain/id_scope.py
    M vistrails/db/versions/v0_7_0/domain/vistrail.py
    M vistrails/db/versions/v0_7_0/domain/workflow.py
    M vistrails/db/versions/v0_7_0/persistence/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_7_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/xml/io.py
    M vistrails/db/versions/v0_7_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_7_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_7_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_7_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_7_0/specs/abstraction.xml
    M vistrails/db/versions/v0_7_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_7_0/specs/action.xml
    M vistrails/db/versions/v0_7_0/specs/add.xml
    M vistrails/db/versions/v0_7_0/specs/annotation.xml
    M vistrails/db/versions/v0_7_0/specs/change.xml
    M vistrails/db/versions/v0_7_0/specs/connection.xml
    M vistrails/db/versions/v0_7_0/specs/delete.xml
    M vistrails/db/versions/v0_7_0/specs/function.xml
    M vistrails/db/versions/v0_7_0/specs/location.xml
    M vistrails/db/versions/v0_7_0/specs/log.xml
    M vistrails/db/versions/v0_7_0/specs/machine.xml
    M vistrails/db/versions/v0_7_0/specs/module.xml
    M vistrails/db/versions/v0_7_0/specs/module_exec.xml
    M vistrails/db/versions/v0_7_0/specs/other.xml
    M vistrails/db/versions/v0_7_0/specs/parameter.xml
    M vistrails/db/versions/v0_7_0/specs/port.xml
    M vistrails/db/versions/v0_7_0/specs/portSpec.xml
    M vistrails/db/versions/v0_7_0/specs/tag.xml
    M vistrails/db/versions/v0_7_0/specs/vistrail.xml
    M vistrails/db/versions/v0_7_0/specs/workflow.xml
    M vistrails/db/versions/v0_7_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_7_0/translate/__init__.py
    M vistrails/db/versions/v0_7_0/translate/v0_6_0.py
    M vistrails/db/versions/v0_8_0/__init__.py
    M vistrails/db/versions/v0_8_0/domain/__init__.py
    M vistrails/db/versions/v0_8_0/domain/abstraction.py
    M vistrails/db/versions/v0_8_0/domain/auto_gen.py
    M vistrails/db/versions/v0_8_0/domain/id_scope.py
    M vistrails/db/versions/v0_8_0/domain/vistrail.py
    M vistrails/db/versions/v0_8_0/domain/workflow.py
    M vistrails/db/versions/v0_8_0/persistence/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_8_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_8_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_8_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_8_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_8_0/specs/abstraction.xml
    M vistrails/db/versions/v0_8_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_8_0/specs/action.xml
    M vistrails/db/versions/v0_8_0/specs/add.xml
    M vistrails/db/versions/v0_8_0/specs/annotation.xml
    M vistrails/db/versions/v0_8_0/specs/change.xml
    M vistrails/db/versions/v0_8_0/specs/connection.xml
    M vistrails/db/versions/v0_8_0/specs/delete.xml
    M vistrails/db/versions/v0_8_0/specs/function.xml
    M vistrails/db/versions/v0_8_0/specs/location.xml
    M vistrails/db/versions/v0_8_0/specs/log.xml
    M vistrails/db/versions/v0_8_0/specs/machine.xml
    M vistrails/db/versions/v0_8_0/specs/module.xml
    M vistrails/db/versions/v0_8_0/specs/module_exec.xml
    M vistrails/db/versions/v0_8_0/specs/other.xml
    M vistrails/db/versions/v0_8_0/specs/parameter.xml
    M vistrails/db/versions/v0_8_0/specs/port.xml
    M vistrails/db/versions/v0_8_0/specs/portSpec.xml
    M vistrails/db/versions/v0_8_0/specs/tag.xml
    M vistrails/db/versions/v0_8_0/specs/vistrail.xml
    M vistrails/db/versions/v0_8_0/specs/workflow.xml
    M vistrails/db/versions/v0_8_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_8_0/translate/__init__.py
    M vistrails/db/versions/v0_8_0/translate/v0_7_0.py
    M vistrails/db/versions/v0_8_1/__init__.py
    M vistrails/db/versions/v0_8_1/domain/__init__.py
    M vistrails/db/versions/v0_8_1/persistence/__init__.py
    M vistrails/db/versions/v0_8_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_8_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_8_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_8_1/specs/abstraction.xml
    M vistrails/db/versions/v0_8_1/specs/abstractionRef.xml
    M vistrails/db/versions/v0_8_1/specs/action.xml
    M vistrails/db/versions/v0_8_1/specs/add.xml
    M vistrails/db/versions/v0_8_1/specs/annotation.xml
    M vistrails/db/versions/v0_8_1/specs/change.xml
    M vistrails/db/versions/v0_8_1/specs/connection.xml
    M vistrails/db/versions/v0_8_1/specs/delete.xml
    M vistrails/db/versions/v0_8_1/specs/function.xml
    M vistrails/db/versions/v0_8_1/specs/location.xml
    M vistrails/db/versions/v0_8_1/specs/log.xml
    M vistrails/db/versions/v0_8_1/specs/machine.xml
    M vistrails/db/versions/v0_8_1/specs/module.xml
    M vistrails/db/versions/v0_8_1/specs/module_exec.xml
    M vistrails/db/versions/v0_8_1/specs/other.xml
    M vistrails/db/versions/v0_8_1/specs/parameter.xml
    M vistrails/db/versions/v0_8_1/specs/port.xml
    M vistrails/db/versions/v0_8_1/specs/portSpec.xml
    M vistrails/db/versions/v0_8_1/specs/tag.xml
    M vistrails/db/versions/v0_8_1/specs/vistrail.xml
    M vistrails/db/versions/v0_8_1/specs/workflow.xml
    M vistrails/db/versions/v0_8_1/specs/workflow_exec.xml
    M vistrails/db/versions/v0_8_1/translate/__init__.py
    M vistrails/db/versions/v0_8_1/translate/v0_8_0.py
    M vistrails/db/versions/v0_9_0/__init__.py
    M vistrails/db/versions/v0_9_0/domain/__init__.py
    M vistrails/db/versions/v0_9_0/domain/abstraction.py
    M vistrails/db/versions/v0_9_0/domain/auto_gen.py
    M vistrails/db/versions/v0_9_0/domain/id_scope.py
    M vistrails/db/versions/v0_9_0/domain/log.py
    M vistrails/db/versions/v0_9_0/domain/vistrail.py
    M vistrails/db/versions/v0_9_0/domain/workflow.py
    M vistrails/db/versions/v0_9_0/persistence/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_0/specs/abstraction.xml
    M vistrails/db/versions/v0_9_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_9_0/specs/action.xml
    M vistrails/db/versions/v0_9_0/specs/add.xml
    M vistrails/db/versions/v0_9_0/specs/annotation.xml
    M vistrails/db/versions/v0_9_0/specs/change.xml
    M vistrails/db/versions/v0_9_0/specs/connection.xml
    M vistrails/db/versions/v0_9_0/specs/delete.xml
    M vistrails/db/versions/v0_9_0/specs/function.xml
    M vistrails/db/versions/v0_9_0/specs/location.xml
    M vistrails/db/versions/v0_9_0/specs/log.xml
    M vistrails/db/versions/v0_9_0/specs/machine.xml
    M vistrails/db/versions/v0_9_0/specs/module.xml
    M vistrails/db/versions/v0_9_0/specs/module_exec.xml
    M vistrails/db/versions/v0_9_0/specs/other.xml
    M vistrails/db/versions/v0_9_0/specs/parameter.xml
    M vistrails/db/versions/v0_9_0/specs/port.xml
    M vistrails/db/versions/v0_9_0/specs/portSpec.xml
    M vistrails/db/versions/v0_9_0/specs/tag.xml
    M vistrails/db/versions/v0_9_0/specs/vistrail.xml
    M vistrails/db/versions/v0_9_0/specs/workflow.xml
    M vistrails/db/versions/v0_9_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_9_0/translate/__init__.py
    M vistrails/db/versions/v0_9_0/translate/v0_8_1.py
    M vistrails/db/versions/v0_9_1/__init__.py
    M vistrails/db/versions/v0_9_1/domain/__init__.py
    M vistrails/db/versions/v0_9_1/domain/abstraction.py
    M vistrails/db/versions/v0_9_1/domain/auto_gen.py
    M vistrails/db/versions/v0_9_1/domain/id_scope.py
    M vistrails/db/versions/v0_9_1/domain/log.py
    M vistrails/db/versions/v0_9_1/domain/vistrail.py
    M vistrails/db/versions/v0_9_1/domain/workflow.py
    M vistrails/db/versions/v0_9_1/persistence/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_1/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_1/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v0_9_1/specs/abstraction.xml
    M vistrails/db/versions/v0_9_1/specs/abstractionRef.xml
    M vistrails/db/versions/v0_9_1/specs/action.xml
    M vistrails/db/versions/v0_9_1/specs/add.xml
    M vistrails/db/versions/v0_9_1/specs/annotation.xml
    M vistrails/db/versions/v0_9_1/specs/change.xml
    M vistrails/db/versions/v0_9_1/specs/connection.xml
    M vistrails/db/versions/v0_9_1/specs/delete.xml
    M vistrails/db/versions/v0_9_1/specs/function.xml
    M vistrails/db/versions/v0_9_1/specs/group.xml
    M vistrails/db/versions/v0_9_1/specs/location.xml
    M vistrails/db/versions/v0_9_1/specs/log.xml
    M vistrails/db/versions/v0_9_1/specs/machine.xml
    M vistrails/db/versions/v0_9_1/specs/module.xml
    M vistrails/db/versions/v0_9_1/specs/module_exec.xml
    M vistrails/db/versions/v0_9_1/specs/other.xml
    M vistrails/db/versions/v0_9_1/specs/parameter.xml
    M vistrails/db/versions/v0_9_1/specs/port.xml
    M vistrails/db/versions/v0_9_1/specs/portSpec.xml
    M vistrails/db/versions/v0_9_1/specs/tag.xml
    M vistrails/db/versions/v0_9_1/specs/vistrail.xml
    M vistrails/db/versions/v0_9_1/specs/workflow.xml
    M vistrails/db/versions/v0_9_1/specs/workflow_exec.xml
    M vistrails/db/versions/v0_9_1/translate/__init__.py
    M vistrails/db/versions/v0_9_1/translate/v0_9_0.py
    M vistrails/db/versions/v0_9_2/__init__.py
    M vistrails/db/versions/v0_9_2/domain/__init__.py
    M vistrails/db/versions/v0_9_2/persistence/__init__.py
    M vistrails/db/versions/v0_9_2/translate/__init__.py
    M vistrails/db/versions/v0_9_2/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/__init__.py
    M vistrails/db/versions/v0_9_3/domain/__init__.py
    M vistrails/db/versions/v0_9_3/domain/abstraction.py
    M vistrails/db/versions/v0_9_3/domain/auto_gen.py
    M vistrails/db/versions/v0_9_3/domain/id_scope.py
    M vistrails/db/versions/v0_9_3/domain/log.py
    M vistrails/db/versions/v0_9_3/domain/vistrail.py
    M vistrails/db/versions/v0_9_3/domain/workflow.py
    M vistrails/db/versions/v0_9_3/persistence/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_3/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_3/specs/all.xml
    M vistrails/db/versions/v0_9_3/translate/__init__.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_2.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_4.py
    M vistrails/db/versions/v0_9_4/__init__.py
    M vistrails/db/versions/v0_9_4/domain/__init__.py
    M vistrails/db/versions/v0_9_4/domain/auto_gen.py
    M vistrails/db/versions/v0_9_4/domain/id_scope.py
    M vistrails/db/versions/v0_9_4/domain/log.py
    M vistrails/db/versions/v0_9_4/domain/vistrail.py
    M vistrails/db/versions/v0_9_4/domain/workflow.py
    M vistrails/db/versions/v0_9_4/persistence/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_4/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_4/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_4/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_4/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_4/specs/all.xml
    M vistrails/db/versions/v0_9_4/translate/__init__.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_3.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_5.py
    M vistrails/db/versions/v0_9_5/__init__.py
    M vistrails/db/versions/v0_9_5/domain/__init__.py
    M vistrails/db/versions/v0_9_5/domain/auto_gen.py
    M vistrails/db/versions/v0_9_5/domain/id_scope.py
    M vistrails/db/versions/v0_9_5/domain/log.py
    M vistrails/db/versions/v0_9_5/domain/registry.py
    M vistrails/db/versions/v0_9_5/domain/vistrail.py
    M vistrails/db/versions/v0_9_5/domain/workflow.py
    M vistrails/db/versions/v0_9_5/persistence/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_5/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_5/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_5/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_5/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_5/specs/all.xml
    M vistrails/db/versions/v0_9_5/translate/__init__.py
    M vistrails/db/versions/v0_9_5/translate/v0_9_4.py
    M vistrails/db/versions/v0_9_5/translate/v1_0_0.py
    M vistrails/db/versions/v1_0_0/__init__.py
    M vistrails/db/versions/v1_0_0/domain/__init__.py
    M vistrails/db/versions/v1_0_0/domain/auto_gen.py
    M vistrails/db/versions/v1_0_0/domain/id_scope.py
    M vistrails/db/versions/v1_0_0/domain/log.py
    M vistrails/db/versions/v1_0_0/domain/registry.py
    M vistrails/db/versions/v1_0_0/domain/vistrail.py
    M vistrails/db/versions/v1_0_0/domain/workflow.py
    M vistrails/db/versions/v1_0_0/persistence/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_0/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_0/specs/all.xml
    M vistrails/db/versions/v1_0_0/translate/__init__.py
    M vistrails/db/versions/v1_0_0/translate/v0_9_5.py
    M vistrails/db/versions/v1_0_0/translate/v1_0_1.py
    M vistrails/db/versions/v1_0_1/__init__.py
    M vistrails/db/versions/v1_0_1/domain/__init__.py
    M vistrails/db/versions/v1_0_1/domain/auto_gen.py
    M vistrails/db/versions/v1_0_1/domain/id_scope.py
    M vistrails/db/versions/v1_0_1/domain/log.py
    M vistrails/db/versions/v1_0_1/domain/registry.py
    M vistrails/db/versions/v1_0_1/domain/vistrail.py
    M vistrails/db/versions/v1_0_1/domain/workflow.py
    M vistrails/db/versions/v1_0_1/persistence/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_1/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_1/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_1/specs/all.xml
    M vistrails/db/versions/v1_0_1/translate/__init__.py
    M vistrails/db/versions/v1_0_1/translate/v1_0_0.py
    M vistrails/db/versions/v1_0_1/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_2/__init__.py
    M vistrails/db/versions/v1_0_2/domain/__init__.py
    M vistrails/db/versions/v1_0_2/domain/auto_gen.py
    M vistrails/db/versions/v1_0_2/domain/id_scope.py
    M vistrails/db/versions/v1_0_2/domain/log.py
    M vistrails/db/versions/v1_0_2/domain/registry.py
    M vistrails/db/versions/v1_0_2/domain/vistrail.py
    M vistrails/db/versions/v1_0_2/domain/workflow.py
    M vistrails/db/versions/v1_0_2/persistence/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_2/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_2/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_2/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_2/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_2/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_2/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_2/specs/all.xml
    M vistrails/db/versions/v1_0_2/translate/__init__.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_1.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_3.py
    M vistrails/db/versions/v1_0_3/__init__.py
    M vistrails/db/versions/v1_0_3/domain/__init__.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/domain/id_scope.py
    M vistrails/db/versions/v1_0_3/domain/log.py
    M vistrails/db/versions/v1_0_3/domain/registry.py
    M vistrails/db/versions/v1_0_3/domain/vistrail.py
    M vistrails/db/versions/v1_0_3/domain/workflow.py
    M vistrails/db/versions/v1_0_3/persistence/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_3/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/base_view.py
    M vistrails/gui/bundles/__init__.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/__init__.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debug.py
    M vistrails/gui/debugger.py
    M vistrails/gui/extras/__init__.py
    M vistrails/gui/extras/core/__init__.py
    M vistrails/gui/extras/core/db/__init__.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/__init__.py
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/alias_list.py
    M vistrails/gui/mashups/alias_parameter_view.py
    M vistrails/gui/mashups/controller.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/mashups/mashups_inspector.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/module_annotation.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/__init__.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/module_configure.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/modules/python_source_configure.py
    M vistrails/gui/modules/query_configuration.py
    M vistrails/gui/modules/resources/__init__.py
    M vistrails/gui/modules/resources/colorconfig_rc.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/string_configure.py
    A vistrails/gui/modules/stringformat_configuration.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/__init__.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/pe_view.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/port_documentation.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    M vistrails/gui/repository.py
    M vistrails/gui/requirements.py
    M vistrails/gui/resources/__init__.py
    A vistrails/gui/resources/images/eye_closed.png
    M vistrails/gui/resources/macroicons_rc.py
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_variables.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_palette.py
    M vistrails/gui/vistrails_window.py
    M vistrails/index/__core.py
    M vistrails/index/__init__.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/__init__.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/__init__.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/ImageMagick/__init__.py
    M vistrails/packages/ImageMagick/init.py
    A vistrails/packages/RemoteQ/README
    A vistrails/packages/RemoteQ/__init__.py
    A vistrails/packages/RemoteQ/base.py
    A vistrails/packages/RemoteQ/hdfs.py
    A vistrails/packages/RemoteQ/init.py
    A vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/__init__.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/__init__.py
    M vistrails/packages/analytics/__init__.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/conditional.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/order.py
    M vistrails/packages/controlflow/products.py
    M vistrails/packages/controlflow/utils.py
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/mpl_artists.xml
    M vistrails/packages/matplotlib/mpl_artists_diff.xml
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/persistence/__init__.py
    M vistrails/packages/persistence/compute_hash.py
    M vistrails/packages/persistence/db_utils.py
    M vistrails/packages/persistence/find_files.py
    M vistrails/packages/persistence/find_workflows.py
    M vistrails/packages/persistence/identifiers.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/schema.sql
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pipelineEdit/__init__.py
    M vistrails/packages/pipelineEdit/init.py
    M vistrails/packages/pythonCalc/__init__.py
    M vistrails/packages/pythonCalc/init.py
    M vistrails/packages/pythonCalcQt/__init__.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/__init__.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/__init__.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/rpy/widgets.py
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/__init__.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/__init__.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/__init__.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    A vistrails/packages/tabledata/widgets.py
    A vistrails/packages/tabledata/write/__init__.py
    A vistrails/packages/tabledata/write/write_csv.py
    A vistrails/packages/tabledata/write/write_excel.py
    A vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/class_tree.py
    M vistrails/packages/vtk/fix_classes.py
    M vistrails/packages/vtk/hasher.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/offscreen.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/vtlcreator/__init__.py
    M vistrails/packages/vtlcreator/init.py
    M vistrails/packages/webServices/__init__.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/stop_vistrails_server.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/__init__.py
    M vistrails/tests/resources/console_mode_test.py
    M vistrails/tests/resources/dummy.xml
    M vistrails/tests/resources/dummy_broken.xml
    M vistrails/tests/resources/dummy_new.xml
    M vistrails/tests/resources/dynamic_module_error.xml
    M vistrails/tests/resources/empty_bookmarks.xml
    M vistrails/tests/resources/pythonsource.xml
    M vistrails/tests/resources/test_alias.xml
    M vistrails/tests/resources/test_ticket_73.xml
    M vistrails/tests/resources/vtk.xml
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into module-upgrade-recursion

Conflicts:
	vistrails/core/vistrail/controller.py


  Commit: 5d4fa6db578b93782e1edbd8f17920f4b7253581
      https://github.com/VisTrails/VisTrails/commit/5d4fa6db578b93782e1edbd8f17920f4b7253581
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Fix merge so that create_function accepts port spec


  Commit: ceb7e5e6a41bd5146ba85f950b363e94df651ee2
      https://github.com/VisTrails/VisTrails/commit/ceb7e5e6a41bd5146ba85f950b363e94df651ee2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  SQLAlchemy 0.6 compatibility


  Commit: a274252bafd1ed6ecdfb5dab1bef2c75ceb140ed
      https://github.com/VisTrails/VisTrails/commit/a274252bafd1ed6ecdfb5dab1bef2c75ceb140ed
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  Merge branch 'sql-pkg-sqlalchemy' into 'master'


  Commit: 18f39b15b220e2726065b3822e80b13611411ae2
      https://github.com/VisTrails/VisTrails/commit/18f39b15b220e2726065b3822e80b13611411ae2
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Improve default=None handling

New check in create_params_static and use an any check in
create_function_static.


  Commit: 92cc8ad484dbb28c59fa6e1a295e99e6bdcb8bc2
      https://github.com/VisTrails/VisTrails/commit/92cc8ad484dbb28c59fa6e1a295e99e6bdcb8bc2
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	vistrails/core/vistrail/controller.py


  Commit: bc9140e19cc1a50c7d7938edfbb73522ef9ba7f4
      https://github.com/VisTrails/VisTrails/commit/bc9140e19cc1a50c7d7938edfbb73522ef9ba7f4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M examples/terminator.vt

  Log Message:
  -----------
  terminator.vt: Removes upgrade & unused thumbnails

An upgrade from one of the tested tagged versions was present, and had
the thumbnail that was used as reference for the thumbnail-comparison
test. This removes the upgrade and makes its thumbnail the thumbnail for
the original version.

It also removes the thumbnails of non-tagged versions.


  Commit: 2d545722b1f1109871d72df52a2c65b961b9acec
      https://github.com/VisTrails/VisTrails/commit/2d545722b1f1109871d72df52a2c65b961b9acec
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M examples/terminator.vt

  Log Message:
  -----------
  terminator.vt: Removes upgrade & unused thumbnails

An upgrade from one of the tested tagged versions was present, and had
the thumbnail that was used as reference for the thumbnail-comparison
test. This removes the upgrade and makes its thumbnail the thumbnail for
the original version.

It also removes the thumbnails of non-tagged versions.


  Commit: e4ad83e4a7800dd3247fc6dbb1f9166942deef9e
      https://github.com/VisTrails/VisTrails/commit/e4ad83e4a7800dd3247fc6dbb1f9166942deef9e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py

  Log Message:
  -----------
  Fixes spreadsheet exporting code


  Commit: 90cc9501071713f10372a8029856c413c1ed9ded
      https://github.com/VisTrails/VisTrails/commit/90cc9501071713f10372a8029856c413c1ed9ded
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-13 (Thu, 13 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/svg/svg.py

  Log Message:
  -----------
  Fixes SVGToolBar


  Commit: 21c6ce6cf9c46cf9456ab93beb3e31a75f1bf356
      https://github.com/VisTrails/VisTrails/commit/21c6ce6cf9c46cf9456ab93beb3e31a75f1bf356
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Check all upgrade nodes for thumbnails when comparing

core/vistrail/controller.py:
- execute_workflow_list:
  Check all previous upgrade nodes for thumbnails to compare with


  Commit: aa0c5511f21260e7f55e0d254cb460748aed06d1
      https://github.com/VisTrails/VisTrails/commit/aa0c5511f21260e7f55e0d254cb460748aed06d1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py

  Log Message:
  -----------
  Vistrail Variables: Reverted "None" string check

core/vistrail/pipeline.py:
- ensure_vistrail_variables:
  Removed "None" check.
  It is now safe to use "None" as a string again, but
  existing workflows will pass validation even if the
  vistrail variable is missing, and cause an interpreter
  error.


  Commit: f917c9b6a4a772ceb6309f21f6ce1b2142e7113f
      https://github.com/VisTrails/VisTrails/commit/f917c9b6a4a772ceb6309f21f6ce1b2142e7113f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Adds a menu to save a single cell's content


  Commit: 50ce305465d258416686f51f1098b25b49407ba6
      https://github.com/VisTrails/VisTrails/commit/50ce305465d258416686f51f1098b25b49407ba6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M examples/terminator.vt

  Log Message:
  -----------
  terminator.vt: Clears log entry for upgrade


  Commit: 4bbd49e808344526023c0b0d46fcdf6ae5a92c3c
      https://github.com/VisTrails/VisTrails/commit/4bbd49e808344526023c0b0d46fcdf6ae5a92c3c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M examples/terminator.vt

  Log Message:
  -----------
  terminator.vt: Clears log entry for upgrade


  Commit: f4623e43b43e37cfaee61cf0d6d68fba0ee417fe
      https://github.com/VisTrails/VisTrails/commit/f4623e43b43e37cfaee61cf0d6d68fba0ee417fe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Revert "Check all upgrade nodes for thumbnails when comparing"

This reverts commit 21c6ce6cf9c46cf9456ab93beb3e31a75f1bf356.

Doesn't pass tests.


  Commit: 39a4cbfb1082012f155e4cf2c5b1658e936a3574
      https://github.com/VisTrails/VisTrails/commit/39a4cbfb1082012f155e4cf2c5b1658e936a3574
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-14 (Fri, 14 Mar 2014)

  Changed paths:
    M doc/usersguide/packages.rst
    A examples/mta.vt
    A examples/weather.vt
    M vistrails/core/debug.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/packagemanager.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/controller.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/parser.py
    M vistrails/db/services/action.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/index/__core.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/write_csv.py
    M vistrails/packages/tabledata/write/write_numpy.py
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Merge branch 'master' into 'dont-use-modules-as-data'


  Commit: 0e3a6fe03e926e811c4196597667596d5e134c91
      https://github.com/VisTrails/VisTrails/commit/0e3a6fe03e926e811c4196597667596d5e134c91
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Check all upgrade nodes for thumbnails when comparing

    core/vistrail/controller.py:
    - execute_workflow_list:
      Check all previous upgrade nodes for thumbnails to compare with


  Commit: 0b9c3341b8db3bad5548a271ffb52d13024bf31b
      https://github.com/VisTrails/VisTrails/commit/0b9c3341b8db3bad5548a271ffb52d13024bf31b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/core/cache/hasher.py

  Log Message:
  -----------
  Added annotations to module hash

core/cache/hasher.py:
- annotation_signature: *new
  Use key/value as annotation hash
- module_signature:
  Added annotations to hash

 Please enter the commit message for your changes. Lines starting


  Commit: d8ca797bf8b9d9826e36703e5d0f39e6138d80a2
      https://github.com/VisTrails/VisTrails/commit/d8ca797bf8b9d9826e36703e5d0f39e6138d80a2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py

  Log Message:
  -----------
  Fixes major ImageViewerCell bug

Introduced by fd799cd3.


  Commit: e8f3fadf31f7f30f9d245b2b34690b341daea216
      https://github.com/VisTrails/VisTrails/commit/e8f3fadf31f7f30f9d245b2b34690b341daea216
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/mac/make_app
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/Makefile
    M doc/usersguide/controlflow.rst
    M doc/usersguide/example_webservices.rst
    M doc/usersguide/figures/example_webservices/modules_list.png
    R doc/usersguide/figures/example_webservices/pythonsource.png
    R doc/usersguide/figures/example_webservices/version_tree_modules.png
    R doc/usersguide/figures/example_webservices/ws_preferences.png
    R doc/usersguide/figures/packages/after_enabled_package.png
    R doc/usersguide/figures/parameter_exploration/fig6_1.png
    R doc/usersguide/figures/parameter_exploration/fig6_2.png
    R doc/usersguide/figures/parameter_exploration/fig6_4.png
    R doc/usersguide/figures/parameter_exploration/fig6_5.png
    R doc/usersguide/figures/querying/query4.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_cell_control.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode_move.png
    R doc/usersguide/figures/version_tree/collapsed.png
    R doc/usersguide/figures/version_tree/creating_versions.png
    R doc/usersguide/figures/version_tree/expanded.png
    M doc/usersguide/packages.rst
    M doc/usersguide/parameter_exploration.rst
    M doc/usersguide/querying.rst
    M doc/usersguide/vistrails_server.rst
    A doc/usersguide/vtl/gcd.vtl
    A examples-internal/XSLTSample.xsl
    A examples-internal/afront.xml
    A examples-internal/corie.xml
    A examples-internal/mummy.xml
    R examples/XSLTSample.xsl
    R examples/afront.xml
    A examples/brain_vistrail.vt
    R examples/corie.xml
    A examples/gcd.vt
    R examples/gcd.xml
    A examples/hadoop-nodeinfo.vt
    A examples/mta.vt
    R examples/mummy.xml
    A examples/primes.vt
    R examples/primes.xml
    M examples/terminator.vt
    A examples/weather.vt
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/__init__.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/configuration.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/log/controller.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_descriptor.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/query/combined.py
    M vistrails/core/query/multiple.py
    M vistrails/core/query/version.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/system/__init__.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/parser.py
    M vistrails/db/services/action.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/modules/python_source_configure.py
    M vistrails/gui/modules/string_configure.py
    A vistrails/gui/modules/stringformat_configuration.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/query_view.py
    M vistrails/gui/requirements.py
    A vistrails/gui/resources/images/eye_closed.png
    M vistrails/gui/shell.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/index/__core.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/init.py
    A vistrails/packages/RemoteQ/README
    A vistrails/packages/RemoteQ/__init__.py
    A vistrails/packages/RemoteQ/base.py
    A vistrails/packages/RemoteQ/hdfs.py
    A vistrails/packages/RemoteQ/init.py
    A vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/mpl_artists.xml
    M vistrails/packages/matplotlib/mpl_artists_diff.xml
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/write_csv.py
    M vistrails/packages/tabledata/write/write_numpy.py
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'hash-annotations' into automatic-loops-streaming

Conflicts:
	vistrails/core/modules/basic_modules.py
	vistrails/core/modules/vistrails_module.py
	vistrails/core/vistrail/controller.py
	vistrails/gui/pipeline_view.py


  Commit: 24fcdee2cebb63f44da92cea56ab825df6b59006
      https://github.com/VisTrails/VisTrails/commit/24fcdee2cebb63f44da92cea56ab825df6b59006
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: f021d387737b81df81f27540db960a2d938d7ec5
      https://github.com/VisTrails/VisTrails/commit/f021d387737b81df81f27540db960a2d938d7ec5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/vtk/vtkcell.py

  Log Message:
  -----------
  Minor fixes to QVTKWidget


  Commit: 703657cdb9102dde8590bc6074ede5807640096d
      https://github.com/VisTrails/VisTrails/commit/703657cdb9102dde8590bc6074ede5807640096d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Fixes dumpToFile() only saving images as PNG


  Commit: 2770ee35a7687d1e8d6adb14b8f71f1f56bd85bf
      https://github.com/VisTrails/VisTrails/commit/2770ee35a7687d1e8d6adb14b8f71f1f56bd85bf
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py

  Log Message:
  -----------
  IECell now saves either HTML or images


  Commit: 3ead23ba31f07d1249a9365c289911d34d6d1d52
      https://github.com/VisTrails/VisTrails/commit/3ead23ba31f07d1249a9365c289911d34d6d1d52
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py

  Log Message:
  -----------
  ImageViewerCell now correctly saves images

It can save in multiple image formats, and through the default toolbar
button.


  Commit: b9830fce8c0a7efd5bd316ab10f77edd1fb1ab31
      https://github.com/VisTrails/VisTrails/commit/b9830fce8c0a7efd5bd316ab10f77edd1fb1ab31
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py

  Log Message:
  -----------
  RichTextCell now saves either image or HTML


  Commit: 1fc8b753950e61199d99ccea86ec0fcc18c5abc6
      https://github.com/VisTrails/VisTrails/commit/1fc8b753950e61199d99ccea86ec0fcc18c5abc6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/svg/svg.py

  Log Message:
  -----------
  SVGCell now saves either SVG or images


  Commit: 23a171f52279ea33e2bdf9755e1d8a145b933989
      https://github.com/VisTrails/VisTrails/commit/23a171f52279ea33e2bdf9755e1d8a145b933989
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/webview/webview.py

  Log Message:
  -----------
  WebViewCell now saves either HTML or images


  Commit: f37ac87212af7d63c53169de85a63cf57d255a22
      https://github.com/VisTrails/VisTrails/commit/f37ac87212af7d63c53169de85a63cf57d255a22
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/tabledata/viewer.py

  Log Message:
  -----------
  Implements TableCell's PDF and HTML outputs


  Commit: d28e8cacb8210e8cafb848889f8172e6a5fb8881
      https://github.com/VisTrails/VisTrails/commit/d28e8cacb8210e8cafb848889f8172e6a5fb8881
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-17 (Mon, 17 Mar 2014)

  Changed paths:
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  VTKCell exports through standard interface

(still PNG only)


  Commit: 7a8dcf902d0fcbfdf68ae555aed5c17ba4e099f4
      https://github.com/VisTrails/VisTrails/commit/7a8dcf902d0fcbfdf68ae555aed5c17ba4e099f4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-18 (Tue, 18 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Uses capture.png for "export cell" button


  Commit: 10d7989c9731038e244571f5308afb1a67aadf04
      https://github.com/VisTrails/VisTrails/commit/10d7989c9731038e244571f5308afb1a67aadf04
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-18 (Tue, 18 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/webview/webview.py

  Log Message:
  -----------
  Fixes exporting HTML from WebViewCell

Ticket: 836


  Commit: d5fee2bb97f52edcfc0fe05d6a0deb3018622525
      https://github.com/VisTrails/VisTrails/commit/d5fee2bb97f52edcfc0fe05d6a0deb3018622525
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-18 (Tue, 18 Mar 2014)

  Changed paths:
    M vistrails/core/packagemanager.py
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Captures expected test log entry


  Commit: 25b3623c5e04faaaba8597ac2d2274bee49324ea
      https://github.com/VisTrails/VisTrails/commit/25b3623c5e04faaaba8597ac2d2274bee49324ea
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-18 (Tue, 18 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Adds a save_formats attribute to cell widgets

The cell toolbar now uses the save_formats attribute from the cell
widget to show the export dialog. This means there is no need to create
a custom toolbar only to add export formats.


  Commit: 0d0653874faaea6497f47f6e3838917bd6175024
      https://github.com/VisTrails/VisTrails/commit/0d0653874faaea6497f47f6e3838917bd6175024
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Module.get_input_list: Do not typeCheck normal ports

core/modules/vistrails_module.py:
- get_input_list:
  Only do the typeChecking if depth>0


  Commit: 64e6049262df0aa838454a88c29a10994131cb3f
      https://github.com/VisTrails/VisTrails/commit/64e6049262df0aa838454a88c29a10994131cb3f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/core/console_mode.py

  Log Message:
  -----------
  Makes upgrade log entry INFO instead of WARNING


  Commit: ca633b116f9cd26a4755feedd5a18a077546ae4a
      https://github.com/VisTrails/VisTrails/commit/ca633b116f9cd26a4755feedd5a18a077546ae4a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/db/bin/generate.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/tests/__init__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Adds a source pragma to not test importing modules

This replaces the NotModule exception.


  Commit: b83d43b5a47671c55dff8466ab4547bf60f0b20b
      https://github.com/VisTrails/VisTrails/commit/b83d43b5a47671c55dff8466ab4547bf60f0b20b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/packages/tabledata/init.py

  Log Message:
  -----------
  Adds (empty) upgrades for tabledata port changes

507168e1 changed the types of some output ports, which requires an
upgrade (although there is nothing to do but recreate the connections).


  Commit: f12189eddb00f821173a7f2cc78dec1abb28efba
      https://github.com/VisTrails/VisTrails/commit/f12189eddb00f821173a7f2cc78dec1abb28efba
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Exports all formats through the same action


  Commit: 12fa3584b64893fc8cc2ed0ef2217cc52218a170
      https://github.com/VisTrails/VisTrails/commit/12fa3584b64893fc8cc2ed0ef2217cc52218a170
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/update.png

  Log Message:
  -----------
  Exported images from spreadsheet's cell_rc.py


  Commit: 468c10198a0b10315739f07b690be18cafce11f0
      https://github.com/VisTrails/VisTrails/commit/468c10198a0b10315739f07b690be18cafce11f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    A vistrails/packages/vtk/vtkcell.qrc
    M vistrails/packages/vtk/vtkcell_rc.py

  Log Message:
  -----------
  Recreates vtkcell.qrc


  Commit: 54e7fb612b6597047c06442cf9e1c6e5f2c11a57
      https://github.com/VisTrails/VisTrails/commit/54e7fb612b6597047c06442cf9e1c6e5f2c11a57
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/core/console_mode.py
    M vistrails/core/packagemanager.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/vtk/vtkcell.qrc
    M vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Merge branch 'master' into 'export-cells'


  Commit: 2db4d9a621f5e9450faafff9a71ca2501396e9d8
      https://github.com/VisTrails/VisTrails/commit/2db4d9a621f5e9450faafff9a71ca2501396e9d8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    R vistrails/gui/resources/images/camera.png
    M vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/images/camera.png
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell.qrc
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Moves camera.png to the spreadsheet package

Renames the file from gui/resources/images/ to spreadsheet/images/
Puts it in spreadsheet's cell_rc.py instead of VTK's vtkcell_rc.py.

Removes vtkcell_rc.py because it would now be empty.


  Commit: 87208d8c1666f723b5eb3a9a8aa01c06b11fa253
      https://github.com/VisTrails/VisTrails/commit/87208d8c1666f723b5eb3a9a8aa01c06b11fa253
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-19 (Wed, 19 Mar 2014)

  Changed paths:
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Fixes matplotlib's export formats


  Commit: ccfd0335ad3e189f37cb4c5a67509b400e4c4cc4
      https://github.com/VisTrails/VisTrails/commit/ccfd0335ad3e189f37cb4c5a67509b400e4c4cc4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png

  Log Message:
  -----------
  Exports images from spreadsheet's celltoolbar_rc


  Commit: 9207ce645923a2e9ac36e924d28ef2108a296d50
      https://github.com/VisTrails/VisTrails/commit/9207ce645923a2e9ac36e924d28ef2108a296d50
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/vtk/vtkcell_rc.py

  Log Message:
  -----------
  Exports images from spreadsheet_rc.py


  Commit: e922f15d60dc736c095b2c4808bc2903d0849905
      https://github.com/VisTrails/VisTrails/commit/e922f15d60dc736c095b2c4808bc2903d0849905
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png

  Log Message:
  -----------
  Exports images from colorconfig_rc.py


  Commit: 0d63a854c4222badcfa44582290cd266d7b968de
      https://github.com/VisTrails/VisTrails/commit/0d63a854c4222badcfa44582290cd266d7b968de
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py

  Log Message:
  -----------
  Exports images from imageviewer_rc.py


  Commit: 210a1041598812e4b56063c52264dea0e5eac012
      https://github.com/VisTrails/VisTrails/commit/210a1041598812e4b56063c52264dea0e5eac012
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py

  Log Message:
  -----------
  Merge branch 'master' into 'export-cells'

Conflicts:
	vistrails/packages/spreadsheet/cell_rc.py
	vistrails/packages/vtk/vtkcell_rc.py


  Commit: f0eb9c5e9571843be434a9fb8944cd5b0cbaa3aa
      https://github.com/VisTrails/VisTrails/commit/f0eb9c5e9571843be434a9fb8944cd5b0cbaa3aa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py

  Log Message:
  -----------
  Moves camera.png to celltoolbar_rc

Somehow I hadn't seen this file.


  Commit: 943291dea7f7f1c224f5b744d0727a92ffdf0570
      https://github.com/VisTrails/VisTrails/commit/943291dea7f7f1c224f5b744d0727a92ffdf0570
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Fixed mashup upgrade assigning wrong version id

core/vistrail/controller.py:
- process_package_exceptions:
  Use new_version when creating new mashup version

gui/mashups/mashup_app.py:
- test_load_mashup:
  Assert mashup is not None

Ticket: 835


  Commit: dada2c22e2e7c8b4cb6920d408ef346a7334f786
      https://github.com/VisTrails/VisTrails/commit/dada2c22e2e7c8b4cb6920d408ef346a7334f786
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-20 (Thu, 20 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 285ff54e95fd88742d7a8766699b3c416b1d2383
      https://github.com/VisTrails/VisTrails/commit/285ff54e95fd88742d7a8766699b3c416b1d2383
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/core/modules/paramexplore.py

  Log Message:
  -----------
  Float interpolator test failed randomly

core/modules/paramexplore.py:
- test_float: Reduced randomness to make ensure precision of result


  Commit: f1b214dc33ca12820e15250e69088dfa80fd99d0
      https://github.com/VisTrails/VisTrails/commit/f1b214dc33ca12820e15250e69088dfa80fd99d0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Fixed "invalid drawable" message in log

gui/mashups/mashup_app.py:
- initCells:
  Assign cell to widget before updating contents


  Commit: 240609ba559be5a2be7326ebc3a25d213aadab34
      https://github.com/VisTrails/VisTrails/commit/240609ba559be5a2be7326ebc3a25d213aadab34
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/tests/resources/spx_loop.vt

  Log Message:
  -----------
  Updated mashup app tests to valid size

tests/resources/spx_loop.vt: Resized mashups


  Commit: ccc84a9a013fb5e0bd2dbdc7f958578418646b92
      https://github.com/VisTrails/VisTrails/commit/ccc84a9a013fb5e0bd2dbdc7f958578418646b92
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/core/modules/paramexplore.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/tests/resources/spx_loop.vt

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 46456f61a0e9a321b22d6a8bd2bcda1c4bafa5a0
      https://github.com/VisTrails/VisTrails/commit/46456f61a0e9a321b22d6a8bd2bcda1c4bafa5a0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/core/api.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Adds extra_info param to gui VistrailController

To match core VistrailController.

Bugfix: API execution fails when using gui application


  Commit: 33caf6c2a51941ff5bb964555f31b46bebe10bdc
      https://github.com/VisTrails/VisTrails/commit/33caf6c2a51941ff5bb964555f31b46bebe10bdc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Adds an 'args' param to gui start_application()

Used when starting an application from a script.


  Commit: b662dffdee1696e16ff562db71f2e9327016b05a
      https://github.com/VisTrails/VisTrails/commit/b662dffdee1696e16ff562db71f2e9327016b05a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-21 (Fri, 21 Mar 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/application.py
    M vistrails/run.py

  Log Message:
  -----------
  Makes applications no longer default on sys.argv

You should now pass args=sys.argv if that is what you want; run.py does
that. This is because, when used as a library, we probably can't assume
that the command-line arguments are meant for VisTrails.


  Commit: 15f313c3991ca3c1e1c05dacf362dd7f8dc224c0
      https://github.com/VisTrails/VisTrails/commit/15f313c3991ca3c1e1c05dacf362dd7f8dc224c0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Fixes version node saturation computation

The code ditched the brush from the configuration, keeping only the
color.


  Commit: e8ecb965c87cea16fa9130b0face760c4c29eacb
      https://github.com/VisTrails/VisTrails/commit/e8ecb965c87cea16fa9130b0face760c4c29eacb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Adds __color__ action annotation


  Commit: fe220ad0e920d5531a96fc249f510958fc28a310
      https://github.com/VisTrails/VisTrails/commit/fe220ad0e920d5531a96fc249f510958fc28a310
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py

  Log Message:
  -----------
  Fixes to Graph

 - NameError in map_vertices()
 - Useless edge_cmp() reimplementing default behavior


  Commit: 7f723cc62df572e0c0a1c52646d697195be32307
      https://github.com/VisTrails/VisTrails/commit/7f723cc62df572e0c0a1c52646d697195be32307
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py

  Log Message:
  -----------
  Removes unused broken Graph#from_random()


  Commit: 56123d2c755ec83bf29d4736052d698cf48c1e96
      https://github.com/VisTrails/VisTrails/commit/56123d2c755ec83bf29d4736052d698cf48c1e96
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py

  Log Message:
  -----------
  Rewrites Graph#__str__()


  Commit: e1d5e67e0d9635f62cb92e79687356d1aa0ffd9c
      https://github.com/VisTrails/VisTrails/commit/e1d5e67e0d9635f62cb92e79687356d1aa0ffd9c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Adds a "Version tree to Graphviz" export option


  Commit: cc9b458ef9c9db48d672aff3e0c5f1b1190df549
      https://github.com/VisTrails/VisTrails/commit/cc9b458ef9c9db48d672aff3e0c5f1b1190df549
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Uses configuration for fixed saturation

Instead of encoding whether to alter the saturation of custom colors
with the rank in addition to the color, only store the color and use the
configuration variable fixedCustomVersionColorSaturation to choose
whether to alter the saturation with the rank (False, default) or not
(True).


  Commit: e7e12c4839c9af59b1fa2535b8e15aa1010d3871
      https://github.com/VisTrails/VisTrails/commit/e7e12c4839c9af59b1fa2535b8e15aa1010d3871
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/version_prop.py

  Log Message:
  -----------
  Version color selection from QVersionProp


  Commit: 2d45687f491aca7384a6ae545242e58ad570d2f7
      https://github.com/VisTrails/VisTrails/commit/2d45687f491aca7384a6ae545242e58ad570d2f7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Fixes custom color assignation


  Commit: b71c8f88ece8890e4decffc4401b9bdb462d48b6
      https://github.com/VisTrails/VisTrails/commit/b71c8f88ece8890e4decffc4401b9bdb462d48b6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-24 (Mon, 24 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Displays useful node descriptions


  Commit: 0413f535135dd33679f5a8fcd406343a93b19737
      https://github.com/VisTrails/VisTrails/commit/0413f535135dd33679f5a8fcd406343a93b19737
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml

  Log Message:
  -----------
  Added ModuleControlParameter type

This type will contain module-specific user-settable control-flow information
such as whether to cache the module and how to combine input lists.
It will be part of the module hash.
It contains a schema change.

core/vistrail/controller.py:
Added access to control parameters

core/vistrail/module.py:
Added control parameter to Module class

core/vistrail/operation.py:
Added controlParameter as valid operation object

core/vistrail/pipeline.py:
Added control parameter to test

db/specs/all.xml:
Added controlParameter and linked to module/add/change classes

Auto-generated:
db/versions/v1_0_3/specs/all.xml
db/versions/v1_0_3/domain/auto_gen.py
db/versions/v1_0_3/persistence/sql/auto_gen.py
db/versions/v1_0_3/persistence/xml/auto_gen.py
db/versions/v1_0_3/schemas/sql/vistrails.sql
db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
db/versions/v1_0_3/schemas/xml/vistrail.xsd
db/versions/v1_0_3/schemas/xml/workflow.xsd


  Commit: 657acb72e222db2c76509acdb0a27c2aecdfb847
      https://github.com/VisTrails/VisTrails/commit/657acb72e222db2c76509acdb0a27c2aecdfb847
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/cache/hasher.py

  Log Message:
  -----------
  Merge branch 'hash-annotations' into control-parameters


  Commit: 50c2ee162ba91a5d9f604d082a6a36b62dbfd729
      https://github.com/VisTrails/VisTrails/commit/50c2ee162ba91a5d9f604d082a6a36b62dbfd729
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/cache/hasher.py

  Log Message:
  -----------
  Replaces annotation with control parameter in core/cache/hasher.py


  Commit: 55f13a30523e0e897a2ade363277e0dc8ef50e85
      https://github.com/VisTrails/VisTrails/commit/55f13a30523e0e897a2ade363277e0dc8ef50e85
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/cache/hasher.py
    M vistrails/core/console_mode.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/packagemanager.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/gui/mashups/mashup_app.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/vtk/vtkcell.qrc
    M vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/tests/resources/spx_loop.vt
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Merge branch 'control-parameters' into automatic-loops-streaming


  Commit: ce2c9865b09e25fe9e65155c1fe4e5eda10b0693
      https://github.com/VisTrails/VisTrails/commit/ce2c9865b09e25fe9e65155c1fe4e5eda10b0693
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/group.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml

  Log Message:
  -----------
  Added control parameters to Groups and Subworkflows

They need to have the same attributes as Modules


  Commit: 365979f7ee3093374d12f014556ba665bdb34ea5
      https://github.com/VisTrails/VisTrails/commit/365979f7ee3093374d12f014556ba665bdb34ea5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/group.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml

  Log Message:
  -----------
  Merge branch 'control-parameters' into automatic-loops-streaming


  Commit: fd4ea9c8f9b76cf0d3378a708c53ad2aac9ea955
      https://github.com/VisTrails/VisTrails/commit/fd4ea9c8f9b76cf0d3378a708c53ad2aac9ea955
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M examples/list-handling.vt
    M vistrails/core/modules/vistrails_module.py
    M vistrails/gui/module_iteration.py
    M vistrails/tests/resources/test-list-custom.vt

  Log Message:
  -----------
  automatic loops: Use control parameters and not annotations

Now cache is correctly invalidated when control parameters change,
and annotations no longer invalidate the cache.

Use control parameters and not annotations for looping options:
core/modules/vistrails_module.py
gui/module_iteration.py

Updated examples to use control parameters:
examples/list-handling.vt
tests/resources/test-list-custom.vt


  Commit: 9fb8e53e50921197f07b01a3a883ce4be8d2f240
      https://github.com/VisTrails/VisTrails/commit/9fb8e53e50921197f07b01a3a883ce4be8d2f240
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-25 (Tue, 25 Mar 2014)

  Changed paths:
    M vistrails/run.py

  Log Message:
  -----------
  Fixes typo


  Commit: f3642c3b9a45c5bbdb82dd4f461eeb3293d1dcc8
      https://github.com/VisTrails/VisTrails/commit/f3642c3b9a45c5bbdb82dd4f461eeb3293d1dcc8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/vistrail.py

  Log Message:
  -----------
  Added control parameters to version tree label names

core/vistrail/vistrail.py
= get_description: Handle controlParameter op type


  Commit: 6d12d016fd94f41fb44e9fcfbbc55532e52375e0
      https://github.com/VisTrails/VisTrails/commit/6d12d016fd94f41fb44e9fcfbbc55532e52375e0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/vistrail/vistrail.py

  Log Message:
  -----------
  Merge branch 'control-parameters' into automatic-loops-streaming


  Commit: 5e95af1f7b0e1137128cd3018cb42f41f82f22fe
      https://github.com/VisTrails/VisTrails/commit/5e95af1f7b0e1137128cd3018cb42f41f82f22fe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Merge branches 'custom-colors' and 'export-versiontree-dot'


  Commit: 792611a1413c062e055ecad5aaa8e294df92551f
      https://github.com/VisTrails/VisTrails/commit/792611a1413c062e055ecad5aaa8e294df92551f
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Reset upgrade config settings after test

test_external_upgrade changes the updateDelay setting.  This causes
issues with later tests.  Note that such settings *should* be tested,
but this addresses the immediate problem.

Ticket: 837


  Commit: 09a0aa90bb977b3bb54d48cb95d2a66b948657ee
      https://github.com/VisTrails/VisTrails/commit/09a0aa90bb977b3bb54d48cb95d2a66b948657ee
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Fix major issue with upgrade logic

The new upgrade logic is supposed to update modules to new module
types. It failed in two ways:

 1. It used the old module type to construct a new module.
 2. It didn't properly recurse.

Both issues are now fixed.


  Commit: 234be47280329dc0bb634f773aa921963e22ccb9
      https://github.com/VisTrails/VisTrails/commit/234be47280329dc0bb634f773aa921963e22ccb9
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-03-26 (Wed, 26 Mar 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Revert add of flush_delayed_actions to open_vistrail

A change in 57baa88 added flush_delayed_actions to the open call. This
violates the intent of the upgradeDelay=True; any issues with mashups
*should not* be fixed globally! I have verified that mashup tests pass
after this change.


  Commit: 64a775988587c927aaa3dab6eb02bed88b68f7e8
      https://github.com/VisTrails/VisTrails/commit/64a775988587c927aaa3dab6eb02bed88b68f7e8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-28 (Fri, 28 Mar 2014)

  Changed paths:
    M vistrails/core/db/io.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/vistrail.py
    M vistrails/gui/vis_diff.py

  Log Message:
  -----------
  Added annotations and control parameters to visual diff

Handle annotations and control parameters in the visual diff computations.
We could consider making the annotations optional, since it is a non-functional
part of the module.

core/db/io.py:
Forward new diff parameters

core/vistrail/vistrail.py:
Forward new visual diff parameters
Also fixed and added test for returning connections with diff

db/services/vistrail.py:
Added cparams and annotations when computing the diff

gui/vis_diff.py:
Added tables for cparams and annotations


  Commit: 7ef604359b6da396a70d7e60957a5245cc9d7aa1
      https://github.com/VisTrails/VisTrails/commit/7ef604359b6da396a70d7e60957a5245cc9d7aa1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-03-28 (Fri, 28 Mar 2014)

  Changed paths:
    M vistrails/core/db/io.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/vistrail.py
    M vistrails/gui/vis_diff.py

  Log Message:
  -----------
  Merge branch 'control-parameters' into automatic-loops-streaming


  Commit: 66d77ca06d103d638333d537bd0b7bc6dd2824ea
      https://github.com/VisTrails/VisTrails/commit/66d77ca06d103d638333d537bd0b7bc6dd2824ea
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-01 (Tue, 01 Apr 2014)

  Changed paths:
    M vistrails/core/console_mode.py

  Log Message:
  -----------
  finishWorkflow not called when execution raises Exception

core/console_mode.py:
- run_and_get_results:
  Make sure finishWorkflow is always called


  Commit: f202204716dd543e1673915cfd1118bec71847a0
      https://github.com/VisTrails/VisTrails/commit/f202204716dd543e1673915cfd1118bec71847a0
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-03 (Thu, 03 Apr 2014)

  Changed paths:
    M contrib/NumSciPy/ArrayAccess.py
    M contrib/NumSciPy/ArrayConvert.py
    M contrib/NumSciPy/ArrayIO.py
    M contrib/NumSciPy/ArrayInterpolate.py
    M contrib/NumSciPy/ArrayOperations.py
    M contrib/NumSciPy/ArrayPlot.py
    M contrib/NumSciPy/ArrayUtilities.py
    M contrib/NumSciPy/DSP.py
    M contrib/NumSciPy/EnsembleOrdering.py
    M contrib/NumSciPy/Filters.py
    M contrib/NumSciPy/Imaging.py
    M contrib/NumSciPy/Matrix.py
    M contrib/NumSciPy/MatrixUtilities.py
    M contrib/NumSciPy/Stockwell.py
    M contrib/ParaView/PVBase.py
    M contrib/ParaView/init.py
    M contrib/ParaView/pvcell.py
    M contrib/SCIRun/__init__.py
    M contrib/SCIRun/cm2viewcell.py
    M contrib/SCIRun/viewercell.py
    M contrib/SciPy/DSP.py
    M contrib/SciPy/Filters.py
    M contrib/SciPy/MatlabReader.py
    M contrib/SciPy/MatrixConvert.py
    M contrib/SciPy/MatrixInfo.py
    M contrib/SciPy/MatrixOperations.py
    M contrib/TetGenBridge/CreateTestSurf.py
    M contrib/TetGenBridge/__init__.py
    M contrib/cdat/__init__.py
    M contrib/cdat/cdat_cell.py
    M contrib/cdat/quickplot.py
    M contrib/cdat/scripts/cdat_domain.py
    M contrib/cdat/scripts/gen_init.py
    M contrib/cdat/scripts/old_cdat_init.py
    M contrib/edu_utah_sci_cscheid_macet/__init__.py
    M contrib/edu_utah_sci_cscheid_metro/__init__.py
    M contrib/edu_utah_sci_cscheid_teem/__init__.py
    M contrib/edu_utah_sci_eranders_proteindatabank/PDB.py
    M contrib/edu_utah_sci_vgc_afront/__init__.py
    M contrib/itk/FeatureExtractionFilters.py
    M contrib/itk/GradientFilters.py
    M contrib/itk/ITK.py
    M contrib/itk/Image.py
    M contrib/itk/ImageReader.py
    M contrib/itk/IntensityFilters.py
    M contrib/itk/NeighborhoodFilters.py
    M contrib/itk/PixelType.py
    M contrib/itk/SegmentationFilters.py
    M contrib/itk/SelectionFilters.py
    M contrib/itk/SmoothingFilters.py
    M contrib/itk/ThresholdFilters.py
    M contrib/itk/filter_generator.py
    M contrib/meshutils.py
    M contrib/mobile/__init__.py
    M contrib/pc3/__init__.py
    M contrib/poissonrecon.py
    M contrib/provenance/__init__.py
    M contrib/provenance2/__init__.py
    M contrib/sahm/SahmOutputViewer.py
    M contrib/sahm/SahmSpatialOutputViewer.py
    M contrib/sahm/init.py
    M contrib/sahm/utils.py
    M contrib/stem/init.py
    M contrib/titan/base_module.py
    M contrib/titan/init.py
    M contrib/titan/inspectors.py
    M contrib/titan/offscreen.py
    M contrib/titan/tf_widget.py
    M contrib/titan/vtkcell.py
    M contrib/titan/vtkhandler.py
    M contrib/titan/vtkviewcell.py
    M contrib/trimesh2.py
    M contrib/vtksnl/base_module.py
    M contrib/vtksnl/init.py
    M contrib/vtksnl/inspectors.py
    M contrib/vtksnl/offscreen.py
    M contrib/vtksnl/tf_widget.py
    M contrib/vtksnl/vtkcell.py
    M contrib/vtksnl/vtkhandler.py
    M contrib/vtksnl/vtkviewcell.py
    M dist/common/splash/splash.svg
    M dist/mac/Input/LICENSE
    M dist/mac/Input/README
    M dist/mac/fix_itk_libraries.py
    M dist/mac/fix_qtplugin_libs.py
    M dist/mac/make_app
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/ubuntu/create_debian_pkg.sh
    M dist/windows/Input/download_usersguide.py
    M dist/windows/Input/license.txt
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/Input/runvistrails.py
    M dist/windows/Input/startup.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/Makefile
    M doc/usersguide/_static/mystyle.css
    A doc/usersguide/api_documentation.rst
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/developer.rst
    M doc/usersguide/example.rst
    M doc/usersguide/example_webservices.rst
    M doc/usersguide/figures/example_webservices/modules_list.png
    R doc/usersguide/figures/example_webservices/pythonsource.png
    R doc/usersguide/figures/example_webservices/version_tree_modules.png
    R doc/usersguide/figures/example_webservices/ws_preferences.png
    R doc/usersguide/figures/packages/CustomColorShape1.png
    R doc/usersguide/figures/packages/CustomColorShape2.png
    R doc/usersguide/figures/packages/CustomColorShape3.png
    R doc/usersguide/figures/packages/after_enabled_package.png
    A doc/usersguide/figures/packages/fancy_module1.png
    A doc/usersguide/figures/packages/fancy_module2.png
    A doc/usersguide/figures/packages/fancy_module3.png
    A doc/usersguide/figures/packages/fancy_ports.png
    R doc/usersguide/figures/parameter_exploration/fig6_1.png
    R doc/usersguide/figures/parameter_exploration/fig6_2.png
    R doc/usersguide/figures/parameter_exploration/fig6_4.png
    R doc/usersguide/figures/parameter_exploration/fig6_5.png
    R doc/usersguide/figures/querying/query4.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_cell_control.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode.png
    R doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode_move.png
    A doc/usersguide/figures/tabledata/pipeline.png
    A doc/usersguide/figures/tabledata/results.png
    R doc/usersguide/figures/version_tree/collapsed.png
    R doc/usersguide/figures/version_tree/creating_versions.png
    R doc/usersguide/figures/version_tree/expanded.png
    M doc/usersguide/packages.rst
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    M doc/usersguide/pythoncalc.rst
    A doc/usersguide/pythoncalc_file1.rst
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    A doc/usersguide/tabledata.rst
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    A examples-internal/corie.xml
    A examples-internal/mummy.xml
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    A examples/bikes.vt
    A examples/brain_vistrail.vt
    R examples/corie.xml
    A examples/gcd.vt
    R examples/gcd.xml
    A examples/hadoop-nodeinfo.vt
    A examples/mta.vt
    R examples/mummy.xml
    A examples/primes.vt
    R examples/primes.xml
    M examples/terminator.vt
    M examples/triangle_area.vt
    A examples/weather.vt
    M extensions/http/config.php.sample
    M extensions/http/get_db_vistrail_list.php
    M extensions/http/get_vt_xml.php
    M extensions/http/get_wf_pdf.php
    M extensions/http/get_wf_xml.php
    M extensions/http/run_vistrails.php
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    M extensions/latex/example.tex
    M extensions/latex/head.tex
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    M vistrails/db/versions/v0_7_0/specs/add.xml
    M vistrails/db/versions/v0_7_0/specs/annotation.xml
    M vistrails/db/versions/v0_7_0/specs/change.xml
    M vistrails/db/versions/v0_7_0/specs/connection.xml
    M vistrails/db/versions/v0_7_0/specs/delete.xml
    M vistrails/db/versions/v0_7_0/specs/function.xml
    M vistrails/db/versions/v0_7_0/specs/location.xml
    M vistrails/db/versions/v0_7_0/specs/log.xml
    M vistrails/db/versions/v0_7_0/specs/machine.xml
    M vistrails/db/versions/v0_7_0/specs/module.xml
    M vistrails/db/versions/v0_7_0/specs/module_exec.xml
    M vistrails/db/versions/v0_7_0/specs/other.xml
    M vistrails/db/versions/v0_7_0/specs/parameter.xml
    M vistrails/db/versions/v0_7_0/specs/port.xml
    M vistrails/db/versions/v0_7_0/specs/portSpec.xml
    M vistrails/db/versions/v0_7_0/specs/tag.xml
    M vistrails/db/versions/v0_7_0/specs/vistrail.xml
    M vistrails/db/versions/v0_7_0/specs/workflow.xml
    M vistrails/db/versions/v0_7_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_7_0/translate/__init__.py
    M vistrails/db/versions/v0_7_0/translate/v0_6_0.py
    M vistrails/db/versions/v0_8_0/__init__.py
    M vistrails/db/versions/v0_8_0/domain/__init__.py
    M vistrails/db/versions/v0_8_0/domain/abstraction.py
    M vistrails/db/versions/v0_8_0/domain/auto_gen.py
    M vistrails/db/versions/v0_8_0/domain/id_scope.py
    M vistrails/db/versions/v0_8_0/domain/vistrail.py
    M vistrails/db/versions/v0_8_0/domain/workflow.py
    M vistrails/db/versions/v0_8_0/persistence/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_8_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_8_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_8_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_8_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_8_0/specs/abstraction.xml
    M vistrails/db/versions/v0_8_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_8_0/specs/action.xml
    M vistrails/db/versions/v0_8_0/specs/add.xml
    M vistrails/db/versions/v0_8_0/specs/annotation.xml
    M vistrails/db/versions/v0_8_0/specs/change.xml
    M vistrails/db/versions/v0_8_0/specs/connection.xml
    M vistrails/db/versions/v0_8_0/specs/delete.xml
    M vistrails/db/versions/v0_8_0/specs/function.xml
    M vistrails/db/versions/v0_8_0/specs/location.xml
    M vistrails/db/versions/v0_8_0/specs/log.xml
    M vistrails/db/versions/v0_8_0/specs/machine.xml
    M vistrails/db/versions/v0_8_0/specs/module.xml
    M vistrails/db/versions/v0_8_0/specs/module_exec.xml
    M vistrails/db/versions/v0_8_0/specs/other.xml
    M vistrails/db/versions/v0_8_0/specs/parameter.xml
    M vistrails/db/versions/v0_8_0/specs/port.xml
    M vistrails/db/versions/v0_8_0/specs/portSpec.xml
    M vistrails/db/versions/v0_8_0/specs/tag.xml
    M vistrails/db/versions/v0_8_0/specs/vistrail.xml
    M vistrails/db/versions/v0_8_0/specs/workflow.xml
    M vistrails/db/versions/v0_8_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_8_0/translate/__init__.py
    M vistrails/db/versions/v0_8_0/translate/v0_7_0.py
    M vistrails/db/versions/v0_8_1/__init__.py
    M vistrails/db/versions/v0_8_1/domain/__init__.py
    M vistrails/db/versions/v0_8_1/persistence/__init__.py
    M vistrails/db/versions/v0_8_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_8_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_8_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_8_1/specs/abstraction.xml
    M vistrails/db/versions/v0_8_1/specs/abstractionRef.xml
    M vistrails/db/versions/v0_8_1/specs/action.xml
    M vistrails/db/versions/v0_8_1/specs/add.xml
    M vistrails/db/versions/v0_8_1/specs/annotation.xml
    M vistrails/db/versions/v0_8_1/specs/change.xml
    M vistrails/db/versions/v0_8_1/specs/connection.xml
    M vistrails/db/versions/v0_8_1/specs/delete.xml
    M vistrails/db/versions/v0_8_1/specs/function.xml
    M vistrails/db/versions/v0_8_1/specs/location.xml
    M vistrails/db/versions/v0_8_1/specs/log.xml
    M vistrails/db/versions/v0_8_1/specs/machine.xml
    M vistrails/db/versions/v0_8_1/specs/module.xml
    M vistrails/db/versions/v0_8_1/specs/module_exec.xml
    M vistrails/db/versions/v0_8_1/specs/other.xml
    M vistrails/db/versions/v0_8_1/specs/parameter.xml
    M vistrails/db/versions/v0_8_1/specs/port.xml
    M vistrails/db/versions/v0_8_1/specs/portSpec.xml
    M vistrails/db/versions/v0_8_1/specs/tag.xml
    M vistrails/db/versions/v0_8_1/specs/vistrail.xml
    M vistrails/db/versions/v0_8_1/specs/workflow.xml
    M vistrails/db/versions/v0_8_1/specs/workflow_exec.xml
    M vistrails/db/versions/v0_8_1/translate/__init__.py
    M vistrails/db/versions/v0_8_1/translate/v0_8_0.py
    M vistrails/db/versions/v0_9_0/__init__.py
    M vistrails/db/versions/v0_9_0/domain/__init__.py
    M vistrails/db/versions/v0_9_0/domain/abstraction.py
    M vistrails/db/versions/v0_9_0/domain/auto_gen.py
    M vistrails/db/versions/v0_9_0/domain/id_scope.py
    M vistrails/db/versions/v0_9_0/domain/log.py
    M vistrails/db/versions/v0_9_0/domain/vistrail.py
    M vistrails/db/versions/v0_9_0/domain/workflow.py
    M vistrails/db/versions/v0_9_0/persistence/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_0/specs/abstraction.xml
    M vistrails/db/versions/v0_9_0/specs/abstractionRef.xml
    M vistrails/db/versions/v0_9_0/specs/action.xml
    M vistrails/db/versions/v0_9_0/specs/add.xml
    M vistrails/db/versions/v0_9_0/specs/annotation.xml
    M vistrails/db/versions/v0_9_0/specs/change.xml
    M vistrails/db/versions/v0_9_0/specs/connection.xml
    M vistrails/db/versions/v0_9_0/specs/delete.xml
    M vistrails/db/versions/v0_9_0/specs/function.xml
    M vistrails/db/versions/v0_9_0/specs/location.xml
    M vistrails/db/versions/v0_9_0/specs/log.xml
    M vistrails/db/versions/v0_9_0/specs/machine.xml
    M vistrails/db/versions/v0_9_0/specs/module.xml
    M vistrails/db/versions/v0_9_0/specs/module_exec.xml
    M vistrails/db/versions/v0_9_0/specs/other.xml
    M vistrails/db/versions/v0_9_0/specs/parameter.xml
    M vistrails/db/versions/v0_9_0/specs/port.xml
    M vistrails/db/versions/v0_9_0/specs/portSpec.xml
    M vistrails/db/versions/v0_9_0/specs/tag.xml
    M vistrails/db/versions/v0_9_0/specs/vistrail.xml
    M vistrails/db/versions/v0_9_0/specs/workflow.xml
    M vistrails/db/versions/v0_9_0/specs/workflow_exec.xml
    M vistrails/db/versions/v0_9_0/translate/__init__.py
    M vistrails/db/versions/v0_9_0/translate/v0_8_1.py
    M vistrails/db/versions/v0_9_1/__init__.py
    M vistrails/db/versions/v0_9_1/domain/__init__.py
    M vistrails/db/versions/v0_9_1/domain/abstraction.py
    M vistrails/db/versions/v0_9_1/domain/auto_gen.py
    M vistrails/db/versions/v0_9_1/domain/id_scope.py
    M vistrails/db/versions/v0_9_1/domain/log.py
    M vistrails/db/versions/v0_9_1/domain/vistrail.py
    M vistrails/db/versions/v0_9_1/domain/workflow.py
    M vistrails/db/versions/v0_9_1/persistence/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_1/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_1/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v0_9_1/specs/abstraction.xml
    M vistrails/db/versions/v0_9_1/specs/abstractionRef.xml
    M vistrails/db/versions/v0_9_1/specs/action.xml
    M vistrails/db/versions/v0_9_1/specs/add.xml
    M vistrails/db/versions/v0_9_1/specs/annotation.xml
    M vistrails/db/versions/v0_9_1/specs/change.xml
    M vistrails/db/versions/v0_9_1/specs/connection.xml
    M vistrails/db/versions/v0_9_1/specs/delete.xml
    M vistrails/db/versions/v0_9_1/specs/function.xml
    M vistrails/db/versions/v0_9_1/specs/group.xml
    M vistrails/db/versions/v0_9_1/specs/location.xml
    M vistrails/db/versions/v0_9_1/specs/log.xml
    M vistrails/db/versions/v0_9_1/specs/machine.xml
    M vistrails/db/versions/v0_9_1/specs/module.xml
    M vistrails/db/versions/v0_9_1/specs/module_exec.xml
    M vistrails/db/versions/v0_9_1/specs/other.xml
    M vistrails/db/versions/v0_9_1/specs/parameter.xml
    M vistrails/db/versions/v0_9_1/specs/port.xml
    M vistrails/db/versions/v0_9_1/specs/portSpec.xml
    M vistrails/db/versions/v0_9_1/specs/tag.xml
    M vistrails/db/versions/v0_9_1/specs/vistrail.xml
    M vistrails/db/versions/v0_9_1/specs/workflow.xml
    M vistrails/db/versions/v0_9_1/specs/workflow_exec.xml
    M vistrails/db/versions/v0_9_1/translate/__init__.py
    M vistrails/db/versions/v0_9_1/translate/v0_9_0.py
    M vistrails/db/versions/v0_9_2/__init__.py
    M vistrails/db/versions/v0_9_2/domain/__init__.py
    M vistrails/db/versions/v0_9_2/persistence/__init__.py
    M vistrails/db/versions/v0_9_2/translate/__init__.py
    M vistrails/db/versions/v0_9_2/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/__init__.py
    M vistrails/db/versions/v0_9_3/domain/__init__.py
    M vistrails/db/versions/v0_9_3/domain/abstraction.py
    M vistrails/db/versions/v0_9_3/domain/auto_gen.py
    M vistrails/db/versions/v0_9_3/domain/id_scope.py
    M vistrails/db/versions/v0_9_3/domain/log.py
    M vistrails/db/versions/v0_9_3/domain/vistrail.py
    M vistrails/db/versions/v0_9_3/domain/workflow.py
    M vistrails/db/versions/v0_9_3/persistence/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_3/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_3/specs/all.xml
    M vistrails/db/versions/v0_9_3/translate/__init__.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_2.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_4.py
    M vistrails/db/versions/v0_9_4/__init__.py
    M vistrails/db/versions/v0_9_4/domain/__init__.py
    M vistrails/db/versions/v0_9_4/domain/auto_gen.py
    M vistrails/db/versions/v0_9_4/domain/id_scope.py
    M vistrails/db/versions/v0_9_4/domain/log.py
    M vistrails/db/versions/v0_9_4/domain/vistrail.py
    M vistrails/db/versions/v0_9_4/domain/workflow.py
    M vistrails/db/versions/v0_9_4/persistence/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_4/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_4/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_4/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_4/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_4/specs/all.xml
    M vistrails/db/versions/v0_9_4/translate/__init__.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_3.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_5.py
    M vistrails/db/versions/v0_9_5/__init__.py
    M vistrails/db/versions/v0_9_5/domain/__init__.py
    M vistrails/db/versions/v0_9_5/domain/auto_gen.py
    M vistrails/db/versions/v0_9_5/domain/id_scope.py
    M vistrails/db/versions/v0_9_5/domain/log.py
    M vistrails/db/versions/v0_9_5/domain/registry.py
    M vistrails/db/versions/v0_9_5/domain/vistrail.py
    M vistrails/db/versions/v0_9_5/domain/workflow.py
    M vistrails/db/versions/v0_9_5/persistence/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_5/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_5/schemas/sql/vistrails.sql
    M vistrails/db/versions/v0_9_5/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v0_9_5/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v0_9_5/specs/all.xml
    M vistrails/db/versions/v0_9_5/translate/__init__.py
    M vistrails/db/versions/v0_9_5/translate/v0_9_4.py
    M vistrails/db/versions/v0_9_5/translate/v1_0_0.py
    M vistrails/db/versions/v1_0_0/__init__.py
    M vistrails/db/versions/v1_0_0/domain/__init__.py
    M vistrails/db/versions/v1_0_0/domain/auto_gen.py
    M vistrails/db/versions/v1_0_0/domain/id_scope.py
    M vistrails/db/versions/v1_0_0/domain/log.py
    M vistrails/db/versions/v1_0_0/domain/registry.py
    M vistrails/db/versions/v1_0_0/domain/vistrail.py
    M vistrails/db/versions/v1_0_0/domain/workflow.py
    M vistrails/db/versions/v1_0_0/persistence/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_0/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_0/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_0/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_0/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_0/specs/all.xml
    M vistrails/db/versions/v1_0_0/translate/__init__.py
    M vistrails/db/versions/v1_0_0/translate/v0_9_5.py
    M vistrails/db/versions/v1_0_0/translate/v1_0_1.py
    M vistrails/db/versions/v1_0_1/__init__.py
    M vistrails/db/versions/v1_0_1/domain/__init__.py
    M vistrails/db/versions/v1_0_1/domain/auto_gen.py
    M vistrails/db/versions/v1_0_1/domain/id_scope.py
    M vistrails/db/versions/v1_0_1/domain/log.py
    M vistrails/db/versions/v1_0_1/domain/registry.py
    M vistrails/db/versions/v1_0_1/domain/vistrail.py
    M vistrails/db/versions/v1_0_1/domain/workflow.py
    M vistrails/db/versions/v1_0_1/persistence/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_1/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_1/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_1/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_1/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_1/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_1/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_1/specs/all.xml
    M vistrails/db/versions/v1_0_1/translate/__init__.py
    M vistrails/db/versions/v1_0_1/translate/v1_0_0.py
    M vistrails/db/versions/v1_0_1/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_2/__init__.py
    M vistrails/db/versions/v1_0_2/domain/__init__.py
    M vistrails/db/versions/v1_0_2/domain/auto_gen.py
    M vistrails/db/versions/v1_0_2/domain/id_scope.py
    M vistrails/db/versions/v1_0_2/domain/log.py
    M vistrails/db/versions/v1_0_2/domain/registry.py
    M vistrails/db/versions/v1_0_2/domain/vistrail.py
    M vistrails/db/versions/v1_0_2/domain/workflow.py
    M vistrails/db/versions/v1_0_2/persistence/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_2/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_2/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_2/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_2/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_2/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_2/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_2/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_2/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_2/specs/all.xml
    M vistrails/db/versions/v1_0_2/translate/__init__.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_1.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_3.py
    M vistrails/db/versions/v1_0_3/__init__.py
    M vistrails/db/versions/v1_0_3/domain/__init__.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/domain/id_scope.py
    M vistrails/db/versions/v1_0_3/domain/log.py
    M vistrails/db/versions/v1_0_3/domain/registry.py
    M vistrails/db/versions/v1_0_3/domain/vistrail.py
    M vistrails/db/versions/v1_0_3/domain/workflow.py
    M vistrails/db/versions/v1_0_3/persistence/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_3/persistence/xml/__init__.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/vtlink.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/base_view.py
    M vistrails/gui/bundles/__init__.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/__init__.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debug.py
    M vistrails/gui/debugger.py
    M vistrails/gui/extras/__init__.py
    M vistrails/gui/extras/core/__init__.py
    M vistrails/gui/extras/core/db/__init__.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/__init__.py
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/alias_list.py
    M vistrails/gui/mashups/alias_parameter_view.py
    M vistrails/gui/mashups/controller.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/mashups/mashups_inspector.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/module_annotation.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/__init__.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/module_configure.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/modules/python_source_configure.py
    M vistrails/gui/modules/query_configuration.py
    M vistrails/gui/modules/resources/__init__.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/string_configure.py
    A vistrails/gui/modules/stringformat_configuration.py
    M vistrails/gui/modules/tuple_configuration.py
    A vistrails/gui/modules/utils.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/__init__.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/pe_view.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/port_documentation.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    M vistrails/gui/repository.py
    M vistrails/gui/requirements.py
    M vistrails/gui/resources/__init__.py
    A vistrails/gui/resources/images/eye_closed.png
    M vistrails/gui/resources/macroicons_rc.py
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_variables.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_palette.py
    M vistrails/gui/vistrails_window.py
    M vistrails/index/__core.py
    M vistrails/index/__init__.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/__init__.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/__init__.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/ImageMagick/__init__.py
    M vistrails/packages/ImageMagick/init.py
    M vistrails/packages/JobSubmission/init.py
    M vistrails/packages/JobSubmission/machine.py
    A vistrails/packages/RemoteQ/README
    A vistrails/packages/RemoteQ/__init__.py
    A vistrails/packages/RemoteQ/base.py
    A vistrails/packages/RemoteQ/hdfs.py
    A vistrails/packages/RemoteQ/init.py
    A vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/__init__.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/__init__.py
    M vistrails/packages/analytics/__init__.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/conditional.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/controlflow/order.py
    M vistrails/packages/controlflow/products.py
    M vistrails/packages/controlflow/utils.py
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/mixins.py
    M vistrails/packages/matplotlib/mpl_artists.xml
    M vistrails/packages/matplotlib/mpl_artists_diff.xml
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/mpl_plots_raw.xml
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/__init__.py
    M vistrails/packages/persistence/compute_hash.py
    M vistrails/packages/persistence/db_utils.py
    M vistrails/packages/persistence/find_files.py
    M vistrails/packages/persistence/find_workflows.py
    M vistrails/packages/persistence/identifiers.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/schema.sql
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pipelineEdit/__init__.py
    M vistrails/packages/pipelineEdit/init.py
    M vistrails/packages/pythonCalc/__init__.py
    M vistrails/packages/pythonCalc/init.py
    M vistrails/packages/pythonCalcQt/__init__.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/__init__.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/__init__.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/rpy/widgets.py
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/spreadsheet/init.py
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/__init__.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/__init__.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/__init__.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    A vistrails/packages/tabledata/widgets.py
    A vistrails/packages/tabledata/write/__init__.py
    A vistrails/packages/tabledata/write/write_csv.py
    A vistrails/packages/tabledata/write/write_excel.py
    A vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/class_tree.py
    M vistrails/packages/vtk/fix_classes.py
    M vistrails/packages/vtk/hasher.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/offscreen.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    A vistrails/packages/vtk/vtkcell.qrc
    M vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/vtlcreator/__init__.py
    M vistrails/packages/vtlcreator/init.py
    M vistrails/packages/webServices/__init__.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/stop_vistrails_server.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/__init__.py
    M vistrails/tests/resources/console_mode_test.py
    M vistrails/tests/resources/dummy.xml
    M vistrails/tests/resources/dummy_broken.xml
    M vistrails/tests/resources/dummy_new.xml
    M vistrails/tests/resources/dynamic_module_error.xml
    M vistrails/tests/resources/empty_bookmarks.xml
    M vistrails/tests/resources/pythonsource.xml
    M vistrails/tests/resources/spx_loop.vt
    M vistrails/tests/resources/test_alias.xml
    M vistrails/tests/resources/test_ticket_73.xml
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/resources/vtk.xml
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into rewrite-startup

Conflicts:
	vistrails/core/application.py
	vistrails/core/configuration.py
	vistrails/core/modules/package.py
	vistrails/core/packagemanager.py
	vistrails/db/versions/v1_0_3/domain/auto_gen.py
	vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
	vistrails/gui/debug.py
	vistrails/gui/modules/constant_configuration.py
	vistrails/gui/preferences.py
	vistrails/gui/variable_dropbox.py


  Commit: 710d3e2ffaef6eb5887fa15e84f368ca2fb46d39
      https://github.com/VisTrails/VisTrails/commit/710d3e2ffaef6eb5887fa15e84f368ca2fb46d39
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-03 (Thu, 03 Apr 2014)

  Changed paths:
    M vistrails/core/startup.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/gui/variable_dropbox.py

  Log Message:
  -----------
  Fix issues with merge


  Commit: ce0a958d23a2ee39384badfd48a2fee62ec9108a
      https://github.com/VisTrails/VisTrails/commit/ce0a958d23a2ee39384badfd48a2fee62ec9108a
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-03 (Thu, 03 Apr 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/thumbnails.py

  Log Message:
  -----------
  Only destroy ThumbnailCache if it exists


  Commit: 7683bded393304b6acc3ec8c0beae63f247d0b8d
      https://github.com/VisTrails/VisTrails/commit/7683bded393304b6acc3ec8c0beae63f247d0b8d
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-03 (Thu, 03 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Update jobCheckInterval default to 600

Based on changes to master


  Commit: 449e3821c81776ab99e2b89b898177e29d205aee
      https://github.com/VisTrails/VisTrails/commit/449e3821c81776ab99e2b89b898177e29d205aee
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-03 (Thu, 03 Apr 2014)

  Changed paths:
    M doc/usersguide/conf.py
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Update so sphinx command-line documentation works


  Commit: 671eade8a9b82a35c558848ba5960904e8c23fc9
      https://github.com/VisTrails/VisTrails/commit/671eade8a9b82a35c558848ba5960904e8c23fc9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-04 (Fri, 04 Apr 2014)

  Changed paths:
    M vistrails/db/services/locator.py

  Log Message:
  -----------
  Fixed autosaving for existing vistrails

db/services/locator.py:
- XMLFileLocator:
  SaveTemporariesMixin was inherited too late

Ticket: 849


  Commit: 9e68064627c12323667a6a30d739dbce1a06c336
      https://github.com/VisTrails/VisTrails/commit/9e68064627c12323667a6a30d739dbce1a06c336
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-07 (Mon, 07 Apr 2014)

  Changed paths:
    M vistrails/gui/graphics_view.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Set pipeline view size to sane values

gui/graphics_view.py:
  View size was pipeline size*100, now changed to *2

gui/theme.py:
  Added missing attribute BOUNDING_RECT_MINIMUM=512.

Ticket: 850


  Commit: 78e8d01bd7ab6887c670a890d031ac47623b91cf
      https://github.com/VisTrails/VisTrails/commit/78e8d01bd7ab6887c670a890d031ac47623b91cf
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-08 (Tue, 08 Apr 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Remember directory for File/Path/Directory choosers

gui/modules/constant_configuration.py:
  Update data directory after choosing a path

Ticket: 846


  Commit: 4ed7580174f681f593cdc5ee8352ccb7609c390d
      https://github.com/VisTrails/VisTrails/commit/4ed7580174f681f593cdc5ee8352ccb7609c390d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-08 (Tue, 08 Apr 2014)

  Changed paths:
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Re-allows VTK cells to export PDF


  Commit: c9b9d8f668be2e61b860f22078c1897916c65ec8
      https://github.com/VisTrails/VisTrails/commit/c9b9d8f668be2e61b860f22078c1897916c65ec8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-08 (Tue, 08 Apr 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Disables exporting if save_formats is empty


  Commit: 58907261715503d1a29d45091a7219b95354dc27
      https://github.com/VisTrails/VisTrails/commit/58907261715503d1a29d45091a7219b95354dc27
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-08 (Tue, 08 Apr 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Uses custom colors in exported Graphviz DOT file


  Commit: 4602520c1ef7dc24957ba42b23cb7817fe4f6053
      https://github.com/VisTrails/VisTrails/commit/4602520c1ef7dc24957ba42b23cb7817fe4f6053
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/application.py
    M vistrails/run.py

  Log Message:
  -----------
  Merge branch 'application-no-default-argv' into 'master'


  Commit: d804315787f16680bfbeebf674a162ea60455783
      https://github.com/VisTrails/VisTrails/commit/d804315787f16680bfbeebf674a162ea60455783
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/db/bin/generate.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/tests/__init__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'testsuite-module-imports' into 'master'


  Commit: 2facc17795bf99398f713122477479c0704ecb53
      https://github.com/VisTrails/VisTrails/commit/2facc17795bf99398f713122477479c0704ecb53
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py
    M vistrails/db/services/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: c011d98b7b93188b290d967114ea037c0a5d81ff
      https://github.com/VisTrails/VisTrails/commit/c011d98b7b93188b290d967114ea037c0a5d81ff
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py

  Log Message:
  -----------
  Changes old "export" action to "export sheet"


  Commit: 87972f9a0046ed0bd601a33514d6fba826c4553b
      https://github.com/VisTrails/VisTrails/commit/87972f9a0046ed0bd601a33514d6fba826c4553b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    R vistrails/gui/resources/images/camera.png
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/camera.png
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell.qrc
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Merge branch 'export-cells' into 'master'

Feature: Button to export a single cell in different formats


  Commit: fe255d06132573755c88976f27a36ef788c59c95
      https://github.com/VisTrails/VisTrails/commit/fe255d06132573755c88976f27a36ef788c59c95
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge branch 'export-versiontree-dot' into 'master'

Feature: Menu item to export version tree to graphviz DOT format
Ticket: 843


  Commit: 1a847104208a734e388cba1793399048cdbfa427
      https://github.com/VisTrails/VisTrails/commit/1a847104208a734e388cba1793399048cdbfa427
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Adds global configuration switch for custom colors

Custom colors can't be set or displayed if enableCustomVersionColors is
False (the default).


  Commit: cfd7c4574c207192faea46077dab9ca2318e14cc
      https://github.com/VisTrails/VisTrails/commit/cfd7c4574c207192faea46077dab9ca2318e14cc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Merge branch 'custom-colors' into 'export-versiontree-dot_/colors'

Conflicts:
	vistrails/gui/version_prop.py


  Commit: 99db1c183f539f9b0652e1eeaeb481a1e6d8dd6f
      https://github.com/VisTrails/VisTrails/commit/99db1c183f539f9b0652e1eeaeb481a1e6d8dd6f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M examples/matplotlib/Arrow_ex9.vt
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Uses configuration switch when exporting as DOT


  Commit: 499bb88ed51b7a0ef6f4ac4572f71dde6d400967
      https://github.com/VisTrails/VisTrails/commit/499bb88ed51b7a0ef6f4ac4572f71dde6d400967
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-09 (Wed, 09 Apr 2014)

  Changed paths:
    M examples/matplotlib/Arrow_ex9.vt
    M vistrails/core/configuration.py
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Merge branch 'export-versiontree-dot_/colors' into 'master'

Feature: Allows custom colors for versions in tree


  Commit: af83742a98ecf666e579177646d19a6a20bfbd2d
      https://github.com/VisTrails/VisTrails/commit/af83742a98ecf666e579177646d19a6a20bfbd2d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py

  Log Message:
  -----------
  core.collection: Use universal dates

In the workspace, dates were stored using the name of the months. This caused
errors when using 8-bit characters (e.g. French). It now stores them as string
of numbers including microseconds.

core/collection/entity.py:
  - save: Return string representation of dates
  - load: Load datetime representation of date strings
  - now: *new - returns current time
  - timeval: *new
    Converts date string to datetime object.
    With backwards compatibility and error handling.

Changed to use datetime instances to store time:
  core/collection/mashup.py
  core/collection/vistrail.py
  core/collection/workflow.py
  core/collection/workflow_exec.py

Bugfix: Date error in workspace when using 8-bit characters


  Commit: 1aaef5de72fb7dfd2cb630c46fe39a13c3f0673c
      https://github.com/VisTrails/VisTrails/commit/1aaef5de72fb7dfd2cb630c46fe39a13c3f0673c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/collection/entity.py

  Log Message:
  -----------
  Fixes date formatting in core.collection

Using str() is generally bad practice, but this also avoids a bug when
datetime has 0 microseconds.


  Commit: a4a6853ad7f62a4983e4d757a089e809210f1904
      https://github.com/VisTrails/VisTrails/commit/a4a6853ad7f62a4983e4d757a089e809210f1904
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/collection/thumbnail.py

  Log Message:
  -----------
  Fixes ThumbnailEntity not using datetime


  Commit: a3d72934b60d6c255bb13f3566b0a58db0d0bbfe
      https://github.com/VisTrails/VisTrails/commit/a3d72934b60d6c255bb13f3566b0a58db0d0bbfe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vistrail_view.py

  Log Message:
  -----------
  Do not ignore pending module moves when saving

Module moves are kept 'pending' until some other action occur, at which
point they are recorded as a single action. However, if no action occur
before saving (or exiting) these are not written.

This makes a module move mark the controller as modified (so it appears
with a '*', and VisTrails prompts to save on exit) and makes saving
flush the pending moves first.


  Commit: b018826bdc2c4af0706492baf3c0d9404310d76a
      https://github.com/VisTrails/VisTrails/commit/b018826bdc2c4af0706492baf3c0d9404310d76a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes Path hasher


  Commit: 20faf6f25c08eb460f1d515f2e2badc4aa9f5776
      https://github.com/VisTrails/VisTrails/commit/20faf6f25c08eb460f1d515f2e2badc4aa9f5776
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Adds ReadFile module

Works the same as WriteFile. Likewise, it's an automatic Converter.


  Commit: 54a5f88e5f905e698d7209fdfeb46067442b1ae1
      https://github.com/VisTrails/VisTrails/commit/54a5f88e5f905e698d7209fdfeb46067442b1ae1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Adds 'encoding' port to ReadFile/WriteFile

This will probably be a lot more useful once VisTrails uses 'unicode'
objects for the String type.


  Commit: e764c8d5749350d4116eaff4cdc14a767f9a85b0
      https://github.com/VisTrails/VisTrails/commit/e764c8d5749350d4116eaff4cdc14a767f9a85b0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/core/collection/search.py

  Log Message:
  -----------
  core/collection/search.py: Time is now datetime instances


  Commit: 58de1babf38e5b62b3a9115af535443785928487
      https://github.com/VisTrails/VisTrails/commit/58de1babf38e5b62b3a9115af535443785928487
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-10 (Thu, 10 Apr 2014)

  Changed paths:
    M vistrails/gui/collection/workspace.py

  Log Message:
  -----------
  Removes long dead code from workspace


  Commit: e0783ba7ae20b4debda09b81df65488c611724a4
      https://github.com/VisTrails/VisTrails/commit/e0783ba7ae20b4debda09b81df65488c611724a4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-11 (Fri, 11 Apr 2014)

  Changed paths:
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/gui/collection/workspace.py

  Log Message:
  -----------
  Merge branch 'v2.1'

core/collection/entity.py:
  Added safe strftime

Conflicts:
	vistrails/core/collection/search.py
	vistrails/core/collection/thumbnail.py
	vistrails/core/collection/workflow_exec.py
	vistrails/core/modules/basic_modules.py
	vistrails/gui/collection/workspace.py


  Commit: 3456f04135dbc3cd3ab923871b2148e9ecb9b397
      https://github.com/VisTrails/VisTrails/commit/3456f04135dbc3cd3ab923871b2148e9ecb9b397
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-11 (Fri, 11 Apr 2014)

  Changed paths:
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py

  Log Message:
  -----------
  Fixed Entity.load being a static method in subclasses

Renamed load() -> create() in Entity subclasses:
  core/collection/__init__.py
  core/collection/mashup.py
  core/collection/parameter_exploration.py
  core/collection/thumbnail.py
  core/collection/vistrail.py
  core/collection/workflow.py
  core/collection/workflow_exec.py


  Commit: fe056dedbb0a8cd1b54e52a28e25cf867d0bbec6
      https://github.com/VisTrails/VisTrails/commit/fe056dedbb0a8cd1b54e52a28e25cf867d0bbec6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-11 (Fri, 11 Apr 2014)

  Changed paths:
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py

  Log Message:
  -----------
  Fixes method call syntax for Entity.load

Now that Tommy has removed the ambiguity, the unbound call is
unnecessary.


  Commit: 53284597f5f948ae7ed5d313cc83a8c097a8ac5c
      https://github.com/VisTrails/VisTrails/commit/53284597f5f948ae7ed5d313cc83a8c097a8ac5c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-11 (Fri, 11 Apr 2014)

  Changed paths:
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Adds automatic converter from List to Table

Useful for TableCell.


  Commit: df8ef413aff4ee2d2cf2dbdfc7c2653bba517af2
      https://github.com/VisTrails/VisTrails/commit/df8ef413aff4ee2d2cf2dbdfc7c2653bba517af2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/CLTools/wizard.py

  Log Message:
  -----------
  CLTools wizard list type field was not shown

vistrails/packages/CLTools/wizard.py:
  - klassChanged:
    "type" was not being set, causing type=='input' to always be false.

Bugfix: CLTools wizard does not show list type field


  Commit: 071e57a582189feecabb46124d76112d1bddfe52
      https://github.com/VisTrails/VisTrails/commit/071e57a582189feecabb46124d76112d1bddfe52
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/CLTools/wizard.py

  Log Message:
  -----------
  Makes the CLTools wizard accept lowercase classes


  Commit: b267d2bed5eb2b03e858ed41c0d76acafd6226ac
      https://github.com/VisTrails/VisTrails/commit/b267d2bed5eb2b03e858ed41c0d76acafd6226ac
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Adds a YesNoDialog module


  Commit: 58500a9dd2dcc68a79a5211b7bd024c65e0902e0
      https://github.com/VisTrails/VisTrails/commit/58500a9dd2dcc68a79a5211b7bd024c65e0902e0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Modernizes the dialogs package


  Commit: 551fec055104f1775d0019f6de10fa1175650e69
      https://github.com/VisTrails/VisTrails/commit/551fec055104f1775d0019f6de10fa1175650e69
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Always do displayAndWait(), and store cell widget

- displayAndWait() now stores the new cell widget
- display() is now an alias of displayAndWait().


  Commit: a1bad0cc2d4624b15f01b5f451ca8432ef3d58ea
      https://github.com/VisTrails/VisTrails/commit/a1bad0cc2d4624b15f01b5f451ca8432ef3d58ea
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-15 (Tue, 15 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Adds PromptIsOkay module (WIP)


  Commit: eb6730a8493bd88493ab960d629dab4ae33ff6aa
      https://github.com/VisTrails/VisTrails/commit/eb6730a8493bd88493ab960d629dab4ae33ff6aa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/continue_prompt.py

  Log Message:
  -----------
  Correctly removes and replaces the cell


  Commit: 1acc7fda20fcd994cee3a608392e5a62c5ef810b
      https://github.com/VisTrails/VisTrails/commit/1acc7fda20fcd994cee3a608392e5a62c5ef810b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Merge branch 'readfile-module' into 'master'

Conflicts:
	vistrails/core/modules/basic_modules.py


  Commit: e3bd641d56201bbb5ac91eb3bd0a8ed417ecd883
      https://github.com/VisTrails/VisTrails/commit/e3bd641d56201bbb5ac91eb3bd0a8ed417ecd883
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vistrail_view.py

  Log Message:
  -----------
  Merge branch 'save-module-moves' into 'v2.1'


  Commit: a719fff821f8b3aec4d1ec28f2dd24469fc02ae5
      https://github.com/VisTrails/VisTrails/commit/a719fff821f8b3aec4d1ec28f2dd24469fc02ae5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vistrail_view.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/packages/dialogs/init.py


  Commit: ca70417456c5a55adaaa31f8fdcc787a298cba36
      https://github.com/VisTrails/VisTrails/commit/ca70417456c5a55adaaa31f8fdcc787a298cba36
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/init.py

  Log Message:
  -----------
  Renames HTTP to URL


  Commit: 99612d68a5e35544bbd6261126558839751ed376
      https://github.com/VisTrails/VisTrails/commit/99612d68a5e35544bbd6261126558839751ed376
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/__init__.py
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Generalizes download code

HTTPFile becomes DownloadFile, and accepts all the URL schemes that
urllib2 accepts.


  Commit: 5523000fd2b084369fa3e97c3440ac274bcad27f
      https://github.com/VisTrails/VisTrails/commit/5523000fd2b084369fa3e97c3440ac274bcad27f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M dist/windows/Input/startup.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/persistence.rst
    M doc/usersguide/tabledata.rst
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/gui/repository.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Updates references


  Commit: 4a2e3b3d676e01430a3b1b129098f80f399a57e1
      https://github.com/VisTrails/VisTrails/commit/4a2e3b3d676e01430a3b1b129098f80f399a57e1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Fixes Python's shameful HTTPS code


  Commit: 1a04eb5298a2f6db7c8b76136edb385f2c6b6b04
      https://github.com/VisTrails/VisTrails/commit/1a04eb5298a2f6db7c8b76136edb385f2c6b6b04
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/http_directory.py
    M vistrails/packages/URL/https.py
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Adds an insecure mode


  Commit: 1445e4224f941cf3cb1d0528cc6f520b4f2518bd
      https://github.com/VisTrails/VisTrails/commit/1445e4224f941cf3cb1d0528cc6f520b4f2518bd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/http_directory.py
    M vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Adds py_import calls for certifi & match_hostname

The package can be used without certifi & ssl_match_hostname installed,
however no certificate verification will be done, which is very
insecure. VisTrails will try to install these packages first if running
interactively.


  Commit: 563fc867bd609ce52ee86eb3b7ee25b829c25154
      https://github.com/VisTrails/VisTrails/commit/563fc867bd609ce52ee86eb3b7ee25b829c25154
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-16 (Wed, 16 Apr 2014)

  Changed paths:
    M vistrails/gui/collection/workspace.py

  Log Message:
  -----------
  Various fixes to gui.collection.workspace


  Commit: 48378794514b0a83d6b72136cbc87101f35ac005
      https://github.com/VisTrails/VisTrails/commit/48378794514b0a83d6b72136cbc87101f35ac005
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Fixed mashup test after revert in 234be4728032

gui/mashups/mashup_app.py:
  Call flush_delayed_actions in mashup test. This is already done when executing mashup normally.


  Commit: d2bd53d6ee323a7946feb467db47719d0305f5f9
      https://github.com/VisTrails/VisTrails/commit/d2bd53d6ee323a7946feb467db47719d0305f5f9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/gui/bundles/installbundle.py

  Log Message:
  -----------
  Avoids a pip issue by not importing it


  Commit: 1487c78b47be3d558d014e03607b64d8c0dff829
      https://github.com/VisTrails/VisTrails/commit/1487c78b47be3d558d014e03607b64d8c0dff829
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Removes duplicated code

Introduced by bogus merge 2f401a790833bf01dde03096ceda3ef9096b5168.


  Commit: 8669886c999337f813fefe842419a1875b745e46
      https://github.com/VisTrails/VisTrails/commit/8669886c999337f813fefe842419a1875b745e46
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  Fixes bug in SQL package


  Commit: 438ae0fac65704139118941431e105a8f9d0e11a
      https://github.com/VisTrails/VisTrails/commit/438ae0fac65704139118941431e105a8f9d0e11a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py

  Log Message:
  -----------
  Fixes indentation levels in VTK


  Commit: 1f9ad918f3a1d6424eb2b3567ec3100209ffd275
      https://github.com/VisTrails/VisTrails/commit/1f9ad918f3a1d6424eb2b3567ec3100209ffd275
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/debug.py

  Log Message:
  -----------
  Adds unexpected_exception()


  Commit: d4c7dbe2444cdbbbdd07edd2707c95a8b34438ff
      https://github.com/VisTrails/VisTrails/commit/d4c7dbe2444cdbbbdd07edd2707c95a8b34438ff
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/vistrail_view.py
    M vistrails/packages/SUDSWebServices/init.py

  Log Message:
  -----------
  Calls unexpected_exception near format_exception

unexpected_exception() calls are probably needed elsewhere too.


  Commit: 3eeb5995e66dafcdafd92d09722f2025a7e56151
      https://github.com/VisTrails/VisTrails/commit/3eeb5995e66dafcdafd92d09722f2025a7e56151
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/db/locator.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/prov.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/shell.py
    M vistrails/gui/utils.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Fixes except: blocks


  Commit: acde2fb651c77dfbbac301f21b43bf786d8ea8fc
      https://github.com/VisTrails/VisTrails/commit/acde2fb651c77dfbbac301f21b43bf786d8ea8fc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/configuration.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/prov.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/shell.py
    M vistrails/gui/utils.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'debugger' into 'master'


  Commit: c8da72ad8600230b6bf876bc0c39043074d56393
      https://github.com/VisTrails/VisTrails/commit/c8da72ad8600230b6bf876bc0c39043074d56393
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/continue_prompt.py

  Log Message:
  -----------
  Just return True if not running interactively


  Commit: 43946dde47279ec36e2b3272a7d14b1103a2c211
      https://github.com/VisTrails/VisTrails/commit/43946dde47279ec36e2b3272a7d14b1103a2c211
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/basic_modules.py
    A vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Initial work on output modules


  Commit: ae56989560f04f337ce56abba059fb45723202ba
      https://github.com/VisTrails/VisTrails/commit/ae56989560f04f337ce56abba059fb45723202ba
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Merge branch 'continue-dialog' into 'master'

Conflicts:
	vistrails/packages/dialogs/init.py
	vistrails/packages/tabledata/viewer.py
	vistrails/packages/vtk/vtkcell.py

Ticket: 854


  Commit: 62b10b9c9dba4d10813cddecd4fc1c692887aa3d
      https://github.com/VisTrails/VisTrails/commit/62b10b9c9dba4d10813cddecd4fc1c692887aa3d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/interpreter/base.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/utils/expression.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/db/services/opm.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtk_parser.py

  Log Message:
  -----------
  Replaces eval() with safer literal_eval()


  Commit: 36d732c614a002c343ddf4bb82078f34ba6ea4d9
      https://github.com/VisTrails/VisTrails/commit/36d732c614a002c343ddf4bb82078f34ba6ea4d9
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-17 (Thu, 17 Apr 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py

  Log Message:
  -----------
  Use spreadsheet for ImageFileOutput module

Proof of concept that we can register the spreadsheet for base-level
outputs.  This allows a workflow to be output to a file in
non-interactive mode but shown in the spreadsheet in interactive mode
without modifying the workflow.


  Commit: a578ef77188693ee2940321ffe10e252267a9af5
      https://github.com/VisTrails/VisTrails/commit/a578ef77188693ee2940321ffe10e252267a9af5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M scripts/update_db.py

  Log Message:
  -----------
  scripts/update_db.py: Added error handling

Objects that cannot be read from the db are now skipped, with the traceback
printed.


  Commit: c2791f222f4c173ec9345e4ac3894d4e90674835
      https://github.com/VisTrails/VisTrails/commit/c2791f222f4c173ec9345e4ac3894d4e90674835
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Added run_from_db_webgl to application_server.py

This method was uncommitted on crowdlabs.  The method creates a WebGL
rendering of the result of any pipeline using vtkRenderer.

vistrails/gui/application_server.py:
  - run_from_db_webgl: *new


  Commit: 2490b7d76f35122cf477da49b81464c73d742761
      https://github.com/VisTrails/VisTrails/commit/2490b7d76f35122cf477da49b81464c73d742761
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M examples/matplotlib/Arrow_ex9.vt
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/generate.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    R vistrails/gui/resources/images/camera.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/spreadsheet/init.py
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/init.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/spx_loop.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Merge branch 'master' into 'dont-use-modules-as-data'

Conflicts:
	vistrails/core/modules/vistrails_module.py
	vistrails/packages/spreadsheet/basic_widgets.py


  Commit: a68b5dd3ad61f2190bfb448a6bc9de73d5bb0caf
      https://github.com/VisTrails/VisTrails/commit/a68b5dd3ad61f2190bfb448a6bc9de73d5bb0caf
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/packages/vtk/vtkhandler.py

  Log Message:
  -----------
  Merge branch 'input-module-no-subclass' into 'dont-use-modules-as-data'

Conflicts:
	vistrails/core/modules/module_registry.py


  Commit: a26551d30aef04582803769e5efc3ebb573b1f1d
      https://github.com/VisTrails/VisTrails/commit/a26551d30aef04582803769e5efc3ebb573b1f1d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py

  Log Message:
  -----------
  Adds upgrade to dialogs for SpreadsheetCell change

SpreadsheetCell now returns the cell widget on the 'Widget' output port.
We thus connect to that instead of using 'self' and .cellWidget.


  Commit: 649584fba27e1f162c419273e0999be029907a65
      https://github.com/VisTrails/VisTrails/commit/649584fba27e1f162c419273e0999be029907a65
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Build a (fake?) Port and pass it to the handler

This allows us to avoid the MissingPackageVersion if the upstream module
is also upgrading (which it very well might be, with the number of
packages affected by this branch).

Ticket: 855


  Commit: 78cbac2acfcf90b27c187684c93a1a00684cce6d
      https://github.com/VisTrails/VisTrails/commit/78cbac2acfcf90b27c187684c93a1a00684cce6d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Make vistrails server non-interactive

Also autoload packages and skip handlers.
This avoids many cases where server hangs while waiting for user input.

vistrails/vistrails_server.py:
  Added options:
    'interactiveMode': False
    'enablePackagesSilently': True
    'handlerDontAsk': True


  Commit: b1ee40801509eb758bfeb7f4be66f18fda696eff
      https://github.com/VisTrails/VisTrails/commit/b1ee40801509eb758bfeb7f4be66f18fda696eff
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M doc/usersguide/packages.rst
    M examples/matplotlib/Arrow_ex9.vt
    A examples/mta.vt
    M examples/terminator.vt
    A examples/weather.vt
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/generate.py
    M vistrails/db/bin/parser.py
    M vistrails/db/services/action.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    R vistrails/gui/resources/images/camera.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    M vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/index/__core.py
    M vistrails/index/indexworkflow.py
    M vistrails/index/spec_io.py
    M vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/spreadsheet/init.py
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/write_csv.py
    M vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/spx_loop.vt
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Merge branch 'dont-use-modules-as-data' into 'dont-use-modules-as-data_/matplotlib'


  Commit: 203edaf6d1b152aa89fe3697a645243f70076e14
      https://github.com/VisTrails/VisTrails/commit/203edaf6d1b152aa89fe3697a645243f70076e14
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    R vistrails/packages/matplotlib/object.py

  Log Message:
  -----------
  Removes unused & broken MplObject


  Commit: 843a2ce52ed1176e14068dc42ecbc60e673737df
      https://github.com/VisTrails/VisTrails/commit/843a2ce52ed1176e14068dc42ecbc60e673737df
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/init.py

  Log Message:
  -----------
  Matplotlib upgrade code


  Commit: 4e77c55a1c2e8103ceeef8e89a44e76c3ae84f99
      https://github.com/VisTrails/VisTrails/commit/4e77c55a1c2e8103ceeef8e89a44e76c3ae84f99
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-18 (Fri, 18 Apr 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Fix cascading modes

Need to check __dict__ for attributes, otherwise we'll match
superclass's attributes too.  Need to update the compute method to
work with cascading, too.


  Commit: b35133016601b90f415ebc7aa9a3331559e7cfe8
      https://github.com/VisTrails/VisTrails/commit/b35133016601b90f415ebc7aa9a3331559e7cfe8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Adds upgrades for changed basic modules


  Commit: 0a6adfe741a794e5de3a63f354dc5f86c670672d
      https://github.com/VisTrails/VisTrails/commit/0a6adfe741a794e5de3a63f354dc5f86c670672d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkhandler.py

  Log Message:
  -----------
  Adds upgrade for vtkInteractionHandler


  Commit: de93170a60fda06894fb0097e25ebbb7ba7ac156
      https://github.com/VisTrails/VisTrails/commit/de93170a60fda06894fb0097e25ebbb7ba7ac156
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkhandler.py

  Log Message:
  -----------
  Merge branch 'input-module-no-subclass' into 'dont-use-modules-as-data'

Conflicts:
	vistrails/core/modules/basic_modules.py


  Commit: af4b8d473553640712d5fd175b26e0d7698a3dcb
      https://github.com/VisTrails/VisTrails/commit/af4b8d473553640712d5fd175b26e0d7698a3dcb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Fixes to core.upgradeworkflow

UnboundLocalError could happen in replace_generic():
    local variable 'basic_pkg' referenced before assignment


  Commit: f9c1403746a6ec7ce3a87ac504b5600faf132ffb
      https://github.com/VisTrails/VisTrails/commit/f9c1403746a6ec7ce3a87ac504b5600faf132ffb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Makes old-style upgrades accept output_version

This fixes UpgradeModuleRemap#from_tuple() to use the output_version if
it is there (tuple of length 5). Also, refactors and raise TypeError for
unexpected tuple lengths.


  Commit: 8d8c3e0365a04d1f921bd81c1f3479bf5e6cb742
      https://github.com/VisTrails/VisTrails/commit/8d8c3e0365a04d1f921bd81c1f3479bf5e6cb742
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Adds --debug option to runtestsuite.py

This enables the debugger in the test VisTrails's configuration.

Reminder: the test suite does not use the local configuration or
.vistrails directory.


  Commit: c699900823bc8a761fad466289ab333f122dc490
      https://github.com/VisTrails/VisTrails/commit/c699900823bc8a761fad466289ab333f122dc490
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'master' into 'dont-use-modules-as-data'


  Commit: 6f0d9fa140563991eed115d9e51ea51c19897b77
      https://github.com/VisTrails/VisTrails/commit/6f0d9fa140563991eed115d9e51ea51c19897b77
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Fixes old-style inputFromPort() camelCase calls


  Commit: c2ff37006b2740386af0f254030e3415fca2514e
      https://github.com/VisTrails/VisTrails/commit/c2ff37006b2740386af0f254030e3415fca2514e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Add missing Tuple upgrade


  Commit: dc6e0b25cc9974851fbc957fd60792a5b617bda5
      https://github.com/VisTrails/VisTrails/commit/dc6e0b25cc9974851fbc957fd60792a5b617bda5
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Add missing Tuple upgrade

Conflicts:
	vistrails/core/modules/basic_modules.py


  Commit: a8cc47591a97a1d61ffefe0cc9155384026675aa
      https://github.com/VisTrails/VisTrails/commit/a8cc47591a97a1d61ffefe0cc9155384026675aa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/analogy/eigen.py
    M vistrails/core/api.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/console_mode.py
    M vistrails/core/modules/utils.py
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Fixes *a or **kw calls

'* or ** magic' as pylint calls it.


  Commit: b73e104af0380a584ad6e3488edf8730d3789bad
      https://github.com/VisTrails/VisTrails/commit/b73e104af0380a584ad6e3488edf8730d3789bad
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py
    M vistrails/tests/resources/test_abstraction.xml

  Log Message:
  -----------
  Updates test_abstraction_create for new upgrades


  Commit: b0e959dedf8863bfd7b4bc778e17cd609a14e0e8
      https://github.com/VisTrails/VisTrails/commit/b0e959dedf8863bfd7b4bc778e17cd609a14e0e8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'dont-use-modules-as-data' into 'dont-use-modules-as-data_/matplotlib'


  Commit: 935c82711fa8dfe87d7228f8fcf01d734b4e2125
      https://github.com/VisTrails/VisTrails/commit/935c82711fa8dfe87d7228f8fcf01d734b4e2125
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py

  Log Message:
  -----------
  Add OutputModule support to matplotlib package


  Commit: 3c82fec654b32740260e94c50623a2d4aebadb38
      https://github.com/VisTrails/VisTrails/commit/3c82fec654b32740260e94c50623a2d4aebadb38
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/figure_cell.py

  Log Message:
  -----------
  Enable spreadsheet mode for matplotlib


  Commit: e086cf30125925c167ef4ff42115bc46d538481a
      https://github.com/VisTrails/VisTrails/commit/e086cf30125925c167ef4ff42115bc46d538481a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Removes MplFigure's 'file' output

This output port doesn't work (always returns None). If it was in use
before, the workflow was already broken.

Hopefully this output port will be replaced by the outputport
generalization effort before the next VisTrails version.

Bugfix: Removes MplFigure's non-implemented 'file' output port


  Commit: c783e4af7d836a21d54b563109af12f28aec54be
      https://github.com/VisTrails/VisTrails/commit/c783e4af7d836a21d54b563109af12f28aec54be
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Better method of mode config inheritance


  Commit: 6242bdaca1912e9e140a9bd4899f9101b744a564
      https://github.com/VisTrails/VisTrails/commit/6242bdaca1912e9e140a9bd4899f9101b744a564
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Use default config if none specified

Also default FileConfig.overwrite to True, matching FileSink


  Commit: 258514b1a2026f564a5e3b0bc52d9167938493ca
      https://github.com/VisTrails/VisTrails/commit/258514b1a2026f564a5e3b0bc52d9167938493ca
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-21 (Mon, 21 Apr 2014)

  Changed paths:
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkcell.py

  Log Message:
  -----------
  Add VTK output module and file & spreadsheet modes

Still some issues to address like the interaction handler, and the
annoying Qt import for offscreen rendering.


  Commit: 9fb626e72dc8a4536a4382edeece3c4b4c5a594e
      https://github.com/VisTrails/VisTrails/commit/9fb626e72dc8a4536a4382edeece3c4b4c5a594e
  Author: Tommy Ellqvist <tommy.ellqvist at yahoo.se>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Queue corrupted when package fail to load on server

vistrails/gui/application_server.py:
  - get_server_packages:
    Put server back on queue even when an exception is thrown


  Commit: 0d715eb4f1d107e1284a799560eb61edc796cdbc
      https://github.com/VisTrails/VisTrails/commit/0d715eb4f1d107e1284a799560eb61edc796cdbc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/wrapper.py

  Log Message:
  -----------
  Adds the generating moduleID to VTKInstanceWrapper

This is useful at least for the "save camera" trick.


  Commit: c53bcea82871daab0d04b030febe387b868d46f0
      https://github.com/VisTrails/VisTrails/commit/c53bcea82871daab0d04b030febe387b868d46f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Fix attempt


  Commit: 984a1b38aaf97d5a432cfe27ff2dc3ae13075ad8
      https://github.com/VisTrails/VisTrails/commit/984a1b38aaf97d5a432cfe27ff2dc3ae13075ad8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Fixes testsuite failure because of upgrade package

Not sure why that fixes it, but git-bisect told me
792611a1413c062e055ecad5aaa8e294df92551f was the cause, so here goes.
Issue #845 still needs a real fix.


  Commit: 8239a857bcf59edf916fb314ecd110d7d1697793
      https://github.com/VisTrails/VisTrails/commit/8239a857bcf59edf916fb314ecd110d7d1697793
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Try closing vistrail before disabling package


  Commit: 896f661d8e930a19bf8d31f5c215c89a2a690c89
      https://github.com/VisTrails/VisTrails/commit/896f661d8e930a19bf8d31f5c215c89a2a690c89
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Make out of date test modules invalid

Since we are creating these modules from API calls, the controller
assumes we are creating valid modules, but because the modules are
being used to trigger upgrades, they are actually invalid so we need
to reset the is_valid flag to False.


  Commit: b83f389599e31685543d9a74ce0f49d650d49f31
      https://github.com/VisTrails/VisTrails/commit/b83f389599e31685543d9a74ce0f49d650d49f31
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Adds URLEncode and URLDecode


  Commit: 1e2b0baf25f9843774c6586d0917bc187dba5c74
      https://github.com/VisTrails/VisTrails/commit/1e2b0baf25f9843774c6586d0917bc187dba5c74
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Adds support for ssh:// and scp://


  Commit: 1dc43e35be8c1c6565391229a88392f8fe10a032
      https://github.com/VisTrails/VisTrails/commit/1dc43e35be8c1c6565391229a88392f8fe10a032
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/debugger.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Fix controller changes not being passed to widgets

The QVistrailsWindow was not sending controller_changed -> None
messages to its widgets which meant that the widgets had stale
controllers sitting around.  At the same time, many widgets were not
set to handle set_controller(None) style calls so they needed updates.


  Commit: a090079bd3db0a18f6998440f65444f9fb8b72d0
      https://github.com/VisTrails/VisTrails/commit/a090079bd3db0a18f6998440f65444f9fb8b72d0
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-22 (Tue, 22 Apr 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/debugger.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge branch 'fix-upgrade-test'

Conflicts:
	vistrails/core/upgradeworkflow.py


  Commit: 9b3506851b20f06618c4dee99217c0ed9b7b2824
      https://github.com/VisTrails/VisTrails/commit/9b3506851b20f06618c4dee99217c0ed9b7b2824
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Sets locale to C on the server


  Commit: c5664777ad6dc569cca628312021413ee4910aac
      https://github.com/VisTrails/VisTrails/commit/c5664777ad6dc569cca628312021413ee4910aac
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/spreadsheet/basic_widgets.py

  Log Message:
  -----------
  Backports 'Widget' port

dont-use-modules-as-data added a 'Widget' port to SpreadsheetCell so
PromptIsOkay doesn't have to use the 'self' output. This makes sense, so
backport it here for v2.1.


  Commit: 0728902e1770c4065806a1c491d307c812b16e7d
      https://github.com/VisTrails/VisTrails/commit/0728902e1770c4065806a1c491d307c812b16e7d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py

  Log Message:
  -----------
  Merge branch 'continue-dialog' into 'v2.1'


  Commit: 607585b9d968e258347df3d3b22bd9dc1ac0ce07
      https://github.com/VisTrails/VisTrails/commit/607585b9d968e258347df3d3b22bd9dc1ac0ce07
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M scripts/update_db.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/workspace.py
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/core/modules/basic_modules.py
	vistrails/packages/dialogs/continue_prompt.py
	vistrails/packages/matplotlib/bases.py


  Commit: a7d7a658b90d599120d8796d47b9ffc860c79e61
      https://github.com/VisTrails/VisTrails/commit/a7d7a658b90d599120d8796d47b9ffc860c79e61
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M scripts/update_db.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/api.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/console_mode.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/utils.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/debugger.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/tabledata/common.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into 'dont-use-modules-as-data'

Conflicts:
	vistrails/core/modules/basic_modules.py


  Commit: 29da370db849d0295d704e3bef58b8db90fb8f96
      https://github.com/VisTrails/VisTrails/commit/29da370db849d0295d704e3bef58b8db90fb8f96
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Removes upgrade from 'dialogs' module

Also, returns to previous package version. This change was backported to
v2.1 and master.


  Commit: f4fe976f5fc511534f0b03135bb02d0d56c3e55f
      https://github.com/VisTrails/VisTrails/commit/f4fe976f5fc511534f0b03135bb02d0d56c3e55f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/utils/__init__.py

  Log Message:
  -----------
  Fixes VistrailsInternalError's bad __repr__


  Commit: cf4f47c150c88a3e2e22ef7a14ac898030279fee
      https://github.com/VisTrails/VisTrails/commit/cf4f47c150c88a3e2e22ef7a14ac898030279fee
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py

  Log Message:
  -----------
  Fixes interpreter returning non-ModuleError errors


  Commit: 2539161b623329967e1337750b2d8d0214a684ae
      https://github.com/VisTrails/VisTrails/commit/2539161b623329967e1337750b2d8d0214a684ae
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/modules/sub_module.py

  Log Message:
  -----------
  Fixes Group inputport type inference and Variants


  Commit: c00adabd00b3a459683b81f770ae2e7b40ed3e50
      https://github.com/VisTrails/VisTrails/commit/c00adabd00b3a459683b81f770ae2e7b40ed3e50
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/utils/__init__.py

  Log Message:
  -----------
  Merge branch 'master' into 'dont-use-modules-as-data'


  Commit: 557f4e30860dcb62ac9dc0956930f5f1c3271433
      https://github.com/VisTrails/VisTrails/commit/557f4e30860dcb62ac9dc0956930f5f1c3271433
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Minor fix to the debugger's traceback


  Commit: 99c0521e32f49ef6db49528eeb8c0262af04edfe
      https://github.com/VisTrails/VisTrails/commit/99c0521e32f49ef6db49528eeb8c0262af04edfe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Makes MplSource use a 'value' output as well


  Commit: 8846cc5ea71c6eb2c6fc84557e6b9c3b2d5a8b04
      https://github.com/VisTrails/VisTrails/commit/8846cc5ea71c6eb2c6fc84557e6b9c3b2d5a8b04
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes Tuple upgrade


  Commit: 84f2f7334d7a08c47097785e53b6a1401a25d703
      https://github.com/VisTrails/VisTrails/commit/84f2f7334d7a08c47097785e53b6a1401a25d703
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M contrib/NumSciPy/ArrayConvert.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/packages/HTTP/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/identifiers.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt

  Log Message:
  -----------
  Merge branch 'dont-use-modules-as-data' into 'master'


  Commit: b1c4491af2c4b1b67cbf1e1859096d643449d4fc
      https://github.com/VisTrails/VisTrails/commit/b1c4491af2c4b1b67cbf1e1859096d643449d4fc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/init.py

  Log Message:
  -----------
  Adds MplSource to remap


  Commit: d96800feb7138c1f17a0fcc44bac250999a8cd07
      https://github.com/VisTrails/VisTrails/commit/d96800feb7138c1f17a0fcc44bac250999a8cd07
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py

  Log Message:
  -----------
  Changes matplotlib version to 1.0.3

Version was already changed to 1.0.2 on master.


  Commit: 607994bb26bc10082f16fe7b7d4df039da813963
      https://github.com/VisTrails/VisTrails/commit/607994bb26bc10082f16fe7b7d4df039da813963
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes left-over Directory() call


  Commit: 46c2ac8983d88564d106fa6640e05e3747e0cbe0
      https://github.com/VisTrails/VisTrails/commit/46c2ac8983d88564d106fa6640e05e3747e0cbe0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M dist/windows/Input/startup.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/persistence.rst
    M doc/usersguide/tabledata.rst
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/gui/repository.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Merge branch 'new-url-package' into 'master'

Conflicts:
	vistrails/packages/URL/init.py


  Commit: af48044de201e077aa8b85950085f36f9f16c3c6
      https://github.com/VisTrails/VisTrails/commit/af48044de201e077aa8b85950085f36f9f16c3c6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Calls the debugger for errors during execution


  Commit: 6819916103d997e9f5ea7fc6d021e5cee581a08b
      https://github.com/VisTrails/VisTrails/commit/6819916103d997e9f5ea7fc6d021e5cee581a08b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  Revert "Fixes bug in SQL package"

This reverts commit 8669886c999337f813fefe842419a1875b745e46.


  Commit: ced191d029dbd2396db7b34b6e0db46b4e07c671
      https://github.com/VisTrails/VisTrails/commit/ced191d029dbd2396db7b34b6e0db46b4e07c671
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  Fixes using :params in SQLSource


  Commit: 32c5692eb90b50a3bcc68f68c4fb4bf5dc2f4f74
      https://github.com/VisTrails/VisTrails/commit/32c5692eb90b50a3bcc68f68c4fb4bf5dc2f4f74
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-23 (Wed, 23 Apr 2014)

  Changed paths:
    M vistrails/packages/sql/init.py

  Log Message:
  -----------
  Updates tests for sql package


  Commit: a5a96fb8a2bf7c1588391421988c46160d77681a
      https://github.com/VisTrails/VisTrails/commit/a5a96fb8a2bf7c1588391421988c46160d77681a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-24 (Thu, 24 Apr 2014)

  Changed paths:
    M scripts/release_notes.py

  Log Message:
  -----------
  Fixes to release_notes.py script


  Commit: 07e161e8a33d3e735b21744fb76d4ebd4b76e039
      https://github.com/VisTrails/VisTrails/commit/07e161e8a33d3e735b21744fb76d4ebd4b76e039
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-24 (Thu, 24 Apr 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Fixes PathChooserWidget not setting input port

The pathChanged signal wasn't connected to anything.


  Commit: 90d168f2ec7fee571934fc2854baaa42eac977d4
      https://github.com/VisTrails/VisTrails/commit/90d168f2ec7fee571934fc2854baaa42eac977d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-24 (Thu, 24 Apr 2014)

  Changed paths:
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Removes dict comprehension, for Python 2.6

Dict comprehension syntax was only added in Python 2.7.


  Commit: 9265b5fece44c75569b1b38b6d1195ade38554dd
      https://github.com/VisTrails/VisTrails/commit/9265b5fece44c75569b1b38b6d1195ade38554dd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-28 (Mon, 28 Apr 2014)

  Changed paths:
    R vistrails/gui/view_manager.py

  Log Message:
  -----------
  Removes unused file view_manager.py


  Commit: 799a95d94d93a203d8b1327717a795cc8c70f61a
      https://github.com/VisTrails/VisTrails/commit/799a95d94d93a203d8b1327717a795cc8c70f61a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    R vistrails/index/__core.py
    R vistrails/index/__init__.py
    R vistrails/index/indexworkflow.py
    R vistrails/index/spec_io.py
    R vistrails/index/vistrailanalyzer.py

  Log Message:
  -----------
  Removed index/

It is not used anymore and duplicates functionality already handled by Django


  Commit: ea12b6a1e2b394e83956599583c82c59aebeb7fa
      https://github.com/VisTrails/VisTrails/commit/ea12b6a1e2b394e83956599583c82c59aebeb7fa
  Author: Tommy Ellqvist <te453 at nyu.edu>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  SaveBundle did not copy mashups

This caused missing mashups when loaded from locator cache.

db/services/io.py:
  - SaveBundle.__copy__: Copy mashups as well


  Commit: b5e8409ab315ad180f756735b2a0869613f809a6
      https://github.com/VisTrails/VisTrails/commit/b5e8409ab315ad180f756735b2a0869613f809a6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py

  Log Message:
  -----------
  Fixes spreadsheet resizing

Finishes effort started with 02b8c046.


  Commit: bab9afc9ba8134975c995f00e9aedba7392b08fb
      https://github.com/VisTrails/VisTrails/commit/bab9afc9ba8134975c995f00e9aedba7392b08fb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Fixes issue with artist properties in matplotlib

This was introduced by the dont-use-modules-as-data effort.

- Fixes matplotlib artists template (artists_template.py.mako)
- Regenerates with new template (artists.py)
- Fixes base class MplProperties for new super calls (bases.py).


  Commit: b4402a6119098da6086ec42a5eaa399f41ebe44a
      https://github.com/VisTrails/VisTrails/commit/b4402a6119098da6086ec42a5eaa399f41ebe44a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py

  Log Message:
  -----------
  Merge branch 'spreadsheet-resizing' into 'master'


  Commit: 48766110aa688aa022836e1d33dce71c1e7ac0d4
      https://github.com/VisTrails/VisTrails/commit/48766110aa688aa022836e1d33dce71c1e7ac0d4
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-04-29 (Tue, 29 Apr 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fix issues with nested config settings

Need to make argparse's dest field respect nesting. This is
accomplished by overriding the __call__ method for all of the action
types.


  Commit: 5be2ed41d33ff1fa4c04dcbed212afec75fa45b8
      https://github.com/VisTrails/VisTrails/commit/5be2ed41d33ff1fa4c04dcbed212afec75fa45b8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py

  Log Message:
  -----------
  Fixes saving mashups to DB

Mashup aliases and components were reusing id:s in each mashup in the
mashuptrail. This caused them to be overwritten when saved to the database.

This fix will only work for new mashups. Old mashups can be fixed by modifying
the affected mashups.

Also fixed aliases and components in idScope, which should have a mashup_
prefix.

Affected files:
  core/mashup/controller.py
  core/mashup/mashup.py

Bugfix: Saving mashups to DB corrupts them


  Commit: ccc916f35d6e00d7c327ac01717aa90261507202
      https://github.com/VisTrails/VisTrails/commit/ccc916f35d6e00d7c327ac01717aa90261507202
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py

  Log Message:
  -----------
  Correctly handles change in number of cells


  Commit: a6b86bc3dc4846eb17406a80600409c90215a3ee
      https://github.com/VisTrails/VisTrails/commit/a6b86bc3dc4846eb17406a80600409c90215a3ee
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/startup.py
    A vistrails/tests/resources/startup-0.1.xml

  Log Message:
  -----------
  Add __eq__ methods to startup/configuration

Also adds an old version of the startup to the test resources
directory.


  Commit: 8352a326dc0de0fd6078f540936de1f88ddf4c43
      https://github.com/VisTrails/VisTrails/commit/8352a326dc0de0fd6078f540936de1f88ddf4c43
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/db/services/io.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py

  Log Message:
  -----------
  Add upgrade support for old startup files

Migrate the names and values as necessary.  Still need to work on a
couple settings that need to be migrated to package configurations.


  Commit: 52b7a0efcfc06f34740a0f045e1b923047c0c5ad
      https://github.com/VisTrails/VisTrails/commit/52b7a0efcfc06f34740a0f045e1b923047c0c5ad
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/gui/repository.py

  Log Message:
  -----------
  Added missing data types to crowdlabs publishing

Upload to crowdlabs did not include mashups and subworkflows.

gui/repository.py:
  Now uploads all associated data from .vt file such as
  mashups and subworkflows.

Bugfix: Upload to crowdlabs did not include mashups and subworkflows


  Commit: 4a9d3c90f70c0a1b55ea08854e42b9c34224776c
      https://github.com/VisTrails/VisTrails/commit/4a9d3c90f70c0a1b55ea08854e42b9c34224776c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Add method to specify key-value output settings

Users can set outputSettings parameters via the -p flag.  Currently,
everything is stored as text since we can only bring types in when we
have the packages loaded.


  Commit: 83483ad79c372b0a1ab450afe11c69480ea9d1e6
      https://github.com/VisTrails/VisTrails/commit/83483ad79c372b0a1ab450afe11c69480ea9d1e6
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/startup.py
    M vistrails/db/services/io.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/configuration.py
    M vistrails/gui/modules/constant_configuration.py
    A vistrails/tests/resources/startup-0.1.xml

  Log Message:
  -----------
  Merge branch 'rewrite-startup' into output-modules


  Commit: aab8ef21048d5eb2256c29e8554ab8989d27fb22
      https://github.com/VisTrails/VisTrails/commit/aab8ef21048d5eb2256c29e8554ab8989d27fb22
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-01 (Thu, 01 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/vtk/vtkcell.py

  Log Message:
  -----------
  Update so that batch mode works

Basically, SpreadsheetCell reports that it cannot compute if we are in
batch mode, and the -p parameters can be applied for file
configuration.  For example,

./vistrails -b /vistrails/src/git/examples/terminator-output.vt:isosurface2 -p file.suffix=.png

generates a file "vt_out.png" in the current directory (isosurface2 is
a modified version of isosurface in terminator.vt that uses
vtkRendererOutput).


  Commit: 049a56f3c6b7da89eb3d2085bc9bced01d77a95d
      https://github.com/VisTrails/VisTrails/commit/049a56f3c6b7da89eb3d2085bc9bced01d77a95d
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-02 (Fri, 02 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Do string translations for config values

Since we don't necessarily have the output mode configurations loaded
when parsing the command line, we must translate from the string
values parsed then to the actual config values later.  Use
literal_eval as a default unless we know we have a string.  This
allows an example like:

./vistrails -b /vistrails/src/git/examples/terminator-output.vt:isosurface2 -p file.suffix=.png,file.width=1024,file.height=1024


  Commit: c367a9b069878e273976218cd231a7f48381337d
      https://github.com/VisTrails/VisTrails/commit/c367a9b069878e273976218cd231a7f48381337d
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-02 (Fri, 02 May 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/basic_widgets.py

  Log Message:
  -----------
  Fix issue with spreadsheet config

Missing sheetRowCount, sheetColCount settings


  Commit: 61dfc4549e8c7e7c8dcae912d342944bbd251cd8
      https://github.com/VisTrails/VisTrails/commit/61dfc4549e8c7e7c8dcae912d342944bbd251cd8
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-02 (Fri, 02 May 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Allow Module._settings to be used in add_module

Normal add_module calls previously ignored the _settings field on
Modules.  This is updated---kwargs with add_module override the
_settings field if settings occur in both locations.


  Commit: fbfaabfba6ee9b7e82ab8991d5469fb514328384
      https://github.com/VisTrails/VisTrails/commit/fbfaabfba6ee9b7e82ab8991d5469fb514328384
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-02 (Fri, 02 May 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    A vistrails/gui/modules/output_configuration.py
    M vistrails/packages/vtk/base_module.py

  Log Message:
  -----------
  Initial GUI support for output module settings

Introduces OutputModuleConfigurationWidget; note that this has to be
set on each OutputModule, should have the ability to inherit from
parent classes...  Same widget works for all output modules.  Only
added to vtkRendererOutput right now.


  Commit: cb41989dbd001f483974de96173872ed6b2f17b3
      https://github.com/VisTrails/VisTrails/commit/cb41989dbd001f483974de96173872ed6b2f17b3
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-06 (Tue, 06 May 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Fix issue where get_filename args were discarded


  Commit: 57fa2bc9bdd8d0268f0620da9fa82478510bff54
      https://github.com/VisTrails/VisTrails/commit/57fa2bc9bdd8d0268f0620da9fa82478510bff54
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-06 (Tue, 06 May 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/vtk/base_module.py

  Log Message:
  -----------
  Create ImageFileMode and move vtk/mpl to that


  Commit: eb8ce6632e7e8805b63dd69dd9b61307a5a12922
      https://github.com/VisTrails/VisTrails/commit/eb8ce6632e7e8805b63dd69dd9b61307a5a12922
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-06 (Tue, 06 May 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/vtk/base_module.py

  Log Message:
  -----------
  Support different image formats


  Commit: 085942144cba0080542201bbf9211c7a4b323e41
      https://github.com/VisTrails/VisTrails/commit/085942144cba0080542201bbf9211c7a4b323e41
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-07 (Wed, 07 May 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py

  Log Message:
  -----------
  Merge branch 'spreadsheet-resizing' into 'master'


  Commit: 9ff9552f9defd7d9019c0aa58b935c4d4480e8f2
      https://github.com/VisTrails/VisTrails/commit/9ff9552f9defd7d9019c0aa58b935c4d4480e8f2
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-07 (Wed, 07 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fix bug in to/from_string methods

Add class as first argument


  Commit: de4c832c36051fc1ba689f0473a919081fc4fb61
      https://github.com/VisTrails/VisTrails/commit/de4c832c36051fc1ba689f0473a919081fc4fb61
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-07 (Wed, 07 May 2014)

  Changed paths:
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Update output configuration widget

Align first column across groupboxes, enable reset functionality,
separate value setters


  Commit: 4d774a02b02dd8222aa94ae650680fa0a2636df3
      https://github.com/VisTrails/VisTrails/commit/4d774a02b02dd8222aa94ae650680fa0a2636df3
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-07 (Wed, 07 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Update preference labels


  Commit: b5276f4c159e18accad5458b0f3546253d3a7b4a
      https://github.com/VisTrails/VisTrails/commit/b5276f4c159e18accad5458b0f3546253d3a7b4a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-08 (Thu, 08 May 2014)

  Changed paths:
    M vistrails/core/mashup/controller.py

  Log Message:
  -----------
  Mashups: Fixes alias copy bug

new_ids=True needs id_remap as well as id_scope

core/mashup/controller.py: Added id_remap={} to alias copy calls


  Commit: 31bfae357aacb8f1944cd0dd2470a8c8e43d8540
      https://github.com/VisTrails/VisTrails/commit/31bfae357aacb8f1944cd0dd2470a8c8e43d8540
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-08 (Thu, 08 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Updates to configuration and preferences

Use QFormLayout for preferences, add shorter descriptions for
preference labels.


  Commit: 295f9aef73c56f38a587ececa5498cabc483de73
      https://github.com/VisTrails/VisTrails/commit/295f9aef73c56f38a587ececa5498cabc483de73
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/gui/repository.py

  Log Message:
  -----------
  Fixes version being unselected after comitting to crowdlabs

gui/repository.py:
  Call change_selected_version with previous version on final controller


  Commit: 92b810d47c333af668f85f21833e3b83aef25081
      https://github.com/VisTrails/VisTrails/commit/92b810d47c333af668f85f21833e3b83aef25081
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Fixes SaveBundle missing mashups after saving

* This caused errors on crowdlabs

db/services/io.py:
  - save_vistrail_bundle_to_zip_xml:
  - save_vistrail_bundle_to_db:
    Added mashup to returned SaveBundle


  Commit: 1d9f63c8f9474988c9c2859bfe5a50572436c909
      https://github.com/VisTrails/VisTrails/commit/1d9f63c8f9474988c9c2859bfe5a50572436c909
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Merge branch 'rewrite-startup' into output-modules

Conflicts:
	vistrails/core/configuration.py


  Commit: 218a3d8e8a091f29de2838f2d3f97f99fd513b4c
      https://github.com/VisTrails/VisTrails/commit/218a3d8e8a091f29de2838f2d3f97f99fd513b4c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Use configuration item widgets


  Commit: 438a07de3a24c15c215a38b83ef579b861659cdc
      https://github.com/VisTrails/VisTrails/commit/438a07de3a24c15c215a38b83ef579b861659cdc
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/core/thumbnails.py

  Log Message:
  -----------
  Fix typo in thumbnail cache deletion


  Commit: d77cebc702ae025543ca80b169ea95d47bce49c6
      https://github.com/VisTrails/VisTrails/commit/d77cebc702ae025543ca80b169ea95d47bce49c6
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-09 (Fri, 09 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Add more configuration functionality

Add system-specific settings and widgets for thumbnail cache clearing
and linux file extension handling.


  Commit: 5ada9ce79bcba0e96aee9abd3a99dcd6fd0bc27e
      https://github.com/VisTrails/VisTrails/commit/5ada9ce79bcba0e96aee9abd3a99dcd6fd0bc27e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-12 (Mon, 12 May 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Old mashuptrails were not deleted correctly in DB

db/services/io.py:
  - save_mashuptrails_to_db:
    Delete all mashuptrails associated with this vistrail
    because the id:s may have changed.


  Commit: 402a7c4475f62665a87f1a8a5fed106c46d21d3c
      https://github.com/VisTrails/VisTrails/commit/402a7c4475f62665a87f1a8a5fed106c46d21d3c
  Author: Tommy Ellqvist <te453 at nyu.edu>
  Date:   2014-05-13 (Tue, 13 May 2014)

  Changed paths:
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Disabled automatic package loading on server


  Commit: 1ed0b649188897e4f34d6a4f8415d084a0532d9a
      https://github.com/VisTrails/VisTrails/commit/1ed0b649188897e4f34d6a4f8415d084a0532d9a
  Author: Tommy Ellqvist <te453 at nyu.edu>
  Date:   2014-05-13 (Tue, 13 May 2014)

  Changed paths:
    M vistrails/core/console_mode.py
    M vistrails/db/services/io.py
    M vistrails/db/services/vistrail.py
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  DB fixes to crowdlabs support

* Method to get mashups with xml gui
* Loading thumbnails from DB always failed
* Add custom parameters to mashup execution when alias is missing
* Fixed mashup not being updated on merge

core/console_mode.py:
  - run_and_get_results:
    Set custom parameter when alias is missing for mashups

db/services/io.py:
  - open_thumbnails_from_db:
    Bug: Table annotation should be action_annotation

db/services/vistrail.py:
  - merge:
    Added copying of all mashups and subworkflows - no merge code exist for them

gui/application_server.py:
  - get_wf_mashups: *new - returns xml gui:s for tagged mashups for a workflow version
  - merge_vt: Add new thumbails to cache
  - executeMedley:
    Added mashup_id to extra_info
    Do not save after execution
    Fixes issue where first image is an empty string
  - *SimpleGUI: Added from_* methods taking instances of vistrail types


  Commit: fc5ec179bdeabf302c2746b82222821c0ecefff1
      https://github.com/VisTrails/VisTrails/commit/fc5ec179bdeabf302c2746b82222821c0ecefff1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/vistrails.dmgCanvas

  Log Message:
  -----------
  Updated copyright year in vistrails.dmgCanvas


  Commit: ef51f172dd9a6e53f4286b2757c4cd51a86bf609
      https://github.com/VisTrails/VisTrails/commit/ef51f172dd9a6e53f4286b2757c4cd51a86bf609
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M scripts/release_notes.py
    M vistrails/core/console_mode.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/db/services/io.py
    M vistrails/db/services/vistrail.py
    M vistrails/gui/application_server.py
    M vistrails/gui/repository.py
    R vistrails/index/__core.py
    R vistrails/index/__init__.py
    R vistrails/index/indexworkflow.py
    R vistrails/index/spec_io.py
    R vistrails/index/vistrailanalyzer.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge remote-tracking branch 'origin/v2.1'

Conflicts:
	vistrails/gui/application_server.py
	vistrails/index/__core.py
	vistrails/index/indexworkflow.py
	vistrails/index/spec_io.py
	vistrails/index/vistrailanalyzer.py


  Commit: e4ac8d98b358b5a4ed9c9577bcf78490542d1c30
      https://github.com/VisTrails/VisTrails/commit/e4ac8d98b358b5a4ed9c9577bcf78490542d1c30
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  updated version to 2.1.2


  Commit: 6c3fa46328df7b529395c3080f8ff8d715a513e0
      https://github.com/VisTrails/VisTrails/commit/6c3fa46328df7b529395c3080f8ff8d715a513e0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/setup.py
    M dist/mac/vistrails.dmgCanvas
    M dist/source/make-vistrails-src-release.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 10504ba51feb66f31fc2fcb66fc42117c12459b3
      https://github.com/VisTrails/VisTrails/commit/10504ba51feb66f31fc2fcb66fc42117c12459b3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M vistrails/gui/resources/images/vistrails_splash.png

  Log Message:
  -----------
  Updated splash to v2.1.2


  Commit: cf009b813ebc650216265a19b1da42ee4455f9e3
      https://github.com/VisTrails/VisTrails/commit/cf009b813ebc650216265a19b1da42ee4455f9e3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 7d8a4ed2feeb5861f5aee6b29e0181f451ced7c5
      https://github.com/VisTrails/VisTrails/commit/7d8a4ed2feeb5861f5aee6b29e0181f451ced7c5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/windows/Input/releaseNotes.txt
    M scripts/release_notes.py

  Log Message:
  -----------
  Updated release notes for 2.1.2


  Commit: 743b3e21ba5ff41844d17ca149a6e8ed6285e3fb
      https://github.com/VisTrails/VisTrails/commit/743b3e21ba5ff41844d17ca149a6e8ed6285e3fb
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M scripts/update_hash.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Updated revision number


  Commit: 1a6607a02df562e1a6ae34df69f6bcf211777a6d
      https://github.com/VisTrails/VisTrails/commit/1a6607a02df562e1a6ae34df69f6bcf211777a6d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M scripts/update_hash.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: d37e38ef5dace71b7d8fd60d410169608e9abe1c
      https://github.com/VisTrails/VisTrails/commit/d37e38ef5dace71b7d8fd60d410169608e9abe1c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M README.md
    A Vagrantfile
    A requirements.txt
    A setup.py
    M vistrails/run.py

  Log Message:
  -----------
  Adds setup scripts (setup.py, reqs, Vagrantfile)


  Commit: df0c9df744b53ec8bf4d9b1df4bdb823fe14a3aa
      https://github.com/VisTrails/VisTrails/commit/df0c9df744b53ec8bf4d9b1df4bdb823fe14a3aa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M README.md
    M contrib/NumSciPy/ArrayAccess.py
    M contrib/NumSciPy/ArrayConvert.py
    M contrib/NumSciPy/ArrayIO.py
    M contrib/NumSciPy/ArrayInterpolate.py
    M contrib/NumSciPy/ArrayOperations.py
    M contrib/NumSciPy/ArrayPlot.py
    M contrib/NumSciPy/ArrayUtilities.py
    M contrib/NumSciPy/DSP.py
    M contrib/NumSciPy/EnsembleOrdering.py
    M contrib/NumSciPy/Filters.py
    M contrib/NumSciPy/Imaging.py
    M contrib/NumSciPy/Matrix.py
    M contrib/NumSciPy/MatrixUtilities.py
    M contrib/NumSciPy/Stockwell.py
    M contrib/ParaView/PVBase.py
    M contrib/ParaView/init.py
    M contrib/ParaView/pvcell.py
    M contrib/SCIRun/__init__.py
    M contrib/SCIRun/cm2viewcell.py
    M contrib/SCIRun/viewercell.py
    M contrib/SciPy/DSP.py
    M contrib/SciPy/Filters.py
    M contrib/SciPy/MatlabReader.py
    M contrib/SciPy/MatrixConvert.py
    M contrib/SciPy/MatrixInfo.py
    M contrib/SciPy/MatrixOperations.py
    M contrib/TetGenBridge/CreateTestSurf.py
    M contrib/TetGenBridge/__init__.py
    M contrib/cdat/__init__.py
    M contrib/cdat/cdat_cell.py
    M contrib/cdat/quickplot.py
    M contrib/cdat/scripts/cdat_domain.py
    M contrib/cdat/scripts/gen_init.py
    M contrib/cdat/scripts/old_cdat_init.py
    M contrib/edu_utah_sci_cscheid_macet/__init__.py
    M contrib/edu_utah_sci_cscheid_metro/__init__.py
    M contrib/edu_utah_sci_cscheid_teem/__init__.py
    M contrib/edu_utah_sci_eranders_proteindatabank/PDB.py
    M contrib/edu_utah_sci_vgc_afront/__init__.py
    M contrib/itk/FeatureExtractionFilters.py
    M contrib/itk/GradientFilters.py
    M contrib/itk/ITK.py
    M contrib/itk/Image.py
    M contrib/itk/ImageReader.py
    M contrib/itk/IntensityFilters.py
    M contrib/itk/NeighborhoodFilters.py
    M contrib/itk/PixelType.py
    M contrib/itk/SegmentationFilters.py
    M contrib/itk/SelectionFilters.py
    M contrib/itk/SmoothingFilters.py
    M contrib/itk/ThresholdFilters.py
    M contrib/itk/filter_generator.py
    M contrib/meshutils.py
    M contrib/mobile/__init__.py
    M contrib/pc3/__init__.py
    M contrib/poissonrecon.py
    M contrib/provenance/__init__.py
    M contrib/provenance2/__init__.py
    M contrib/sahm/SahmOutputViewer.py
    M contrib/sahm/SahmSpatialOutputViewer.py
    M contrib/sahm/init.py
    M contrib/sahm/utils.py
    M contrib/stem/init.py
    M contrib/titan/base_module.py
    M contrib/titan/init.py
    M contrib/titan/inspectors.py
    M contrib/titan/offscreen.py
    M contrib/titan/tf_widget.py
    M contrib/titan/vtkcell.py
    M contrib/titan/vtkhandler.py
    M contrib/titan/vtkviewcell.py
    M contrib/trimesh2.py
    M contrib/vtksnl/base_module.py
    M contrib/vtksnl/init.py
    M contrib/vtksnl/inspectors.py
    M contrib/vtksnl/offscreen.py
    M contrib/vtksnl/tf_widget.py
    M contrib/vtksnl/vtkcell.py
    M contrib/vtksnl/vtkhandler.py
    M contrib/vtksnl/vtkviewcell.py
    M dist/common/splash/splash.svg
    M dist/windows/Input/runvistrails.py
    M dist/windows/Input/startup.py
    M doc/usersguide/Makefile
    M doc/usersguide/_static/mystyle.css
    A doc/usersguide/api_documentation.rst
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/developer.rst
    M doc/usersguide/example.rst
    M doc/usersguide/example_webservices.rst
    R doc/usersguide/figures/packages/CustomColorShape1.png
    R doc/usersguide/figures/packages/CustomColorShape2.png
    R doc/usersguide/figures/packages/CustomColorShape3.png
    A doc/usersguide/figures/packages/fancy_module1.png
    A doc/usersguide/figures/packages/fancy_module2.png
    A doc/usersguide/figures/packages/fancy_module3.png
    A doc/usersguide/figures/packages/fancy_ports.png
    M doc/usersguide/intro.rst
    R doc/usersguide/intro2.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/packages.rst
    M doc/usersguide/persistence.rst
    M doc/usersguide/preface.rst
    R doc/usersguide/preliminary.rst
    M doc/usersguide/pythoncalc.rst
    A doc/usersguide/pythoncalc_file1.rst
    M doc/usersguide/tabledata.rst
    M doc/usersguide/vistrails_server.rst
    A examples/hadoop-nodeinfo.vt
    M examples/matplotlib/Arrow_ex9.vt
    A examples/mta.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M examples/terminator.vt
    A examples/weather.vt
    M scripts/build_usersguide.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    A scripts/generate_pkg_doc.py
    A scripts/retarget_mpl_libs.sh
    M vistrails/core/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/common.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    A vistrails/core/interpreter/job.py
    M vistrails/core/interpreter/utils.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/log/controller.py
    M vistrails/core/log/log.py
    M vistrails/core/log/loop_exec.py
    M vistrails/core/log/workflow_exec.py
    M vistrails/core/mashup/__init__.py
    M vistrails/core/mashup/action.py
    M vistrails/core/mashup/action_annotation.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    A vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_descriptor.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/query/combined.py
    M vistrails/core/query/multiple.py
    M vistrails/core/query/version.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/requirements.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    A vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/unix.py
    M vistrails/core/system/windows.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    R vistrails/core/utils/lockmethod.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/action.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/generate.py
    M vistrails/db/bin/parser.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/action.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/specs/all.xml
    M vistrails/db/tests/setup_db_tables.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/v0_3_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_5_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_5_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_5_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_6_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_6_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_7_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_7_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_8_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_8_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_4/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_4/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_5/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_5/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_2/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_2/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debug.py
    M vistrails/gui/debugger.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/modules/__init__.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    A vistrails/gui/modules/utils.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    M vistrails/gui/repository.py
    R vistrails/gui/resources/images/camera.png
    A vistrails/gui/resources/images/eye_closed.png
    M vistrails/gui/resources/images/vistrails_splash.png
    M vistrails/gui/shell.py
    M vistrails/gui/utils.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    R vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    M vistrails/packages/ImageMagick/init.py
    M vistrails/packages/JobSubmission/init.py
    M vistrails/packages/JobSubmission/machine.py
    A vistrails/packages/RemoteQ/README
    A vistrails/packages/RemoteQ/__init__.py
    A vistrails/packages/RemoteQ/base.py
    A vistrails/packages/RemoteQ/hdfs.py
    A vistrails/packages/RemoteQ/init.py
    A vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/controlflow/conditional.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/controlflow/order.py
    M vistrails/packages/controlflow/products.py
    M vistrails/packages/controlflow/utils.py
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mixins.py
    M vistrails/packages/matplotlib/mpl_artists.xml
    M vistrails/packages/matplotlib/mpl_artists_diff.xml
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/mpl_plots_raw.xml
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalc/__init__.py
    M vistrails/packages/pythonCalc/init.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/spreadsheet/init.py
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    A vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    A vistrails/packages/tabledata/test_files/xl.xls
    M vistrails/packages/tabledata/viewer.py
    A vistrails/packages/tabledata/widgets.py
    A vistrails/packages/tabledata/write/__init__.py
    A vistrails/packages/tabledata/write/write_csv.py
    A vistrails/packages/tabledata/write/write_excel.py
    A vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/offscreen.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/packages/vtlcreator/init.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/console_mode_test.py
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/run_on_mac.sh
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into 'deployment/master'


  Commit: 5397749e7c4712c9a3153096df4cafa6ec288d4b
      https://github.com/VisTrails/VisTrails/commit/5397749e7c4712c9a3153096df4cafa6ec288d4b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M Vagrantfile
    M requirements.txt

  Log Message:
  -----------
  Updates requirements for master branch


  Commit: 5d27c588fc4bdfc1934f2ee2b115e8ffee85ad56
      https://github.com/VisTrails/VisTrails/commit/5d27c588fc4bdfc1934f2ee2b115e8ffee85ad56
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    A vistrails/tests/__main__.py

  Log Message:
  -----------
  Adds vistrails.tests.__main__

This allows using "python -m vistrails.tests" to run the unit tests.


  Commit: 88602b08cfaecccd00a3ec7ea08d2d57a8c4720c
      https://github.com/VisTrails/VisTrails/commit/88602b08cfaecccd00a3ec7ea08d2d57a8c4720c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Discovers the packages to install


  Commit: 0ba993b0bb229f68dc6ad60636e62a4c8d42ff17
      https://github.com/VisTrails/VisTrails/commit/0ba993b0bb229f68dc6ad60636e62a4c8d42ff17
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Adds the package data


  Commit: 33e84b1aad16818242040b1921b569f22123031f
      https://github.com/VisTrails/VisTrails/commit/33e84b1aad16818242040b1921b569f22123031f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Makes runtestsuite's atexit function safer


  Commit: 70b94b046f2fb8046eac45fc5175ce9da232d36f
      https://github.com/VisTrails/VisTrails/commit/70b94b046f2fb8046eac45fc5175ce9da232d36f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Don't run thumbnail comparisons without examples/


  Commit: 7ae3a8efb7a1be8ace59a26a71badf3bb5c1e5b0
      https://github.com/VisTrails/VisTrails/commit/7ae3a8efb7a1be8ace59a26a71badf3bb5c1e5b0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-14 (Wed, 14 May 2014)

  Changed paths:
    M setup.py
    A vistrails/tests/__main__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'deployment/master'


  Commit: 023ecfd4946d8f56399ced798e7ab2d8eb114974
      https://github.com/VisTrails/VisTrails/commit/023ecfd4946d8f56399ced798e7ab2d8eb114974
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-15 (Thu, 15 May 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Fixed example includes in windows build scripts


  Commit: 0d707b8374d40abdc03adf96bc2a256dbe952dcf
      https://github.com/VisTrails/VisTrails/commit/0d707b8374d40abdc03adf96bc2a256dbe952dcf
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-15 (Thu, 15 May 2014)

  Changed paths:
    M contrib/NumSciPy/ArrayConvert.py
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/mac/vistrails.dmgCanvas
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/Input/startup.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/persistence.rst
    M doc/usersguide/tabledata.rst
    M examples/matplotlib/Arrow_ex9.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M scripts/create_release_wiki_table.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M scripts/release_notes.py
    M scripts/update_db.py
    M scripts/update_hash.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/generate.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debugger.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/repository.py
    R vistrails/gui/resources/images/camera.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    R vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    R vistrails/index/__core.py
    R vistrails/index/__init__.py
    R vistrails/index/indexworkflow.py
    R vistrails/index/spec_io.py
    R vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    M vistrails/packages/SUDSWebServices/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/camera.png
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/init.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell.qrc
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into automatic-loops-streaming

Conflicts:
	vistrails/core/modules/basic_modules.py
	vistrails/core/modules/sub_module.py
	vistrails/core/modules/vistrails_module.py


  Commit: f9eb03b4d7bd8e5f9d8cf36653883db5dbb11ab1
      https://github.com/VisTrails/VisTrails/commit/f9eb03b4d7bd8e5f9d8cf36653883db5dbb11ab1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/workflow.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/module_iteration.py
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Created new schema version 1.0.4

* Moved controlPartameters to new schema
* Fixed merge with master
* Added upgrades for controlParameters

core/modules/basic_modules.py:
- Iterator: Made it a non-module because we do not pass modules on connections anymore.

core/modules/module_registry.py: Removed references to Iterator

core/modules/vistrails_module.py:
  - typeChecking: Allow Iterators that are not streaming

core/upgradeworkflow.py:
  Added upgrades for controlParameters
  Removed {} as default arguments in methods

gui/module_iteration.py:
  Fixed issue when controller is None

Updated to version 1.0.4:
tests/resources/test-list-custom.vt
tests/resources/test-streaming.vt

Made 1.0.4 the default schema:
db/domain/__init__.py
db/persistence/__init__.py
db/versions/__init__.py

Restored 1.0.3 schema:
db/versions/v1_0_3/domain/auto_gen.py
db/versions/v1_0_3/persistence/sql/auto_gen.py
db/versions/v1_0_3/persistence/xml/auto_gen.py
db/versions/v1_0_3/schemas/sql/vistrails.sql
db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
db/versions/v1_0_3/schemas/xml/vistrail.xsd
db/versions/v1_0_3/schemas/xml/workflow.xsd
db/versions/v1_0_3/specs/all.xml
db/versions/v1_0_3/translate/v1_0_4.py

Added new schema:
db/versions/v1_0_4/__init__.py
db/versions/v1_0_4/domain/__init__.py
db/versions/v1_0_4/domain/auto_gen.py
db/versions/v1_0_4/domain/id_scope.py
db/versions/v1_0_4/domain/log.py
db/versions/v1_0_4/domain/registry.py
db/versions/v1_0_4/domain/vistrail.py
db/versions/v1_0_4/domain/workflow.py
db/versions/v1_0_4/persistence/__init__.py
db/versions/v1_0_4/persistence/sql/__init__.py
db/versions/v1_0_4/persistence/sql/auto_gen.py
db/versions/v1_0_4/persistence/sql/sql_dao.py
db/versions/v1_0_4/persistence/xml/__init__.py
db/versions/v1_0_4/persistence/xml/auto_gen.py
db/versions/v1_0_4/persistence/xml/xml_dao.py
db/versions/v1_0_4/schemas/sql/vistrails.sql
db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
db/versions/v1_0_4/schemas/xml/log.xsd
db/versions/v1_0_4/schemas/xml/vistrail.xsd
db/versions/v1_0_4/schemas/xml/vtlink.xsd
db/versions/v1_0_4/schemas/xml/workflow.xsd
db/versions/v1_0_4/specs/all.xml
db/versions/v1_0_4/translate/__init__.py
db/versions/v1_0_4/translate/v1_0_3.py


  Commit: 41d72335eb6e5a56a362e247d41a9d8b0e0f423b
      https://github.com/VisTrails/VisTrails/commit/41d72335eb6e5a56a362e247d41a9d8b0e0f423b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/tests/resources/test-implicit-while.vt

  Log Message:
  -----------
  test-implicit-while.vt: Fixed to use controlParameters


  Commit: 119a0c8d6fc81fd4de23415b592060431e0fbce4
      https://github.com/VisTrails/VisTrails/commit/119a0c8d6fc81fd4de23415b592060431e0fbce4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M examples/list-handling.vt

  Log Message:
  -----------
  list-handling.vt: Fixed to use controlParameters


  Commit: 1dbbee390aed20dee358ac40f5012b46250a0d16
      https://github.com/VisTrails/VisTrails/commit/1dbbee390aed20dee358ac40f5012b46250a0d16
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/run.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Adds shebangs to run.py and vistrails_server.py


  Commit: a36fc9a82fa0f1f84afc551b2459660c3e978254
      https://github.com/VisTrails/VisTrails/commit/a36fc9a82fa0f1f84afc551b2459660c3e978254
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/identifiers.py

  Log Message:
  -----------
  Add MplFigureToFile module

Support LSU request to have matplotlib plots output to files in the
workflow.

Conflicts:
	vistrails/packages/matplotlib/identifiers.py


  Commit: fc0bf452116f1d0d1672465c6d46b1fd87637d12
      https://github.com/VisTrails/VisTrails/commit/fc0bf452116f1d0d1672465c6d46b1fd87637d12
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Update for new-style Module calls


  Commit: 7534ebafe6228e32fa59d6b61ec198bc7ec0ae35
      https://github.com/VisTrails/VisTrails/commit/7534ebafe6228e32fa59d6b61ec198bc7ec0ae35
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/gui/version_view.py

  Log Message:
  -----------
  Fixes version nodes turning white

Ticket: 859


  Commit: d16e48a9c16e5a2ee44944b89cf801e63cacf003
      https://github.com/VisTrails/VisTrails/commit/d16e48a9c16e5a2ee44944b89cf801e63cacf003
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-19 (Mon, 19 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/thumbnails.py
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Merge branch 'rewrite-startup' into output-modules


  Commit: 28dbb06f44bc84f844c948d9bfcd443e86406741
      https://github.com/VisTrails/VisTrails/commit/28dbb06f44bc84f844c948d9bfcd443e86406741
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-20 (Tue, 20 May 2014)

  Changed paths:
    M vistrails/core/console_mode.py
    M vistrails/core/interpreter/job.py
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Made Jobs sharable between executions

Before, running a new workflow would not use jobs from previous workflows, not
even from the same workflow version.  Now jobs exist outside workflow
executions. Combined wit using the original module signature, this makes it
work better as a cache.

core/interpreter/job.py:
  - Jobs now exist outside workflows, but workflows still reference jobs.
  - Renamed modules -> jobs

core/console_mode.py: Modified job manager method names
gui/job_monitor.py: Modified job manager method names


  Commit: f245cffd1b4d5eaf3bcb9e3ee70855359876c8a7
      https://github.com/VisTrails/VisTrails/commit/f245cffd1b4d5eaf3bcb9e3ee70855359876c8a7
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-20 (Tue, 20 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/output_modules.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Add support for global output settings

Refactor code so we can use same widgets as the output module
configurations.  Make ConfigurationObject work as dict interface. Add
method to find subclasses of a particular descriptor.


  Commit: 93da2bf4dcb8bff22298846e9afab2bd0fa02835
      https://github.com/VisTrails/VisTrails/commit/93da2bf4dcb8bff22298846e9afab2bd0fa02835
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-21 (Wed, 21 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fix bug where update didn't update subconfigs


  Commit: 1dd8336c6857841d4f3775dbaf49f182a8132e3c
      https://github.com/VisTrails/VisTrails/commit/1dd8336c6857841d4f3775dbaf49f182a8132e3c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-21 (Wed, 21 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/thumbnails.py
    M vistrails/core/vistrail/controller.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application_server.py
    M vistrails/gui/configuration.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Use non-absolute path for dotVistrails subdirs

The configuration used to use $DOT_VISTRAILS which was clunky. This
adds a system method get_vistrails_directory that checks if the path
is absolute and otherwise prepends the dotVistrails path.  Also,
rename existing settings to "*Dir" from "*Directory" so backward
compatibility exists.


  Commit: 441cfe272ae266a90a598334e07cb1b1bf6307c2
      https://github.com/VisTrails/VisTrails/commit/441cfe272ae266a90a598334e07cb1b1bf6307c2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M doc/usersguide/example.rst
    A doc/usersguide/list_handling.rst
    A doc/usersguide/streaming.rst
    A doc/usersguide/vtl/list-handling.vtl
    A doc/usersguide/vtl/streaming.vtl
    A examples/list-handling.vt
    A examples/streaming.vt
    M vistrails/core/cache/hasher.py
    M vistrails/core/db/io.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/__init__.py
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/collection/vis_log.py
    A vistrails/gui/module_iteration.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/controlflow/fold.py
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Merge branch 'automatic-loops-streaming'


  Commit: 5a10827ed71c12c93c7c1a8082263cb08307a9ec
      https://github.com/VisTrails/VisTrails/commit/5a10827ed71c12c93c7c1a8082263cb08307a9ec
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M examples/streaming.vt
    M vistrails/core/modules/vistrails_module.py
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Use pragma as STREAMING tag

vistrails/core/modules/vistrails_module.py:
  "#STREAMING" tag in PythonSource:s changed to "# pragma: streaming"

Updated examples:
  examples/streaming.vt
  vistrails/tests/resources/test-streaming.vt


  Commit: ab0d6288ea0e28b574e73d07fc44552c091973e1
      https://github.com/VisTrails/VisTrails/commit/ab0d6288ea0e28b574e73d07fc44552c091973e1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    A vistrails/core/vistrail/module_control_param.py

  Log Message:
  -----------
  Added missing file core/vistrail/module_control_param.py


  Commit: 68b90244890e84176969b4c514582a1be0fc5725
      https://github.com/VisTrails/VisTrails/commit/68b90244890e84176969b4c514582a1be0fc5725
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/gui/module_iteration.py

  Log Message:
  -----------
  Fixes typo in QModuleIteration dialog


  Commit: 2afc3224d1b4cc5730479d19f3f4dbaf5ce86f96
      https://github.com/VisTrails/VisTrails/commit/2afc3224d1b4cc5730479d19f3f4dbaf5ce86f96
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/tests/resources/test-implicit-while.vt

  Log Message:
  -----------
  tests/resources/test-implicit-while.vt: Removed '\r' from PythonSorce

Older versions of PythonSource could use '\r' as line break, which is wrong.


  Commit: ec3ce31b451674b12f3c962fc42211c4587e6be9
      https://github.com/VisTrails/VisTrails/commit/ec3ce31b451674b12f3c962fc42211c4587e6be9
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Reset package dir to use configuration

The package directory is not relative to dotVistrails so we should not
be using get_vistrails_directory.


  Commit: a68dceea0e30f1e899cbfd7bea76bca6dae1fa77
      https://github.com/VisTrails/VisTrails/commit/a68dceea0e30f1e899cbfd7bea76bca6dae1fa77
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/core/startup.py
    M vistrails/db/services/io.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    R vistrails/tests/resources/startup-0.1.xml
    A vistrails/tests/resources/startup-0.1.xml.tmpl

  Log Message:
  -----------
  Fix translation for new dir config setup

Also creates a startup-0.1.xml.tmpl file so we can test the
dotVistrails translation which will be system-specific.  We insert the
correct path to the template.


  Commit: 51f9110b5a541bd2e06c139f104f6d7caa13245f
      https://github.com/VisTrails/VisTrails/commit/51f9110b5a541bd2e06c139f104f6d7caa13245f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/gui/module_iteration.py

  Log Message:
  -----------
  Do not rely on QTreeWidget subclassing

gui/module_iteration.py:
  On Qt 4.7.4, subclassing QTreeWidgetItem does not work. Instead we use type() and text()


  Commit: 8fec09acddcdab18bc6110954cc4ad057745af6e
      https://github.com/VisTrails/VisTrails/commit/8fec09acddcdab18bc6110954cc4ad057745af6e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-22 (Thu, 22 May 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/tests/resources/startup-0.1.xml.tmpl

  Log Message:
  -----------
  Add logic to keep new settings

The initial upgrade to the new startup format will run upgrades, but
later changes will not, allowing a user to translate back and forth,
realizing the environments are not translated.


  Commit: 08e2a3668d99925fbd619672fc50cfb9d13b5418
      https://github.com/VisTrails/VisTrails/commit/08e2a3668d99925fbd619672fc50cfb9d13b5418
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-23 (Fri, 23 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Unittest.skipIf does not exist on Python 2.6

core/modules/basic_modules.py:
  Use unittest2 when available


  Commit: fccbca356aa52d9e29a90f97bd8e11976dcef3ac
      https://github.com/VisTrails/VisTrails/commit/fccbca356aa52d9e29a90f97bd8e11976dcef3ac
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-23 (Fri, 23 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  exec in Python 2.6 needs code to end in newline

core/modules/basic_modules.py:
  - CodeRunnerMixin:
    Append newline befor executing code


  Commit: ea0b3827556303f99adfaa683668af51316bb658
      https://github.com/VisTrails/VisTrails/commit/ea0b3827556303f99adfaa683668af51316bb658
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-23 (Fri, 23 May 2014)

  Changed paths:
    M vistrails/tests/resources/test-implicit-while.vt
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Fixed newline in test files

tests/resources/test-implicit-while.vt
tests/resources/test-list-custom.vt
tests/resources/test-streaming.vt


  Commit: 53dc2fe4aa56065a23c779c92c621144492a39b3
      https://github.com/VisTrails/VisTrails/commit/53dc2fe4aa56065a23c779c92c621144492a39b3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-23 (Fri, 23 May 2014)

  Changed paths:
    A doc/usersguide/figures/list_handling/list-combine-workflow.png
    A doc/usersguide/figures/list_handling/list-combine.png

  Log Message:
  -----------
  list-combine: Added missing usersguide figures

doc/usersguide/figures/list_handling/list-combine-workflow.png
doc/usersguide/figures/list_handling/list-combine.png


  Commit: 53906ddbd3046d3bb9f5715c3700dd1c926cf8db
      https://github.com/VisTrails/VisTrails/commit/53906ddbd3046d3bb9f5715c3700dd1c926cf8db
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-23 (Fri, 23 May 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/tests/resources/startup-0.1.xml.tmpl

  Log Message:
  -----------
  Add methods to migrate settings to packages

There were some global configuration settings that make more sense as
package settings (e.g. fixedSpreadsheetCells, spreadsheetDumpPDF).
The possible reason for extra_info existing is that modifying the
package configuration settings is not straightforward currently.


  Commit: 518606ce841465f6351264a3562baab0ddfb2f03
      https://github.com/VisTrails/VisTrails/commit/518606ce841465f6351264a3562baab0ddfb2f03
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-26 (Mon, 26 May 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/utils/__init__.py
    M vistrails/gui/job_monitor.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Merge branch 'jobs-use-signatures'

* Affected methods in controlflow/map.py were moved to vistrails_module.py


  Commit: efc762553e2aedb366e6e85761523264d7af4c65
      https://github.com/VisTrails/VisTrails/commit/efc762553e2aedb366e6e85761523264d7af4c65
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-26 (Mon, 26 May 2014)

  Changed paths:
    M doc/usersguide/example.rst
    A doc/usersguide/figures/list_handling/list-combine-workflow.png
    A doc/usersguide/figures/list_handling/list-combine.png
    A doc/usersguide/list_handling.rst
    A doc/usersguide/streaming.rst
    A doc/usersguide/vtl/list-handling.vtl
    A doc/usersguide/vtl/streaming.vtl
    A examples/list-handling.vt
    A examples/streaming.vt
    M vistrails/core/cache/hasher.py
    M vistrails/core/db/io.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    A vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/__init__.py
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/job_monitor.py
    A vistrails/gui/module_iteration.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/parallelflow/map.py
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Merge branch 'master' into job-cache


  Commit: 6439e21efe6ff0e0a484a13e59b8642b35c7298e
      https://github.com/VisTrails/VisTrails/commit/6439e21efe6ff0e0a484a13e59b8642b35c7298e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-27 (Tue, 27 May 2014)

  Changed paths:
    M vistrails/core/interpreter/job.py
    M vistrails/gui/application.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Set default job name to module class name

core/interpreter/job.py:
  Set default job nasme to self.__class__.__name__

Renamed _running_Workflows -> workflows
  gui/application.py
  gui/vistrail_controller.py
  gui/vistrails_window.py


  Commit: 9e1523b490312c95a129d8e1849502fc99a3c062
      https://github.com/VisTrails/VisTrails/commit/9e1523b490312c95a129d8e1849502fc99a3c062
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/gui/module_iteration.py

  Log Message:
  -----------
  Added method for persistent caching of outputs using jobs

Adds persistent caching of outputs for any module using new
control parameter job_cache

core/modules/vistrails_module.py:
  Added job_cache control parameter and checking/setting job cache for
  modules that use it.

gui/module_iteration.py: Added gui to set job_cache


  Commit: 4b51e83b410ba3f08e4767e9acee06efa9f92fce
      https://github.com/VisTrails/VisTrails/commit/4b51e83b410ba3f08e4767e9acee06efa9f92fce
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    R vistrails/gui/module_iteration.py
    A vistrails/gui/module_options.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Renamed ModuleIteration -> ModuleOptions

Because it now contains non-looping options
Also fixed issue with saving

gui/module_iteration.py -> gui/module_options.py
gui/pipeline_view.py: Changed action name
gui/vistrails_window.py: Updated imports


  Commit: 94fdefd3300904f84c9bf5de1d14bf4d204f4078
      https://github.com/VisTrails/VisTrails/commit/94fdefd3300904f84c9bf5de1d14bf4d204f4078
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fix typo in configuration specification


  Commit: 34e77c7faf7ffff6b434d935833c032d76f5ead1
      https://github.com/VisTrails/VisTrails/commit/34e77c7faf7ffff6b434d935833c032d76f5ead1
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fix issue where configuration wasn't cleanly copied


  Commit: 37496ad1724f212fab40acc85e048e69ba0fd3f8
      https://github.com/VisTrails/VisTrails/commit/37496ad1724f212fab40acc85e048e69ba0fd3f8
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/gui/configuration.py

  Log Message:
  -----------
  Don't trigger signals on initial config settings


  Commit: ca171b0f900b30d623c0d834e9fac087cedbd78f
      https://github.com/VisTrails/VisTrails/commit/ca171b0f900b30d623c0d834e9fac087cedbd78f
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Fix typo in controller


  Commit: 3364d2e0eec11d51cafbfa933ff248b99a6ec0dc
      https://github.com/VisTrails/VisTrails/commit/3364d2e0eec11d51cafbfa933ff248b99a6ec0dc
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-28 (Wed, 28 May 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Fix test suite to use spreadsheet-specific setting

Use spreadsheet.fixedCellSize instead of fixedSpreadsheetCells


  Commit: 069c52f90130540437ef2daf969bb608a51b28d4
      https://github.com/VisTrails/VisTrails/commit/069c52f90130540437ef2daf969bb608a51b28d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Hide splashscreen when asking for file association


  Commit: dc8a81979a28ec55fc6930b93ad14284e6a5a038
      https://github.com/VisTrails/VisTrails/commit/dc8a81979a28ec55fc6930b93ad14284e6a5a038
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M vistrails/gui/application.py
    M vistrails/run.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: a9cad86c253399d696abdc98044c85c3ebae1771
      https://github.com/VisTrails/VisTrails/commit/a9cad86c253399d696abdc98044c85c3ebae1771
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/init.py

  Log Message:
  -----------
  Add missing tabledata upgrade for JSONFile

JSONFile was renamed to JSONTable in 9e493348 but no upgrade path was
included.  This commit bumps the version and adds the necessary
upgrade.


  Commit: 0b0d33645c049de6fa782dca62e89ffccbeeb5fc
      https://github.com/VisTrails/VisTrails/commit/0b0d33645c049de6fa782dca62e89ffccbeeb5fc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removed unittest.skipIf that causes vistrails to fail on Python 2.6

Replaced by raising SkipTest in the method


  Commit: ca2a36d37362af9213a204d207dab13384a468aa
      https://github.com/VisTrails/VisTrails/commit/ca2a36d37362af9213a204d207dab13384a468aa
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: f32aee1fd584e0c40b9377bb7ce832d3723e31b5
      https://github.com/VisTrails/VisTrails/commit/f32aee1fd584e0c40b9377bb7ce832d3723e31b5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removed unittest2 import from basic_modules.py

The skipIf issue has been fixed and runtestsuite.py
handles the unittest2 import.


  Commit: 815ea0a05dca56842c270496d4fac131d455e161
      https://github.com/VisTrails/VisTrails/commit/815ea0a05dca56842c270496d4fac131d455e161
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/packages/tabledata/operations.py

  Log Message:
  -----------
  Fix bug in SelectFromTable

Need to use length of matched rows, not length of original table


  Commit: 86e12ff67848401e3eb3f6a1e2ecef795be6d21e
      https://github.com/VisTrails/VisTrails/commit/86e12ff67848401e3eb3f6a1e2ecef795be6d21e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Add convenience mode to add functions in upgrades

Use None in the function remaps to add functions


  Commit: b46e3671e8cd73978ce42c55b5c1ef8ebd1186f3
      https://github.com/VisTrails/VisTrails/commit/b46e3671e8cd73978ce42c55b5c1ef8ebd1186f3
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py

  Log Message:
  -----------
  Fix bugs in the upgrades for tabledata

Add the key_name="_key" upgrade, fix JSONFile->JSONObject, and fix
identifiers.


  Commit: ad76d08002c277b79579f39d2ef59e8fc979e598
      https://github.com/VisTrails/VisTrails/commit/ad76d08002c277b79579f39d2ef59e8fc979e598
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Added test for run.py

Run run.py using --spawned and -b


  Commit: 16ae73e8c030fda93c0810e7f2b20805ad52a26e
      https://github.com/VisTrails/VisTrails/commit/16ae73e8c030fda93c0810e7f2b20805ad52a26e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    M vistrails/packages/tabledata/operations.py

  Log Message:
  -----------
  Add AggregateColumn module to tabledata


  Commit: 114a94e1dfbc659d7e3f689bab225d53b1ee0017
      https://github.com/VisTrails/VisTrails/commit/114a94e1dfbc659d7e3f689bab225d53b1ee0017
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-29 (Thu, 29 May 2014)

  Changed paths:
    A examples/mta-yankees.vt
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py

  Log Message:
  -----------
  Update gmaps package, add new example

Adds new visualization types, also extends the mta.vt example to
mta-yankees.vt that includes matplotlib plots, aggregation.


  Commit: 23b876361f5469c64238990edc4a9339105e2423
      https://github.com/VisTrails/VisTrails/commit/23b876361f5469c64238990edc4a9339105e2423
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Prevents recursive import of runtestsuite.py

The newly-imported version would raise SystemExit, so everything was
fine, except that an 'application already created' message would pop up
and show up in the log.


  Commit: 007978a3bdda44fceca118823ef89cda59f29c8c
      https://github.com/VisTrails/VisTrails/commit/007978a3bdda44fceca118823ef89cda59f29c8c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Fixes import override tests


  Commit: f7c4b96860a8481635fc837f771b69d6f7f9342a
      https://github.com/VisTrails/VisTrails/commit/f7c4b96860a8481635fc837f771b69d6f7f9342a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'deployment/master'


  Commit: 1a99304751b9fc979345160e829ce9024b8259db
      https://github.com/VisTrails/VisTrails/commit/1a99304751b9fc979345160e829ce9024b8259db
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py

  Log Message:
  -----------
  Opts-out more module from import test


  Commit: 4e118e552930bd8b38de063aa74338ecdcfbbc5a
      https://github.com/VisTrails/VisTrails/commit/4e118e552930bd8b38de063aa74338ecdcfbbc5a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/identifiers.py
    M vistrails/packages/URL/init.py

  Log Message:
  -----------
  Moves URL identifiers to identifiers.py


  Commit: 3431715f1673d657cfdd48634a4a20b38190a4b4
      https://github.com/VisTrails/VisTrails/commit/3431715f1673d657cfdd48634a4a20b38190a4b4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/example.rst
    A doc/usersguide/figures/list_handling/list-combine-workflow.png
    A doc/usersguide/figures/list_handling/list-combine.png
    A doc/usersguide/list_handling.rst
    A doc/usersguide/streaming.rst
    A doc/usersguide/vtl/list-handling.vtl
    A doc/usersguide/vtl/streaming.vtl
    A examples/list-handling.vt
    A examples/mta-yankees.vt
    A examples/streaming.vt
    M vistrails/core/cache/hasher.py
    M vistrails/core/db/io.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    A vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/__init__.py
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/job_monitor.py
    A vistrails/gui/module_iteration.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/identifiers.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/run.py
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into 'deployment/master'


  Commit: 14b5f50f539a2ab2c4d233ea1c2970f13dce9977
      https://github.com/VisTrails/VisTrails/commit/14b5f50f539a2ab2c4d233ea1c2970f13dce9977
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Adds certifi and ssl_match_hostname to deps


  Commit: d04304141a761c4c4227f3056301e36c1cfd36f8
      https://github.com/VisTrails/VisTrails/commit/d04304141a761c4c4227f3056301e36c1cfd36f8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M Vagrantfile
    M requirements.txt

  Log Message:
  -----------
  Minor dependency fixes


  Commit: 983ce506c9c5510af821d77755779fe2f8ea53c6
      https://github.com/VisTrails/VisTrails/commit/983ce506c9c5510af821d77755779fe2f8ea53c6
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-05-30 (Fri, 30 May 2014)

  Changed paths:
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py

  Log Message:
  -----------
  Use layers for GMaps package

Instead of having separate cell types as the current version of the
gmaps package does, create layers for the different types of
visualizations.  This simplifies the code and allows multiple
data/visualizations in a single map cell.


  Commit: 8d49face4641c9c80169c01f336d57a0a7e1ef6c
      https://github.com/VisTrails/VisTrails/commit/8d49face4641c9c80169c01f336d57a0a7e1ef6c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 34f9a3f8b3b4bf0676a8fd5b0467c229a3470781
      https://github.com/VisTrails/VisTrails/commit/34f9a3f8b3b4bf0676a8fd5b0467c229a3470781
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M requirements.txt
    M setup.py

  Log Message:
  -----------
  Removes ctypes from dependencies

It is part of the standard library on 2.6 and 2.7, and the package is a
pain to install (C module, externally hosted).


  Commit: 782c17eb6c86448085c694f9f2d29f8765d1b0d3
      https://github.com/VisTrails/VisTrails/commit/782c17eb6c86448085c694f9f2d29f8765d1b0d3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M requirements.txt
    M setup.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'deployment/master'

Conflicts:
	requirements.txt


  Commit: 39c0727eb06a79dd24969b49d2e540193d3f7066
      https://github.com/VisTrails/VisTrails/commit/39c0727eb06a79dd24969b49d2e540193d3f7066
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Suppresses unzip command output in UnZip module


  Commit: 2cea41e7daf48ce5b50faaf745afb63e87878385
      https://github.com/VisTrails/VisTrails/commit/2cea41e7daf48ce5b50faaf745afb63e87878385
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Replaces 'unzip' executable with zipfile


  Commit: b876376caaf9ddd7dd74824f446353ea93a8b58f
      https://github.com/VisTrails/VisTrails/commit/b876376caaf9ddd7dd74824f446353ea93a8b58f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Replaces 'zip' executable with zipfile


  Commit: c8c100ce8477723fa0a091bf78508bba1765563c
      https://github.com/VisTrails/VisTrails/commit/c8c100ce8477723fa0a091bf78508bba1765563c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Removes zip/unzip executables requirement


  Commit: 57cf23e875480b93cf7465fdc955486f6e21af96
      https://github.com/VisTrails/VisTrails/commit/57cf23e875480b93cf7465fdc955486f6e21af96
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Revert "Added test for run.py"

This reverts commit ad76d08002c277b79579f39d2ef59e8fc979e598.


  Commit: f168db8d60a168cd39c35985b15ab86e802d5040
      https://github.com/VisTrails/VisTrails/commit/f168db8d60a168cd39c35985b15ab86e802d5040
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'master' into 'remove-zip-unzip-binaries'


  Commit: f9d189fbbe6aa06d877a765a225d1ce31f1ff600
      https://github.com/VisTrails/VisTrails/commit/f9d189fbbe6aa06d877a765a225d1ce31f1ff600
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/packages/gmaps/vis.py

  Log Message:
  -----------
  Encode default index values directly


  Commit: a7e5a736abbb9adaf4ba14de3d0a77570061035f
      https://github.com/VisTrails/VisTrails/commit/a7e5a736abbb9adaf4ba14de3d0a77570061035f
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-02 (Mon, 02 Jun 2014)

  Changed paths:
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/gmaps/vis.py

  Log Message:
  -----------
  Enable translation from 0.2 to 0.3 package

Showcases need for more high-level upgrade mechanisms than simple
module_remap.  Also adds marker title support and provides a legacy
mode for GMapSymbols.


  Commit: adb3ce3ac4bea4992a31b58a5357e96b8b531995
      https://github.com/VisTrails/VisTrails/commit/adb3ce3ac4bea4992a31b58a5357e96b8b531995
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-03 (Tue, 03 Jun 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Revert "Added test for run.py"

This reverts commit ad76d08002c277b79579f39d2ef59e8fc979e598.


  Commit: d13291c175ca4a589eea69f01ff034b223bd5f16
      https://github.com/VisTrails/VisTrails/commit/d13291c175ca4a589eea69f01ff034b223bd5f16
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Merge branch 'remove-zip-unzip-binaries' into 'master'


  Commit: 703bdaf5fddf176cc1c1292f4398ba8764d2726a
      https://github.com/VisTrails/VisTrails/commit/703bdaf5fddf176cc1c1292f4398ba8764d2726a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/__init__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Makes sure unittest>=2.7 is used


  Commit: f5b7fba6070636693a27cb3ecec7aea3d0b29e8f
      https://github.com/VisTrails/VisTrails/commit/f5b7fba6070636693a27cb3ecec7aea3d0b29e8f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Puts back unittest.skipIf

This reverts commit 0b0d33645c049de6fa782dca62e89ffccbeeb5fc.


  Commit: 28cbeb3192011a6b869cc5c95a22048dc4131a14
      https://github.com/VisTrails/VisTrails/commit/28cbeb3192011a6b869cc5c95a22048dc4131a14
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/write/__init__.py

  Log Message:
  -----------
  Puts some more skipIf()


  Commit: 1414ccca35c086f7a7543a765575d3655c6fd3e5
      https://github.com/VisTrails/VisTrails/commit/1414ccca35c086f7a7543a765575d3655c6fd3e5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/packages/dialogs/init.py

  Log Message:
  -----------
  Fixes typo in ae569895 showing password in dialog

Ticket: 865


  Commit: 9b0253e574b7e424cc8b874d8d08e4e5fad9953a
      https://github.com/VisTrails/VisTrails/commit/9b0253e574b7e424cc8b874d8d08e4e5fad9953a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Converts long_description to rst format


  Commit: 858eefb2d69b8efef9d307cc073f2c1e01260399
      https://github.com/VisTrails/VisTrails/commit/858eefb2d69b8efef9d307cc073f2c1e01260399
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    A LICENSE

  Log Message:
  -----------
  Adds LICENSE file


  Commit: 62fb5ea09ee570104669b0c3cc37eb135470e755
      https://github.com/VisTrails/VisTrails/commit/62fb5ea09ee570104669b0c3cc37eb135470e755
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-04 (Wed, 04 Jun 2014)

  Changed paths:
    M vistrails/gui/bundles/installbundle.py

  Log Message:
  -----------
  Fixes minor typo


  Commit: fbfada66f67e9c08411a0015f340259130614f00
      https://github.com/VisTrails/VisTrails/commit/fbfada66f67e9c08411a0015f340259130614f00
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-05 (Thu, 05 Jun 2014)

  Changed paths:
    M vistrails/gui/requirements.py

  Log Message:
  -----------
  Fixes issue with missing PyQt4


  Commit: 214f98f478beb4b5c5973707483b6c3b2ffdc18d
      https://github.com/VisTrails/VisTrails/commit/214f98f478beb4b5c5973707483b6c3b2ffdc18d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-05 (Thu, 05 Jun 2014)

  Changed paths:
    M vistrails/gui/bundles/installbundle.py

  Log Message:
  -----------
  Displays exactly what we are going to install

If Qt is not available, the program would ask if it can install without
mentioning what.


  Commit: 8839b4c2ae93b5cc47e4e3a0f7071f646762e9c4
      https://github.com/VisTrails/VisTrails/commit/8839b4c2ae93b5cc47e4e3a0f7071f646762e9c4
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-06 (Fri, 06 Jun 2014)

  Changed paths:
    M examples/mta-yankees.vt

  Log Message:
  -----------
  Update example with two layer map


  Commit: 2d0da921064b5b083b9ec298af9c88e7ce517146
      https://github.com/VisTrails/VisTrails/commit/2d0da921064b5b083b9ec298af9c88e7ce517146
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-06 (Fri, 06 Jun 2014)

  Changed paths:
    M examples/mta-yankees.vt
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py

  Log Message:
  -----------
  Merge branch 'gmaps-layers'


  Commit: e1546bba990a4adf1f74677bd6fc86ee0be1e83a
      https://github.com/VisTrails/VisTrails/commit/e1546bba990a4adf1f74677bd6fc86ee0be1e83a
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-06 (Fri, 06 Jun 2014)

  Changed paths:
    M vistrails/packages/tabledata/viewer.py

  Log Message:
  -----------
  Fix row sorting in TableCell

QTableWidgetItems are sorted as strings unless you set the number via
setData. The "row" column was changed to use path.


  Commit: 416105f09711b518e69be38c21852d2425543f07
      https://github.com/VisTrails/VisTrails/commit/416105f09711b518e69be38c21852d2425543f07
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-09 (Mon, 09 Jun 2014)

  Changed paths:
    M vistrails/core/interpreter/job.py

  Log Message:
  -----------
  Fixed jobs completing immediately

core/interpreter/job.py:
  - JobMonitor.compute:
    The output was not set for jobs completing when they are created


  Commit: ba79a4f66db36ac46a5f11b5094d9eed06c95ade
      https://github.com/VisTrails/VisTrails/commit/ba79a4f66db36ac46a5f11b5094d9eed06c95ade
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-09 (Mon, 09 Jun 2014)

  Changed paths:
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  RemoteQ: Skip upstream for existing jobs

Also use signature as job identifiers

Path issue: Changing mtime of input path changes the signature.


  Commit: 63b16069bfba77e341706b0a6e38f7298cf3e9dc
      https://github.com/VisTrails/VisTrails/commit/63b16069bfba77e341706b0a6e38f7298cf3e9dc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-10 (Tue, 10 Jun 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixes invalid ports in provenance view

Invalid ports does not seem to have a parent. This caused exceptions and
connections not being drawn. Now create_path checks if parent exists.


  Commit: 6ff184fb98ead57d08abffe31df95f9667677d4b
      https://github.com/VisTrails/VisTrails/commit/6ff184fb98ead57d08abffe31df95f9667677d4b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-10 (Tue, 10 Jun 2014)

  Changed paths:
    M vistrails/packages/RemoteQ/hdfs.py

  Log Message:
  -----------
  BatchQ: HDFSGet was not cacheable

Using a File parameter for an outputfile caused mtime to change the module
signature each time.
File changed to Path, which does not use mtime.


  Commit: d85d91d6b360c6c7d2c058be13ef6ada12158716
      https://github.com/VisTrails/VisTrails/commit/d85d91d6b360c6c7d2c058be13ef6ada12158716
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-10 (Tue, 10 Jun 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Paths were not preserved in saved vt

db/services/io.py:
  - save_vistrail_bundle_to_zip_xml: Use default path to zipfile.write

Ticket: 868


  Commit: ecd1a2d77a917a2529902adb7040424150c68d99
      https://github.com/VisTrails/VisTrails/commit/ecd1a2d77a917a2529902adb7040424150c68d99
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Fixed Ungrouping not working

core/vistrail/controller.py:
  - build_ungroup:
    Added depth in tuple returned by Group.get_port_spec_info

Ticket: 867


  Commit: 6bac4a297b0e12d1d1f81e76fce517063ddd1f90
      https://github.com/VisTrails/VisTrails/commit/6bac4a297b0e12d1d1f81e76fce517063ddd1f90
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Removes unused symbols from io.py


  Commit: d74b7029fa3f41bd8c85ae0c52f4bf8bf03f289f
      https://github.com/VisTrails/VisTrails/commit/d74b7029fa3f41bd8c85ae0c52f4bf8bf03f289f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Makes OutputPath's 'value' input an OutputPath

Previously, you couldn't select a non-existing file as "value" port of
the OutputPath module.


  Commit: 8ae8e4b892e7a14be563627c4b677c80f41cc5ca
      https://github.com/VisTrails/VisTrails/commit/8ae8e4b892e7a14be563627c4b677c80f41cc5ca
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    A LICENSE
    M setup.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'deployment/master'


  Commit: 50211a793ded8ea1746065222b2fd750b8ec4cff
      https://github.com/VisTrails/VisTrails/commit/50211a793ded8ea1746065222b2fd750b8ec4cff
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    A .travis.yml

  Log Message:
  -----------
  Adds travis configuration file


  Commit: df12e6e4ec7dbe2fcf6c627f8b2a95854c9cd248
      https://github.com/VisTrails/VisTrails/commit/df12e6e4ec7dbe2fcf6c627f8b2a95854c9cd248
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    A .travis.yml
    A LICENSE
    M README.md
    A Vagrantfile
    A requirements.txt
    A setup.py
    M vistrails/core/modules/package.py
    M vistrails/run.py
    A vistrails/tests/__main__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'deployment/master' into 'master'


  Commit: cd7a8fd829c29d0aefc429f9ac36d7f5ab05ec6a
      https://github.com/VisTrails/VisTrails/commit/cd7a8fd829c29d0aefc429f9ac36d7f5ab05ec6a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-11 (Wed, 11 Jun 2014)

  Changed paths:
    M vistrails/__init__.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'replace-unittest-everywhere' into 'master'


  Commit: 62f33843e543e1757715164566618bc0041dbffc
      https://github.com/VisTrails/VisTrails/commit/62f33843e543e1757715164566618bc0041dbffc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-12 (Thu, 12 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Fixes issues with type-checking

core/modules/basic_modules.py:
  - Iterator:
    Fixes list check for custom lists
  - get_module:
    Allow custom float and int types
    Allow (Variant) to take tuples

core/modules/vistrails_module.py:
  - get_input_list:
    Fixes list check for custom lists
  - Connector.__call__:
    Handle tuple in Iterator


  Commit: 0c3031cae565f5b038e7a8306693004f08325b3c
      https://github.com/VisTrails/VisTrails/commit/0c3031cae565f5b038e7a8306693004f08325b3c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-12 (Thu, 12 Jun 2014)

  Changed paths:
    M vistrails/packages/tabledata/convert/convert_dates.py

  Log Message:
  -----------
  Fixes a test on newer pytz versions


  Commit: f12cd061968d87821e44fddb478bf67fedd71a6a
      https://github.com/VisTrails/VisTrails/commit/f12cd061968d87821e44fddb478bf67fedd71a6a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-12 (Thu, 12 Jun 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako

  Log Message:
  -----------
  Makes MplPlot return a function that plots

This makes the actual code run when MplFigure executes. It breaks
additional output ports that plots might have.

Ticket: 396


  Commit: 2a8d6570b24774f640a318a7042643ae336c2b3a
      https://github.com/VisTrails/VisTrails/commit/2a8d6570b24774f640a318a7042643ae336c2b3a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-12 (Thu, 12 Jun 2014)

  Changed paths:
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako

  Log Message:
  -----------
  Removes output ports from plot modules

This only concerns MplContour and MplContourf right now. We should
probably get these somehow, but since they'll only be computed when the
MplFigure module runs...


  Commit: f11de08adf6e4e61cd9bb52975b5f8c375f4acb6
      https://github.com/VisTrails/VisTrails/commit/f11de08adf6e4e61cd9bb52975b5f8c375f4acb6
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/vistrail/module.py

  Log Message:
  -----------
  Move module attribute transfers to summon call

When transferring vistrails.core.vistrail.module.Module to
vistrails.core.modules.vistrails_module.Module attributes, make sure
we are consistent in where this is done (always in summon).


  Commit: 65bc7b3f5d6626ba244942d5fa126b53ae95a427
      https://github.com/VisTrails/VisTrails/commit/65bc7b3f5d6626ba244942d5fa126b53ae95a427
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py

  Log Message:
  -----------
  Set port depths on summon

Instead of going through the lines of code from moduleInfo["pipeline"] in
vistrails_module.py, set the port depths when summon is called.  Also
refactor so that Module's summon and Group's summon are normalized via
new transfer_attrs method.


  Commit: 6db066a57bcab0eaaf71885d5ba01eb513db63e2
      https://github.com/VisTrails/VisTrails/commit/6db066a57bcab0eaaf71885d5ba01eb513db63e2
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py

  Log Message:
  -----------
  Move transfer_attrs to vistrails_module side

Since transfer_attrs copies vistrails.core.vistrail.module.Module
attributes to vistrails.core.modules.vistrails_module.Module
attributes, it can live on either object.  Move it to the
vistrails_module side so that module developers can pull custom
information if they want.


  Commit: 2d74ff991dfb6ebe7d528c6c46ec93aeae704373
      https://github.com/VisTrails/VisTrails/commit/2d74ff991dfb6ebe7d528c6c46ec93aeae704373
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/vistrail/module.py

  Log Message:
  -----------
  Delete unused Module.transfer_attrs method

Moved to vistrails_module.py


  Commit: 90581c3837b9c07f965b47a4ca4ac0be3c41a2a9
      https://github.com/VisTrails/VisTrails/commit/90581c3837b9c07f965b47a4ca4ac0be3c41a2a9
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Move input/output_ports_order to individual modules

Instead of having the modules set a *_ports_order attribute and having
transfer_attrs (used to be in summon) fill that field "magically", put
the call in the module defintions themselves.


  Commit: f7873c6dd9ae35b51dd0f6c99ca98795f237fdb0
      https://github.com/VisTrails/VisTrails/commit/f7873c6dd9ae35b51dd0f6c99ca98795f237fdb0
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-13 (Fri, 13 Jun 2014)

  Changed paths:
    M vistrails/core/modules/sub_module.py

  Log Message:
  -----------
  Remove is_cacheable override

Didn't make sense (also didn't work).


  Commit: 64ca03ce454d6cb9b0d39094465853cfdb71ba03
      https://github.com/VisTrails/VisTrails/commit/64ca03ce454d6cb9b0d39094465853cfdb71ba03
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-16 (Mon, 16 Jun 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Add in_pipeline flag

Makes it easier to determine if a module is in the persistent pipeline
or whether it was created dynamically or for a constant.


  Commit: 3b7065e23ad10ae5edca117df58cc929c94fe165
      https://github.com/VisTrails/VisTrails/commit/3b7065e23ad10ae5edca117df58cc929c94fe165
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-17 (Tue, 17 Jun 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Added comment for self check in set_output


  Commit: fcc3143c1e7b27520a03dadbdd90797dc457b984
      https://github.com/VisTrails/VisTrails/commit/fcc3143c1e7b27520a03dadbdd90797dc457b984
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-17 (Tue, 17 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/tests/resources/test-list-custom.vt

  Log Message:
  -----------
  Removed moduleInfo usage from VistrailsModule

core/modules/basic_modules.py:
  Fixed docstrings and line breaks

core/modules/vistrails_module.py:
  Removed uses of moduleInfo
  Fixed issue with combining 0 and 1 depth lists

tests/resources/test-list-custom.vt:
  Added tests for mixing 0 and 1 depth lists


  Commit: 2975d59460a4c30b98c67b26ab1124b5d8d07108
      https://github.com/VisTrails/VisTrails/commit/2975d59460a4c30b98c67b26ab1124b5d8d07108
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-17 (Tue, 17 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Use .module instead of .values to identify streaming Iterator

core/modules/vistrails_module.py:
  Iterator.values -> Iterator.module

core/modules/basic_modules.py:
  Allow None value in Iterator


  Commit: 858d0ea487364fd20ea46157830dbfe87fe5dac4
      https://github.com/VisTrails/VisTrails/commit/858d0ea487364fd20ea46157830dbfe87fe5dac4
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-18 (Wed, 18 Jun 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/gui/module_iteration.py

  Log Message:
  -----------
  Clarify iterative logic, move control param keys

Since port_specs are usually used as a dictionary, store them as such
and set the order as a separate field.  Also, clarify the iteration
logic so that it is a bit clearer what the specification for
combination is.  Also, move control param keys to ModuleControlParam
class.


  Commit: 288a956abb56a8b97f89cb9764f0e2633afa2c06
      https://github.com/VisTrails/VisTrails/commit/288a956abb56a8b97f89cb9764f0e2633afa2c06
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-19 (Thu, 19 Jun 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Factor data dir code in 78e8d01b

No need to have the same code in four places.


  Commit: 14f63d8501a3bb7db51e26dd3b4554085f24a2ac
      https://github.com/VisTrails/VisTrails/commit/14f63d8501a3bb7db51e26dd3b4554085f24a2ac
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-19 (Thu, 19 Jun 2014)

  Changed paths:
    A .travis.yml
    A LICENSE
    M README.md
    A Vagrantfile
    M contrib/NumSciPy/ArrayConvert.py
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/mac/vistrails.dmgCanvas
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/Input/startup.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/example.rst
    A doc/usersguide/figures/list_handling/list-combine-workflow.png
    A doc/usersguide/figures/list_handling/list-combine.png
    A doc/usersguide/list_handling.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/persistence.rst
    A doc/usersguide/streaming.rst
    M doc/usersguide/tabledata.rst
    A doc/usersguide/vtl/list-handling.vtl
    A doc/usersguide/vtl/streaming.vtl
    A examples/list-handling.vt
    M examples/matplotlib/Arrow_ex9.vt
    A examples/mta-yankees.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    A examples/streaming.vt
    A requirements.txt
    M scripts/create_release_wiki_table.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M scripts/release_notes.py
    M scripts/update_db.py
    M scripts/update_hash.py
    A setup.py
    M vistrails/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    A vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/generate.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/specs/all.xml
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debugger.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    A vistrails/gui/module_iteration.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/repository.py
    R vistrails/gui/resources/images/camera.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    R vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    R vistrails/index/__core.py
    R vistrails/index/__init__.py
    R vistrails/index/indexworkflow.py
    R vistrails/index/spec_io.py
    R vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/identifiers.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/camera.png
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/init.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell.qrc
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    A vistrails/tests/__main__.py
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into rewrite-startup

Conflicts:
	vistrails/core/application.py
	vistrails/core/configuration.py
	vistrails/core/console_mode.py
	vistrails/core/upgradeworkflow.py
	vistrails/db/versions/v1_0_3/translate/v1_0_2.py
	vistrails/gui/modules/constant_configuration.py
	vistrails/gui/vistrail_controller.py
	vistrails/run.py


  Commit: cb570d8d9c764a9bfd6fb1c41c1689fb5d4af2fd
      https://github.com/VisTrails/VisTrails/commit/cb570d8d9c764a9bfd6fb1c41c1689fb5d4af2fd
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-19 (Thu, 19 Jun 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Fix merge typo


  Commit: 16237063151d42601747701167b1660f3daacfbd
      https://github.com/VisTrails/VisTrails/commit/16237063151d42601747701167b1660f3daacfbd
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-19 (Thu, 19 Jun 2014)

  Changed paths:
    M vistrails/db/services/io.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_4/domain/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py

  Log Message:
  -----------
  Merge startup db changes into 1.0.4 schema

Move translation from 1.0.3 to 1.0.4 so 1.0.3 is effectively 0.1.
Also fixes a bug where the old value was reused instead of updated.


  Commit: 2b4ecb3bc9bb7204e61dabe2197be93272b887f3
      https://github.com/VisTrails/VisTrails/commit/2b4ecb3bc9bb7204e61dabe2197be93272b887f3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    M vistrails/packages/tabledata/convert/convert_dates.py

  Log Message:
  -----------
  Fixes a test on newer pytz versions


  Commit: 5f99a90fdc876920b58aa0a197f5ee4a046c75b9
      https://github.com/VisTrails/VisTrails/commit/5f99a90fdc876920b58aa0a197f5ee4a046c75b9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Makes StringFormat handle {!r} or {:.2f} correctly


  Commit: 6e7b370babf62536f575ed3b25543f8bdae669f3
      https://github.com/VisTrails/VisTrails/commit/6e7b370babf62536f575ed3b25543f8bdae669f3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/requirements.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/packages/tabledata/convert/convert_dates.py


  Commit: 9aa675c81f5c87d7007e2bc8f49aec0a649b47fa
      https://github.com/VisTrails/VisTrails/commit/9aa675c81f5c87d7007e2bc8f49aec0a649b47fa
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    A .travis.yml
    A LICENSE
    M README.md
    A Vagrantfile
    M contrib/NumSciPy/ArrayConvert.py
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/mac/vistrails.dmgCanvas
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/Input/startup.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M doc/usersguide/controlflow.rst
    M doc/usersguide/creating.rst
    M doc/usersguide/example.rst
    A doc/usersguide/figures/list_handling/list-combine-workflow.png
    A doc/usersguide/figures/list_handling/list-combine.png
    A doc/usersguide/list_handling.rst
    M doc/usersguide/mashups.rst
    M doc/usersguide/persistence.rst
    A doc/usersguide/streaming.rst
    M doc/usersguide/tabledata.rst
    A doc/usersguide/vtl/list-handling.vtl
    A doc/usersguide/vtl/streaming.vtl
    A examples/list-handling.vt
    M examples/matplotlib/Arrow_ex9.vt
    A examples/mta-yankees.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    A examples/streaming.vt
    A requirements.txt
    M scripts/create_release_wiki_table.py
    M scripts/gen_vtk_examples/vtk_to_vt.py
    M scripts/release_notes.py
    M scripts/update_db.py
    M scripts/update_hash.py
    A setup.py
    M vistrails/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/windows.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    A vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/generate.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/specs/all.xml
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    A vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    A vistrails/db/versions/v1_0_4/__init__.py
    A vistrails/db/versions/v1_0_4/domain/__init__.py
    A vistrails/db/versions/v1_0_4/domain/auto_gen.py
    A vistrails/db/versions/v1_0_4/domain/id_scope.py
    A vistrails/db/versions/v1_0_4/domain/log.py
    A vistrails/db/versions/v1_0_4/domain/registry.py
    A vistrails/db/versions/v1_0_4/domain/vistrail.py
    A vistrails/db/versions/v1_0_4/domain/workflow.py
    A vistrails/db/versions/v1_0_4/persistence/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/sql/sql_dao.py
    A vistrails/db/versions/v1_0_4/persistence/xml/__init__.py
    A vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    A vistrails/db/versions/v1_0_4/persistence/xml/xml_dao.py
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    A vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    A vistrails/db/versions/v1_0_4/schemas/xml/log.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/vtlink.xsd
    A vistrails/db/versions/v1_0_4/schemas/xml/workflow.xsd
    A vistrails/db/versions/v1_0_4/specs/all.xml
    A vistrails/db/versions/v1_0_4/translate/__init__.py
    A vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/bundles/linux_fedora_install.py
    M vistrails/gui/bundles/utils.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debugger.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    A vistrails/gui/module_iteration.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/repository.py
    R vistrails/gui/resources/images/camera.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    R vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    R vistrails/index/__core.py
    R vistrails/index/__init__.py
    R vistrails/index/indexworkflow.py
    R vistrails/index/spec_io.py
    R vistrails/index/vistrailanalyzer.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/identifiers.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/dialogs/__init__.py
    A vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/camera.png
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/init.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell.qrc
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    A vistrails/tests/__main__.py
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py
    R vistrails/tests/resources/startup-0.1.xml
    A vistrails/tests/resources/startup-0.1.xml.tmpl
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'rewrite-startup' into output-modules

Conflicts:
	vistrails/packages/vtk/base_module.py


  Commit: 8a443e32a28d202a996b2f4e6be8b1632ed59823
      https://github.com/VisTrails/VisTrails/commit/8a443e32a28d202a996b2f4e6be8b1632ed59823
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Fix bug in matplotlib package

Mode was being added as a module which caused errors.


  Commit: 3700d7f75eb450366cf9821fc4bc33f958ac5265
      https://github.com/VisTrails/VisTrails/commit/3700d7f75eb450366cf9821fc4bc33f958ac5265
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-06-20 (Fri, 20 Jun 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py

  Log Message:
  -----------
  Fix bug in startup translation


  Commit: f8b35cdd36da9657898fed865b4f26fa9525f423
      https://github.com/VisTrails/VisTrails/commit/f8b35cdd36da9657898fed865b4f26fa9525f423
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-23 (Mon, 23 Jun 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/tests/resources/test-list-custom.vt

  Log Message:
  -----------
  get_input: Automatically join connections with depth>0

Variables in PythonSources will have typed lists (depth>0) joined automatically.
Using get_input_list is no longer needed except to differentiate
inputs from multiple connections.

core/interpreter/cached.py:
  Use module in place of generator so it is available for error reporting

core/modules/basic_modules.py:
  - Iterator:
    Store module in generator list with module.generator = generator

core/modules/vistrails_module.py:
  get_input now calls get_input_list and flattens it for types with depth>0

tests/resources/test-list-custom.vt:
  Added test for merging different list depths.


  Commit: f955d68a4f66e5718ae05ab7b07688f1ee8df0da
      https://github.com/VisTrails/VisTrails/commit/f955d68a4f66e5718ae05ab7b07688f1ee8df0da
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-24 (Tue, 24 Jun 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/connection.py

  Log Message:
  -----------
  Looping modules now respect typechecking flags

Reverted lax checks for Float and Int.
Numpy types will no longer pass typechecks.

core/modules/basic_modules.py:
  - get_module:
    Reverted Float/Int laxed checks
    Return None if a tuple contains unknown type

core/modules/vistrails_module.py:
  Respect connection and Variant typechecking flags

core/vistrail/connection.py:
  - getDescs: *new
    Caches InputPort and Variant specs
  - getTypeCheck: * new
    Moved type checking code from moduleConnection so that
    it can be called from other places


  Commit: eb460c0250d79f82bc06cfe2285971f8f7570795
      https://github.com/VisTrails/VisTrails/commit/eb460c0250d79f82bc06cfe2285971f8f7570795
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-26 (Thu, 26 Jun 2014)

  Changed paths:
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako

  Log Message:
  -----------
  Saves module input in closure

We know get the module inputs at compute time and let the plot_figure()
get them from the closure. This allows the plots to use the correct
arguments even if the module get reused because of automatic looping.


  Commit: ce0e9c96766d79f0c625c8cb02f45dacf07703b3
      https://github.com/VisTrails/VisTrails/commit/ce0e9c96766d79f0c625c8cb02f45dacf07703b3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-06-26 (Thu, 26 Jun 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py

  Log Message:
  -----------
  Sets MplFigure's addPlot port to depth=1


  Commit: 254e0a62fe9af9470ae040b9e2d40f7f77dc0ebc
      https://github.com/VisTrails/VisTrails/commit/254e0a62fe9af9470ae040b9e2d40f7f77dc0ebc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-06-30 (Mon, 30 Jun 2014)

  Changed paths:
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Treat List as Variant with depth 1

* Lists on Connections are merged into single list.
* Special case: List have depth 0 when connected to Variant.

Simplified code by not using Iterator for non-streaming ports. Now we figure out the
depth using the port specs.

---

core/interpreter/base.py: Added list_depth attribute to InternalTuple

core/interpreter/cached.py:
  Give all ModuleConnector a spec
  Fixed Generator error handling

core/modules/basic_modules.py:
  Renamed Iterator -> Generator
    New attribute accumulated for detecting an accumulated downstream
  Only use it for streaming types
  - get_module: Support using no signature
  List testing: Multiple connections are merged into a single list

core/modules/module_registry.py:
  - are_specs_matched: Treat List as depth 1 Variant

core/modules/vistrails_module.py:
  - set_iterated_ports: Calculate correct depth difference
  - build_stream: *new - figures out which streaming method to call
  - set_output: Removed Iterator wrapping
  - ModuleConnection: Guess port spec if none exist.
    - depth: Add +1 depth for List

core/vistrail/connection.py: Use source spec for connection type.

core/vistrail/pipeline.py:
  - mark_list_depth: Handle new List depths and Variant exception.

packages/controlflow/looping.py:
  - compute: Set spec on ModuleConnection

packages/parallelflow/map.py: Removed duplicated code

tests/resources/test-list-custom.vt:
  Added tests for List depth and Variant case

tests/resources/test-streaming.vt:
  Updated PythonSource code


  Commit: 969e215656d3e3cd05fcbd07fdebd3bf6737e717
      https://github.com/VisTrails/VisTrails/commit/969e215656d3e3cd05fcbd07fdebd3bf6737e717
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-01 (Tue, 01 Jul 2014)

  Changed paths:
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/gui/module_iteration.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/tabledata/common.py
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt

  Log Message:
  -----------
  Merge branch 'automatic-loops-changes'


  Commit: d3ad45cfc893e9c97ca70851ce0009ae628eefbd
      https://github.com/VisTrails/VisTrails/commit/d3ad45cfc893e9c97ca70851ce0009ae628eefbd
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-01 (Tue, 01 Jul 2014)

  Changed paths:
    M vistrails/gui/collection/workspace.py

  Log Message:
  -----------
  Fixed double-clicking version in workspace changing selected item

gui/collection/workspace.py:
  - item_selected:
    Call setItemSelected on clicked item


  Commit: 9079a85bd79775dc5facd0c789a42a478f3de8e5
      https://github.com/VisTrails/VisTrails/commit/9079a85bd79775dc5facd0c789a42a478f3de8e5
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-01 (Tue, 01 Jul 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrail_view.py

  Log Message:
  -----------
  Change QPipelineScene.pipeline to current_pipeline

Only QPipelineScene.setupScene used the pipeline field, and the
controller was linked to the current_pipeline field which is stored on
QPipelineScene, too.  This difference caused issues with code that
used self.pipeline and self.current_pipeline when the two were out of
sync (e.g. the grouping code).  Now, we just use current_pipeline
instead of pipeline.

Ticket: 869


  Commit: d29c7a42359bad5d4cbe146cecc8637a1a29c961
      https://github.com/VisTrails/VisTrails/commit/d29c7a42359bad5d4cbe146cecc8637a1a29c961
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/pipeline.py

  Log Message:
  -----------
  Do not wrap Variant when passed to List

core/modules/vistrails_module.py:
  - set_iterated_ports: Allow Variant->List
  - get_input_list: Allow Variant->List

core/vistrail/pipeline.py:
  - mark_list_depth: Allow Variant->List

Ticket: 871


  Commit: b9afc37b1ea59566c5be3a0c83e275a041211e84
      https://github.com/VisTrails/VisTrails/commit/b9afc37b1ea59566c5be3a0c83e275a041211e84
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Allow List to connect to anything

Becaues it is now a Variant of depth 1

core/modules/module_registry.py:
  - are_specs_matched: Accept anything connected to a List


  Commit: 093508df037c0a6e3c7aebb88cb8e574e5fc637c
      https://github.com/VisTrails/VisTrails/commit/093508df037c0a6e3c7aebb88cb8e574e5fc637c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Fixed running Table in an implicit loop

packages/tabledata/common.py:
  - Table.set_output:
    Check for self.list_depth because this should only
    be done on actual execution.


  Commit: 5a53b1be91b1f0d3e12a1f8b763c6acb0ab4fade
      https://github.com/VisTrails/VisTrails/commit/5a53b1be91b1f0d3e12a1f8b763c6acb0ab4fade
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/pipeline.py

  Log Message:
  -----------
  Do not wrap Variant when passed to List

core/modules/vistrails_module.py:
  - set_iterated_ports: Allow Variant->List
  - get_input_list: Allow Variant->List

core/vistrail/pipeline.py:
  - mark_list_depth: Allow Variant->List

Ticket: 871


  Commit: df20fbcd5c3df6883db24e331ea188b05d04b776
      https://github.com/VisTrails/VisTrails/commit/df20fbcd5c3df6883db24e331ea188b05d04b776
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Allow List to connect to anything

Becaues it is now a Variant of depth 1

core/modules/module_registry.py:
  - are_specs_matched: Accept anything connected to a List


  Commit: 81cbcb2bcb1ffc8dfc73bfb93904751a825a046c
      https://github.com/VisTrails/VisTrails/commit/81cbcb2bcb1ffc8dfc73bfb93904751a825a046c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Fixed running Table in an implicit loop

packages/tabledata/common.py:
  - Table.set_output:
    Check for self.list_depth because this should only
    be done on actual execution.


  Commit: 1208c9cd38177e7c5ae7da2a75de10124aafb141
      https://github.com/VisTrails/VisTrails/commit/1208c9cd38177e7c5ae7da2a75de10124aafb141
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako

  Log Message:
  -----------
  Merge branch 'matplotlib-pass-functions' into 'automatic-loops-changes'


  Commit: 8d4e1a91e5ad0be792a52f11fe1a91bab9879834
      https://github.com/VisTrails/VisTrails/commit/8d4e1a91e5ad0be792a52f11fe1a91bab9879834
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Makes List's head port depth=1


  Commit: d597dcd6027f84524bd7b1fe14e9b6351fc416e2
      https://github.com/VisTrails/VisTrails/commit/d597dcd6027f84524bd7b1fe14e9b6351fc416e2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Fixes Map and Filter modules outputting Variant


  Commit: 240bd419d2ca98cace4c38d78bab3c9dfe62fb57
      https://github.com/VisTrails/VisTrails/commit/240bd419d2ca98cace4c38d78bab3c9dfe62fb57
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: cf304992f9e321ae464483bd0fadfe1cb7d23e6d
      https://github.com/VisTrails/VisTrails/commit/cf304992f9e321ae464483bd0fadfe1cb7d23e6d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/run.py
    M vistrails/tests/__main__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Adds some more 'no testimport' pragmas


  Commit: d385e7b57bdd1a2449fa7d2eee5618d604795394
      https://github.com/VisTrails/VisTrails/commit/d385e7b57bdd1a2449fa7d2eee5618d604795394
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py

  Log Message:
  -----------
  Add warning for QPipelineScene.pipeline access

Also changes the pipeline reference in gui/pipeline_view_select.py
identified by Remi.


  Commit: d4c28c1bbe348d4ebe1f3618cd87716ab0613189
      https://github.com/VisTrails/VisTrails/commit/d4c28c1bbe348d4ebe1f3618cd87716ab0613189
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-02 (Wed, 02 Jul 2014)

  Changed paths:
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/viewer.py

  Log Message:
  -----------
  Add output module for Tables

Outputs as a file to html and as a spreadsheet cell.


  Commit: f8ad198bd89b35abb934c32fc9001691df0a6cb9
      https://github.com/VisTrails/VisTrails/commit/f8ad198bd89b35abb934c32fc9001691df0a6cb9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-07 (Mon, 07 Jul 2014)

  Changed paths:
    M doc/usersguide/list_handling.rst

  Log Message:
  -----------
  Added documentation for new List and List<->Variant

doc/usersguide/list_handling.rst


  Commit: 420ae53f32046d35fe15c667f802193be1813bbe
      https://github.com/VisTrails/VisTrails/commit/420ae53f32046d35fe15c667f802193be1813bbe
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-07 (Mon, 07 Jul 2014)

  Changed paths:
    M vistrails/core/param_explore.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Added logging of parameter explorations

We log the position of each execution

core/param_explore.py:
 - _pipelinePositions: *new
   Calculates position without using spreadsheet

gui/vistrail_controller.py:
 - executeParameterExploration:
   Add execution identifier and pipeline position to reason


  Commit: 09e23b6c1f30f85b3c03424d53d994696c34ba88
      https://github.com/VisTrails/VisTrails/commit/09e23b6c1f30f85b3c03424d53d994696c34ba88
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-10 (Thu, 10 Jul 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Fixed export to stable

gui/vistrails_window.py:
  Changed text and place of export to stable

gui/vistrail_view.py:
  Changed "export to stable" type from .vt type to .xml
  Changed stable version to 1.0.3

core/vistrail/controller.py:
  Added version to write_workflow

db/versions/v1_0_3/translate/v1_0_4.py:
  Removed translate_annotations

Ticket: 873


  Commit: a44416dd3b145f994454fac3092860364b55b6eb
      https://github.com/VisTrails/VisTrails/commit/a44416dd3b145f994454fac3092860364b55b6eb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-11 (Fri, 11 Jul 2014)

  Changed paths:
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py

  Log Message:
  -----------
  Fixes scripting examples


  Commit: 8dd634391b71781064c481750e8a1ae3bcda1f66
      https://github.com/VisTrails/VisTrails/commit/8dd634391b71781064c481750e8a1ae3bcda1f66
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-11 (Fri, 11 Jul 2014)

  Changed paths:
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py

  Log Message:
  -----------
  Fixes scripting examples


  Commit: 8262f078ed3bb12abf96b749f0c402867412bf52
      https://github.com/VisTrails/VisTrails/commit/8262f078ed3bb12abf96b749f0c402867412bf52
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-14 (Mon, 14 Jul 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/resources/images/vistrails_splash.png

  Log Message:
  -----------
  Updated for release version 2.1.3


  Commit: fdea6382e0dd5eaebc1ea02252828d5d7a712d76
      https://github.com/VisTrails/VisTrails/commit/fdea6382e0dd5eaebc1ea02252828d5d7a712d76
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-14 (Mon, 14 Jul 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Updated hash for 2.1.3


  Commit: 7972de905694c5ff2b1d816fb8d689f5fff7e1be
      https://github.com/VisTrails/VisTrails/commit/7972de905694c5ff2b1d816fb8d689f5fff7e1be
  Author: Eric Dill <edill at bnl.gov>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    M .gitignore
    M doc/usersguide/packages.rst

  Log Message:
  -----------
  DOC: Fixed sphinx documentation and .gitignore

sphinx documentation: in packages.html, the ModuleSettings
named tuple was still showing up in camel case, which is now incorrect

.gitignore: added pycharm and other misc file extensions and folders


  Commit: 28363f016ceb6d69ff3eb26ce01391100a982d3f
      https://github.com/VisTrails/VisTrails/commit/28363f016ceb6d69ff3eb26ce01391100a982d3f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    M .gitignore

  Log Message:
  -----------
  Removes some ignore patterns for now

We really should use these, however we currently have a dist/ directory
which we should rename first.


  Commit: 70e0142389bfea5d2ba706303e589f7f65fd973d
      https://github.com/VisTrails/VisTrails/commit/70e0142389bfea5d2ba706303e589f7f65fd973d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    M .gitignore
    M doc/usersguide/packages.rst

  Log Message:
  -----------
  Merge pull request 17 from ericdill

https://github.com/VisTrails/VisTrails/pull/17


  Commit: 80b3056ad6e43dd060499a7bfd77c4f189b327fa
      https://github.com/VisTrails/VisTrails/commit/80b3056ad6e43dd060499a7bfd77c4f189b327fa
  Author: Eric Dill <edill at bnl.gov>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    M .gitignore

  Log Message:
  -----------
  Fixed .gitignore


  Commit: 73b513427bff2dbf7e26caa70e9f17825e4a0d17
      https://github.com/VisTrails/VisTrails/commit/73b513427bff2dbf7e26caa70e9f17825e4a0d17
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    R dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/common/splash/README
    R dist/common/splash/splash.ai
    R dist/common/splash/splash.svg
    R dist/common/wiki_header/header.ai
    R dist/common/wiki_header/header.jpg
    R dist/common/wiki_header/header.png
    R dist/common/wiki_header/header_fill.png
    R dist/mac/Input/CLToolsWizard.command
    R dist/mac/Input/LICENSE
    R dist/mac/Input/README
    R dist/mac/Input/VisTrails.command
    R dist/mac/Input/qt.conf
    R dist/mac/fix_itk_libraries.py
    R dist/mac/fix_qtplugin_libs.py
    R dist/mac/make_app
    R dist/mac/make_app_itk
    R dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/mac/resources/splash/splash.ai
    R dist/mac/resources/vistrails_icon.icns
    R dist/mac/resources/vistrails_icon_small.icns
    R dist/mac/setup.py
    R dist/mac/setup_itk.py
    R dist/mac/vistrails.dmgCanvas
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/bookmarks.xml
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/git.exe
    R dist/windows/Input/libiconv-2.dll
    R dist/windows/Input/libiconv2.dll
    R dist/windows/Input/libintl-2.dll
    R dist/windows/Input/license.txt
    R dist/windows/Input/qt.conf
    R dist/windows/Input/releaseNotes.txt
    R dist/windows/Input/runvistrails.py
    R dist/windows/Input/startup.py
    R dist/windows/Input/tar.exe
    R dist/windows/Input/unzip.exe
    R dist/windows/Input/unzip32.dll
    R dist/windows/Input/zip.exe
    R dist/windows/custom/vistrails-gdal.iss
    R dist/windows/custom/vistrailsx64-gdal.iss
    R dist/windows/resources/icons/src/vistrails_install.xcf
    R dist/windows/resources/icons/src/vistrails_install_flat.xcf
    R dist/windows/resources/icons/vistrails_install2.ico
    R dist/windows/resources/images/vistrails_icon.bmp
    R dist/windows/resources/images/vistrails_icon.png
    R dist/windows/resources/images/vistrails_icon_small.bmp
    R dist/windows/resources/images/vistrails_icon_small.png
    R dist/windows/vistrails.iss
    R dist/windows/vistrailsx64.iss
    A scripts/dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/common/splash/README
    A scripts/dist/common/splash/splash.ai
    A scripts/dist/common/splash/splash.svg
    A scripts/dist/common/wiki_header/header.ai
    A scripts/dist/common/wiki_header/header.jpg
    A scripts/dist/common/wiki_header/header.png
    A scripts/dist/common/wiki_header/header_fill.png
    A scripts/dist/mac/Input/CLToolsWizard.command
    A scripts/dist/mac/Input/LICENSE
    A scripts/dist/mac/Input/README
    A scripts/dist/mac/Input/VisTrails.command
    A scripts/dist/mac/Input/qt.conf
    A scripts/dist/mac/fix_itk_libraries.py
    A scripts/dist/mac/fix_qtplugin_libs.py
    A scripts/dist/mac/make_app
    A scripts/dist/mac/make_app_itk
    A scripts/dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/mac/resources/splash/splash.ai
    A scripts/dist/mac/resources/vistrails_icon.icns
    A scripts/dist/mac/resources/vistrails_icon_small.icns
    A scripts/dist/mac/setup.py
    A scripts/dist/mac/setup_itk.py
    A scripts/dist/mac/vistrails.dmgCanvas
    A scripts/dist/source/make-vistrails-src-nightly.py
    A scripts/dist/source/make-vistrails-src-release.py
    A scripts/dist/ubuntu/_debian/control
    A scripts/dist/ubuntu/_debian/copyright
    A scripts/dist/ubuntu/create_debian_pkg.sh
    A scripts/dist/windows/Input/bookmarks.xml
    A scripts/dist/windows/Input/download_usersguide.py
    A scripts/dist/windows/Input/git.exe
    A scripts/dist/windows/Input/libiconv-2.dll
    A scripts/dist/windows/Input/libiconv2.dll
    A scripts/dist/windows/Input/libintl-2.dll
    A scripts/dist/windows/Input/license.txt
    A scripts/dist/windows/Input/qt.conf
    A scripts/dist/windows/Input/releaseNotes.txt
    A scripts/dist/windows/Input/runvistrails.py
    A scripts/dist/windows/Input/startup.py
    A scripts/dist/windows/Input/tar.exe
    A scripts/dist/windows/Input/unzip.exe
    A scripts/dist/windows/Input/unzip32.dll
    A scripts/dist/windows/Input/zip.exe
    A scripts/dist/windows/custom/vistrails-gdal.iss
    A scripts/dist/windows/custom/vistrailsx64-gdal.iss
    A scripts/dist/windows/resources/icons/src/vistrails_install.xcf
    A scripts/dist/windows/resources/icons/src/vistrails_install_flat.xcf
    A scripts/dist/windows/resources/icons/vistrails_install2.ico
    A scripts/dist/windows/resources/images/vistrails_icon.bmp
    A scripts/dist/windows/resources/images/vistrails_icon.png
    A scripts/dist/windows/resources/images/vistrails_icon_small.bmp
    A scripts/dist/windows/resources/images/vistrails_icon_small.png
    A scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Moves dist to scripts/dist


  Commit: 10c515143e1205ec98011b82985b631375b7206e
      https://github.com/VisTrails/VisTrails/commit/10c515143e1205ec98011b82985b631375b7206e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-15 (Tue, 15 Jul 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Fixes missing import

Red underline on my IDE.


  Commit: cb007f8d63823fa30106bb2d5e4906e5c5c9344a
      https://github.com/VisTrails/VisTrails/commit/cb007f8d63823fa30106bb2d5e4906e5c5c9344a
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-16 (Wed, 16 Jul 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/vtk/base_module.py

  Log Message:
  -----------
  Have spreadsheet use FileMode subclasses

In order to not duplicate code for spreadsheet cell dumps and FileMode
outputs, make it possible for the spreadsheet to use the output module
code when dumping cells to files.

Next step would be doing this for thumbnails.


  Commit: 4e0d058337a8ad1d16c5626d3f4caa4852601be1
      https://github.com/VisTrails/VisTrails/commit/4e0d058337a8ad1d16c5626d3f4caa4852601be1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-17 (Thu, 17 Jul 2014)

  Changed paths:
    M .gitignore
    R dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/common/splash/README
    R dist/common/splash/splash.ai
    R dist/common/splash/splash.svg
    R dist/common/wiki_header/header.ai
    R dist/common/wiki_header/header.jpg
    R dist/common/wiki_header/header.png
    R dist/common/wiki_header/header_fill.png
    R dist/mac/Input/CLToolsWizard.command
    R dist/mac/Input/LICENSE
    R dist/mac/Input/README
    R dist/mac/Input/VisTrails.command
    R dist/mac/Input/qt.conf
    R dist/mac/fix_itk_libraries.py
    R dist/mac/fix_qtplugin_libs.py
    R dist/mac/make_app
    R dist/mac/make_app_itk
    R dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/mac/resources/splash/splash.ai
    R dist/mac/resources/vistrails_icon.icns
    R dist/mac/resources/vistrails_icon_small.icns
    R dist/mac/setup.py
    R dist/mac/setup_itk.py
    R dist/mac/vistrails.dmgCanvas
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/bookmarks.xml
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/git.exe
    R dist/windows/Input/libiconv-2.dll
    R dist/windows/Input/libiconv2.dll
    R dist/windows/Input/libintl-2.dll
    R dist/windows/Input/license.txt
    R dist/windows/Input/qt.conf
    R dist/windows/Input/releaseNotes.txt
    R dist/windows/Input/runvistrails.py
    R dist/windows/Input/startup.py
    R dist/windows/Input/tar.exe
    R dist/windows/Input/unzip.exe
    R dist/windows/Input/unzip32.dll
    R dist/windows/Input/zip.exe
    R dist/windows/custom/vistrails-gdal.iss
    R dist/windows/custom/vistrailsx64-gdal.iss
    R dist/windows/resources/icons/src/vistrails_install.xcf
    R dist/windows/resources/icons/src/vistrails_install_flat.xcf
    R dist/windows/resources/icons/vistrails_install2.ico
    R dist/windows/resources/images/vistrails_icon.bmp
    R dist/windows/resources/images/vistrails_icon.png
    R dist/windows/resources/images/vistrails_icon_small.bmp
    R dist/windows/resources/images/vistrails_icon_small.png
    R dist/windows/vistrails.iss
    R dist/windows/vistrailsx64.iss
    A scripts/dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/common/splash/README
    A scripts/dist/common/splash/splash.ai
    A scripts/dist/common/splash/splash.svg
    A scripts/dist/common/wiki_header/header.ai
    A scripts/dist/common/wiki_header/header.jpg
    A scripts/dist/common/wiki_header/header.png
    A scripts/dist/common/wiki_header/header_fill.png
    A scripts/dist/mac/Input/CLToolsWizard.command
    A scripts/dist/mac/Input/LICENSE
    A scripts/dist/mac/Input/README
    A scripts/dist/mac/Input/VisTrails.command
    A scripts/dist/mac/Input/qt.conf
    A scripts/dist/mac/fix_itk_libraries.py
    A scripts/dist/mac/fix_qtplugin_libs.py
    A scripts/dist/mac/make_app
    A scripts/dist/mac/make_app_itk
    A scripts/dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/mac/resources/splash/splash.ai
    A scripts/dist/mac/resources/vistrails_icon.icns
    A scripts/dist/mac/resources/vistrails_icon_small.icns
    A scripts/dist/mac/setup.py
    A scripts/dist/mac/setup_itk.py
    A scripts/dist/mac/vistrails.dmgCanvas
    A scripts/dist/source/make-vistrails-src-nightly.py
    A scripts/dist/source/make-vistrails-src-release.py
    A scripts/dist/ubuntu/_debian/control
    A scripts/dist/ubuntu/_debian/copyright
    A scripts/dist/ubuntu/create_debian_pkg.sh
    A scripts/dist/windows/Input/bookmarks.xml
    A scripts/dist/windows/Input/download_usersguide.py
    A scripts/dist/windows/Input/git.exe
    A scripts/dist/windows/Input/libiconv-2.dll
    A scripts/dist/windows/Input/libiconv2.dll
    A scripts/dist/windows/Input/libintl-2.dll
    A scripts/dist/windows/Input/license.txt
    A scripts/dist/windows/Input/qt.conf
    A scripts/dist/windows/Input/releaseNotes.txt
    A scripts/dist/windows/Input/runvistrails.py
    A scripts/dist/windows/Input/startup.py
    A scripts/dist/windows/Input/tar.exe
    A scripts/dist/windows/Input/unzip.exe
    A scripts/dist/windows/Input/unzip32.dll
    A scripts/dist/windows/Input/zip.exe
    A scripts/dist/windows/custom/vistrails-gdal.iss
    A scripts/dist/windows/custom/vistrailsx64-gdal.iss
    A scripts/dist/windows/resources/icons/src/vistrails_install.xcf
    A scripts/dist/windows/resources/icons/src/vistrails_install_flat.xcf
    A scripts/dist/windows/resources/icons/vistrails_install2.ico
    A scripts/dist/windows/resources/images/vistrails_icon.bmp
    A scripts/dist/windows/resources/images/vistrails_icon.png
    A scripts/dist/windows/resources/images/vistrails_icon_small.bmp
    A scripts/dist/windows/resources/images/vistrails_icon_small.png
    A scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Merge branch 'move-dist-directory' into 'master'


  Commit: 479be11e0ee23820ee76dc65a9d118efcccf2126
      https://github.com/VisTrails/VisTrails/commit/479be11e0ee23820ee76dc65a9d118efcccf2126
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-17 (Thu, 17 Jul 2014)

  Changed paths:
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/dist/mac/Input/README
    M scripts/dist/mac/setup.py
    M scripts/dist/source/make-vistrails-src-release.py
    M scripts/dist/windows/Input/releaseNotes.txt
    M scripts/dist/windows/custom/vistrails-gdal.iss
    M scripts/dist/windows/custom/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64.iss
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	scripts/dist/common/splash/splash.svg
	vistrails/gui/resources/images/vistrails_splash.png


  Commit: c29f97e391223800c5a4ccaa9aa8ab0bd9d8d8ad
      https://github.com/VisTrails/VisTrails/commit/c29f97e391223800c5a4ccaa9aa8ab0bd9d8d8ad
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-17 (Thu, 17 Jul 2014)

  Changed paths:
    M .gitignore
    R dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/common/splash/README
    R dist/common/splash/splash.ai
    R dist/common/splash/splash.svg
    R dist/common/wiki_header/header.ai
    R dist/common/wiki_header/header.jpg
    R dist/common/wiki_header/header.png
    R dist/common/wiki_header/header_fill.png
    R dist/mac/Input/CLToolsWizard.command
    R dist/mac/Input/LICENSE
    R dist/mac/Input/README
    R dist/mac/Input/VisTrails.command
    R dist/mac/Input/qt.conf
    R dist/mac/fix_itk_libraries.py
    R dist/mac/fix_qtplugin_libs.py
    R dist/mac/make_app
    R dist/mac/make_app_itk
    R dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/mac/resources/splash/splash.ai
    R dist/mac/resources/vistrails_icon.icns
    R dist/mac/resources/vistrails_icon_small.icns
    R dist/mac/setup.py
    R dist/mac/setup_itk.py
    R dist/mac/vistrails.dmgCanvas
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/bookmarks.xml
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/git.exe
    R dist/windows/Input/libiconv-2.dll
    R dist/windows/Input/libiconv2.dll
    R dist/windows/Input/libintl-2.dll
    R dist/windows/Input/license.txt
    R dist/windows/Input/qt.conf
    R dist/windows/Input/releaseNotes.txt
    R dist/windows/Input/runvistrails.py
    R dist/windows/Input/startup.py
    R dist/windows/Input/tar.exe
    R dist/windows/Input/unzip.exe
    R dist/windows/Input/unzip32.dll
    R dist/windows/Input/zip.exe
    R dist/windows/custom/vistrails-gdal.iss
    R dist/windows/custom/vistrailsx64-gdal.iss
    R dist/windows/resources/icons/src/vistrails_install.xcf
    R dist/windows/resources/icons/src/vistrails_install_flat.xcf
    R dist/windows/resources/icons/vistrails_install2.ico
    R dist/windows/resources/images/vistrails_icon.bmp
    R dist/windows/resources/images/vistrails_icon.png
    R dist/windows/resources/images/vistrails_icon_small.bmp
    R dist/windows/resources/images/vistrails_icon_small.png
    R dist/windows/vistrails.iss
    R dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M doc/usersguide/list_handling.rst
    M doc/usersguide/packages.rst
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py
    M scripts/create_release_wiki_table.py
    A scripts/dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/common/splash/README
    A scripts/dist/common/splash/splash.ai
    A scripts/dist/common/splash/splash.svg
    A scripts/dist/common/wiki_header/header.ai
    A scripts/dist/common/wiki_header/header.jpg
    A scripts/dist/common/wiki_header/header.png
    A scripts/dist/common/wiki_header/header_fill.png
    A scripts/dist/mac/Input/CLToolsWizard.command
    A scripts/dist/mac/Input/LICENSE
    A scripts/dist/mac/Input/README
    A scripts/dist/mac/Input/VisTrails.command
    A scripts/dist/mac/Input/qt.conf
    A scripts/dist/mac/fix_itk_libraries.py
    A scripts/dist/mac/fix_qtplugin_libs.py
    A scripts/dist/mac/make_app
    A scripts/dist/mac/make_app_itk
    A scripts/dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/mac/resources/splash/splash.ai
    A scripts/dist/mac/resources/vistrails_icon.icns
    A scripts/dist/mac/resources/vistrails_icon_small.icns
    A scripts/dist/mac/setup.py
    A scripts/dist/mac/setup_itk.py
    A scripts/dist/mac/vistrails.dmgCanvas
    A scripts/dist/source/make-vistrails-src-nightly.py
    A scripts/dist/source/make-vistrails-src-release.py
    A scripts/dist/ubuntu/_debian/control
    A scripts/dist/ubuntu/_debian/copyright
    A scripts/dist/ubuntu/create_debian_pkg.sh
    A scripts/dist/windows/Input/bookmarks.xml
    A scripts/dist/windows/Input/download_usersguide.py
    A scripts/dist/windows/Input/git.exe
    A scripts/dist/windows/Input/libiconv-2.dll
    A scripts/dist/windows/Input/libiconv2.dll
    A scripts/dist/windows/Input/libintl-2.dll
    A scripts/dist/windows/Input/license.txt
    A scripts/dist/windows/Input/qt.conf
    A scripts/dist/windows/Input/releaseNotes.txt
    A scripts/dist/windows/Input/runvistrails.py
    A scripts/dist/windows/Input/startup.py
    A scripts/dist/windows/Input/tar.exe
    A scripts/dist/windows/Input/unzip.exe
    A scripts/dist/windows/Input/unzip32.dll
    A scripts/dist/windows/Input/zip.exe
    A scripts/dist/windows/custom/vistrails-gdal.iss
    A scripts/dist/windows/custom/vistrailsx64-gdal.iss
    A scripts/dist/windows/resources/icons/src/vistrails_install.xcf
    A scripts/dist/windows/resources/icons/src/vistrails_install_flat.xcf
    A scripts/dist/windows/resources/icons/vistrails_install2.ico
    A scripts/dist/windows/resources/images/vistrails_icon.bmp
    A scripts/dist/windows/resources/images/vistrails_icon.png
    A scripts/dist/windows/resources/images/vistrails_icon_small.bmp
    A scripts/dist/windows/resources/images/vistrails_icon_small.png
    A scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64.iss
    M scripts/release_notes.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/param_explore.py
    M vistrails/core/system/__init__.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/module_iteration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/requirements.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/tabledata/common.py
    M vistrails/run.py
    M vistrails/tests/__main__.py
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'master' into output-modules

Conflicts:
	vistrails/core/vistrail/connection.py


  Commit: 1e44c598b316a11412cf778186d6d149194f9d52
      https://github.com/VisTrails/VisTrails/commit/1e44c598b316a11412cf778186d6d149194f9d52
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-17 (Thu, 17 Jul 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Remove print statements, extra code


  Commit: 0b5a8a987f1b6f2d5c4ab876798b2473ab3dc4bb
      https://github.com/VisTrails/VisTrails/commit/0b5a8a987f1b6f2d5c4ab876798b2473ab3dc4bb
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M doc/usersguide/conf.py

  Log Message:
  -----------
  Removed sphinxarg.ext dependency

docs/usersguide/conf.py

Ticket: 876


  Commit: a8d88fb7215eff73eb012eed7eacd2102ddc5a45
      https://github.com/VisTrails/VisTrails/commit/a8d88fb7215eff73eb012eed7eacd2102ddc5a45
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M scripts/build_usersguide.py
    M scripts/dist/mac/make_app
    M scripts/dist/mac/setup.py

  Log Message:
  -----------
  Updated mac build scripts after moved dist dir

Also added new master dependencies

scripts/build_usersguide.py: Fixed dist paths
scripts/dist/mac/make_app: Fixed dist paths
scripts/dist/mac/setup.py: fixed dist paths and added new master dependencies


  Commit: d972ea0adbe4f7ab08c447f609318b2f0ca96d90
      https://github.com/VisTrails/VisTrails/commit/d972ea0adbe4f7ab08c447f609318b2f0ca96d90
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M doc/dist/instructions.txt
    A scripts/dist/windows/common1.iss
    A scripts/dist/windows/common2.iss
    R scripts/dist/windows/custom/vistrails-gdal.iss
    R scripts/dist/windows/custom/vistrailsx64-gdal.iss
    A scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Win build scripts refactored and updated for moved dist directory

scripts/dist/windows/common1.iss: *new
scripts/dist/windows/common2.iss: *new
scripts/dist/windows/vistrails-gdal.iss: *moved
scripts/dist/windows/vistrailsx64-gdal.iss: *moved
scripts/dist/windows/vistrails.iss
scripts/dist/windows/vistrailsx64.iss
doc/dist/instructions.txt: Updated dist and custom iss build paths


  Commit: 080779ae54802bbec2e1dabff7408055df8bb1d3
      https://github.com/VisTrails/VisTrails/commit/080779ae54802bbec2e1dabff7408055df8bb1d3
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Make OutputModule abstract


  Commit: 18698fa909b39567185f1e13df7a619e2775583d
      https://github.com/VisTrails/VisTrails/commit/18698fa909b39567185f1e13df7a619e2775583d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/gui/bundles/installbundle.py

  Log Message:
  -----------
  Guess whether to use su/sudo with pip

We might be using a virtualenv or a non-system build of Python. We first
stat the site-packages directory, and only go root if that belongs to
root.


  Commit: 38672cdcbd9105c6784f57cfccfedba6d6c44e4e
      https://github.com/VisTrails/VisTrails/commit/38672cdcbd9105c6784f57cfccfedba6d6c44e4e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/core/startup.py

  Log Message:
  -----------
  Add missing os.close on startup test


  Commit: 6d978c46abed36b04ebb6013bd14b4046013587e
      https://github.com/VisTrails/VisTrails/commit/6d978c46abed36b04ebb6013bd14b4046013587e
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/core/startup.py

  Log Message:
  -----------
  Close log handlers before trying rmtree


  Commit: ccae6478a9ded399f9308e4ec60d6cab902cd05b
      https://github.com/VisTrails/VisTrails/commit/ccae6478a9ded399f9308e4ec60d6cab902cd05b
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/core/startup.py

  Log Message:
  -----------
  Add close_logger to startup's test_permissions


  Commit: dc2650048d38a229c80fa65b1a114ea9fb1d3e0c
      https://github.com/VisTrails/VisTrails/commit/dc2650048d38a229c80fa65b1a114ea9fb1d3e0c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/core/startup.py

  Log Message:
  -----------
  Skip startup permissions test on Windows


  Commit: 0553f62db512dca7cde6d04a1422440a662435ee
      https://github.com/VisTrails/VisTrails/commit/0553f62db512dca7cde6d04a1422440a662435ee
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-18 (Fri, 18 Jul 2014)

  Changed paths:
    M vistrails/gui/bundles/installbundle.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/gui/bundles/installbundle.py


  Commit: 774063c819815b08264ddcc2ac9b00c2ad769892
      https://github.com/VisTrails/VisTrails/commit/774063c819815b08264ddcc2ac9b00c2ad769892
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-21 (Mon, 21 Jul 2014)

  Changed paths:
    M vistrails/gui/requirements.py

  Log Message:
  -----------
  Forces the use of PyQt4 (avoid PySide)


  Commit: 2460948327cc9d87649f9529c67da4542c6a4835
      https://github.com/VisTrails/VisTrails/commit/2460948327cc9d87649f9529c67da4542c6a4835
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-21 (Mon, 21 Jul 2014)

  Changed paths:
    M vistrails/gui/requirements.py

  Log Message:
  -----------
  Forces the use of PyQt4 (avoid PySide)


  Commit: 6698cdc895e158d0a0b1c15823d0e0a52a8c4a4c
      https://github.com/VisTrails/VisTrails/commit/6698cdc895e158d0a0b1c15823d0e0a52a8c4a4c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-22 (Tue, 22 Jul 2014)

  Changed paths:
    M vistrails/gui/common_widgets.py

  Log Message:
  -----------
  Added missing imports

gui/common_widgets.py


  Commit: 602ac5122a8fe5848efe58043a2a62cc52f92ff8
      https://github.com/VisTrails/VisTrails/commit/602ac5122a8fe5848efe58043a2a62cc52f92ff8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-22 (Tue, 22 Jul 2014)

  Changed paths:
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/vtk/base_module.py

  Log Message:
  -----------
  Fixed OutputModule subclasses becoming abstract

packages/matplotlib/bases.py:
- MplFigureOutput: Set ModuleSettings without abstract flag

packages/vtk/base_module.py:
- vtkRendererOutput: Set ModuleSettings without abstract flag


  Commit: 3ce4ac7c8ba08cf624610beea4d4e8088d62e5b7
      https://github.com/VisTrails/VisTrails/commit/3ce4ac7c8ba08cf624610beea4d4e8088d62e5b7
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-07-22 (Tue, 22 Jul 2014)

  Changed paths:
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Add upgrade for Map.Result port type change


  Commit: f725474383b8b8ad4b110e84dd5e4ebf0d8ba3d8
      https://github.com/VisTrails/VisTrails/commit/f725474383b8b8ad4b110e84dd5e4ebf0d8ba3d8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-23 (Wed, 23 Jul 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py
    M vistrails/packages/tabledata/common.py

  Log Message:
  -----------
  Restored configuration widget for rest of OutputModule subclasses

core/modules/output_modules.py
packages/tabledata/common.py


  Commit: 3e52b80cac913a8477f9e3c25dbff1aa9b3eab47
      https://github.com/VisTrails/VisTrails/commit/3e52b80cac913a8477f9e3c25dbff1aa9b3eab47
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-24 (Thu, 24 Jul 2014)

  Changed paths:
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Put set parameters on top in input port list

gui/ports_pane.py:
 - PortItem.__lt__: *new
   Sort by (expanded, name)
 - PortList.update_module:
   Call sort on input ports


  Commit: 3620e2588b229c116b25c1c578181fa58264a1e4
      https://github.com/VisTrails/VisTrails/commit/3620e2588b229c116b25c1c578181fa58264a1e4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-29 (Tue, 29 Jul 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fixes warnings/imports/w-space in configuration.py


  Commit: 2e56d65ddd4de6f0446eb9eb74f5aaa6b8dcd49a
      https://github.com/VisTrails/VisTrails/commit/2e56d65ddd4de6f0446eb9eb74f5aaa6b8dcd49a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-29 (Tue, 29 Jul 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fixes typo


  Commit: a9bbb83f22347799d02b42db4f4cb02a1f188048
      https://github.com/VisTrails/VisTrails/commit/a9bbb83f22347799d02b42db4f4cb02a1f188048
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-30 (Wed, 30 Jul 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Skips TestConfiguration#test_parser() on PY26


  Commit: 8e0289a0ced0c845fc59b3eb64cb4d9ed413a335
      https://github.com/VisTrails/VisTrails/commit/8e0289a0ced0c845fc59b3eb64cb4d9ed413a335
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-07-30 (Wed, 30 Jul 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Merge branch 'fix-argparse-py26' into 'master'


  Commit: 982db94ebf99a0d8b1c5529da93327aa40143213
      https://github.com/VisTrails/VisTrails/commit/982db94ebf99a0d8b1c5529da93327aa40143213
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-07-31 (Thu, 31 Jul 2014)

  Changed paths:
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Fixed "dictionary changed size during iteration" in gui/preferences.py

Ticket: 883


  Commit: 26704ad5abb42c71c49c9f9cf980b2587e0986b4
      https://github.com/VisTrails/VisTrails/commit/26704ad5abb42c71c49c9f9cf980b2587e0986b4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/gui/collection/vis_log.py

  Log Message:
  -----------
  Hide end time in provenance view

Also shortens start time
The full times can still be seen in the details window

gui/collection/vis_log.py: QExecutionItem


  Commit: 9ea5754003d78a84e8b973779377ce5a5c383d05
      https://github.com/VisTrails/VisTrails/commit/9ea5754003d78a84e8b973779377ce5a5c383d05
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Keep inputs/outputs/annotations from overflowing on Mac

gui/module_info.py:
  Use stylesheet with font size 12pt
  Need to check how this looks on other platforms


  Commit: bf5e20c923f72b245c2948720b2bba37bedfa71a
      https://github.com/VisTrails/VisTrails/commit/bf5e20c923f72b245c2948720b2bba37bedfa71a
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Fix issue with package reloading in Mac binary

The issue was the fact that all packages live inside of lib/python2.7
so all included vistrails packages were identified as system packages.
Now, we just exclude anything in lib/python2.7/vistrails.

vistrails/core/modules/package.py:
  - Package.import_override.is_sys_pkg: use modified regex and logic

Ticket: 762


  Commit: 22fa2f2c74b0781c4d32c7bd5182c3016c0d9554
      https://github.com/VisTrails/VisTrails/commit/22fa2f2c74b0781c4d32c7bd5182c3016c0d9554
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Fixes David's regex with negative look-aheads


  Commit: 18c0bbecad4d440bc52fc28a9da1e887e6922271
      https://github.com/VisTrails/VisTrails/commit/18c0bbecad4d440bc52fc28a9da1e887e6922271
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/core/modules/package.py


  Commit: 18a80217950a8927648ee3ea9d86cf788571e9a0
      https://github.com/VisTrails/VisTrails/commit/18a80217950a8927648ee3ea9d86cf788571e9a0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixes merge error in gui/application.py

>From merge 72477b4b63499a7c349ae3cf734c28aa2452b10a.


  Commit: 6199d7cc63c11c870b40feb2795efc0ff548d43a
      https://github.com/VisTrails/VisTrails/commit/6199d7cc63c11c870b40feb2795efc0ff548d43a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Fixes VistrailsApplicationInterface#open_workflow()

It called VistrailsCoreApplication#add_vistrail() with too few
arguments, although that was accepted by VistrailsApplicationSingleton
(gui).


  Commit: 2c31d66d2c071a3a53c09e624926befdbf4abd6a
      https://github.com/VisTrails/VisTrails/commit/2c31d66d2c071a3a53c09e624926befdbf4abd6a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Removes duplicated code from configuration.py


  Commit: 3886cd1d489665f109b1d9e9a315b8ef8afe639b
      https://github.com/VisTrails/VisTrails/commit/3886cd1d489665f109b1d9e9a315b8ef8afe639b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Fixes overwriting workflows with vistrails


  Commit: 7eb0bcb728d86a021756bc92bfd219c3aa10172e
      https://github.com/VisTrails/VisTrails/commit/7eb0bcb728d86a021756bc92bfd219c3aa10172e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-01 (Fri, 01 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Get open_vistrail() to create the controller

It seems that add_vistrail() doesn't do its job.


  Commit: bf6ece52d6fe9f1b2d7ac2ead511cd0e20587354
      https://github.com/VisTrails/VisTrails/commit/bf6ece52d6fe9f1b2d7ac2ead511cd0e20587354
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Fixes warnings in vistrail_controller.py


  Commit: 611a366c0e3ef4b09a11b2ade737cedd6fd15ae3
      https://github.com/VisTrails/VisTrails/commit/611a366c0e3ef4b09a11b2ade737cedd6fd15ae3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Adds from_root=True for no good reason


  Commit: fa7640a3dae7fe068440b57bac3f09a25a2ada7a
      https://github.com/VisTrails/VisTrails/commit/fa7640a3dae7fe068440b57bac3f09a25a2ada7a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Adds some error checking to the DB layer


  Commit: cc5df2d22eddd41a9ac56f1d353f99ea5ef1451a
      https://github.com/VisTrails/VisTrails/commit/cc5df2d22eddd41a9ac56f1d353f99ea5ef1451a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/db/services/io.py

  Log Message:
  -----------
  Fixes a typo


  Commit: 788da8dbcbf884f8e513618a95543afe079554c1
      https://github.com/VisTrails/VisTrails/commit/788da8dbcbf884f8e513618a95543afe079554c1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Adds some error checking to the GUI


  Commit: 5a28b799917d955dfe95d7e19238377b4c975aaa
      https://github.com/VisTrails/VisTrails/commit/5a28b799917d955dfe95d7e19238377b4c975aaa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Removes obsolete setup_options()

read_options() is used instead, since 'rewrite-startup' was merged in.


  Commit: 359f1c7bba1d654d561bd6315664837fb827ae12
      https://github.com/VisTrails/VisTrails/commit/359f1c7bba1d654d561bd6315664837fb827ae12
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Makes applications no longer default on sys.argv

This is similar to b662dffd, re-done for 'rewrite-startup'. It allows
applications to function without ever reading sys.argv, which is notably
useful for the API.


  Commit: d7ba627c6c4cf9895f044b4d3a8a72dc10aa025c
      https://github.com/VisTrails/VisTrails/commit/d7ba627c6c4cf9895f044b4d3a8a72dc10aa025c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Fixes more issues in core/application.py


  Commit: eb58e6ecd88f2ad91c161bd7115c57220ad4cc46
      https://github.com/VisTrails/VisTrails/commit/eb58e6ecd88f2ad91c161bd7115c57220ad4cc46
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixes single-instance mode


  Commit: e48fca2d7aa3f403da1ad4ecbda1683df294159a
      https://github.com/VisTrails/VisTrails/commit/e48fca2d7aa3f403da1ad4ecbda1683df294159a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Do not call mark_list_depth on invalid pipelines

core/vistrail/pipeline.py:
  - mark_list_depth:
    Check for source spec before using it

gui/pipeline_view.py:
  Do not call mark_list_depth on invalid pipelines

Ticket: 887


  Commit: b8296c3c72475be9dd4289c0c8f2b2598f610bc2
      https://github.com/VisTrails/VisTrails/commit/b8296c3c72475be9dd4289c0c8f2b2598f610bc2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-04 (Mon, 04 Aug 2014)

  Changed paths:
    R vistrails/core/command_line.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Removes unused file core/command_line.py

This probably breaks the server, but it should be updated after the
'rewrite-startup' merge.


  Commit: 8d9980eee32e1bd4dd1ff831254723dd6d1f8163
      https://github.com/VisTrails/VisTrails/commit/8d9980eee32e1bd4dd1ff831254723dd6d1f8163
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-05 (Tue, 05 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fix issue with QFileOpenEvents being triggered

QApplication.__init__ needs argv to contain at least one string

Bug 889


  Commit: 3052d961ac51bacec903df00bbb3badc72f0299d
      https://github.com/VisTrails/VisTrails/commit/3052d961ac51bacec903df00bbb3badc72f0299d
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-05 (Tue, 05 Aug 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/connection.py

  Log Message:
  -----------
  Move Connection.moduleConnection to interpreter

Didn't really make sense to have this on the specification-side,
caused issues with subworkflows


  Commit: fd41f165cd11215e03585a681462c22de417cea1
      https://github.com/VisTrails/VisTrails/commit/fd41f165cd11215e03585a681462c22de417cea1
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-05 (Tue, 05 Aug 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py

  Log Message:
  -----------
  Use source spec in interpreter's make_connection

Required for new list handling?


  Commit: 1d1529f0027049757f8f1f2c53c13569dc687974
      https://github.com/VisTrails/VisTrails/commit/1d1529f0027049757f8f1f2c53c13569dc687974
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-05 (Tue, 05 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Makes log record propagation a bit saner

I don't understand how this is not a Python bug, but the users seem
happy about this. It is terrible.


  Commit: aefa30b01b6611a4d6603bfe562ae36541375f84
      https://github.com/VisTrails/VisTrails/commit/aefa30b01b6611a4d6603bfe562ae36541375f84
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-05 (Tue, 05 Aug 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_4/domain/auto_gen.py
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Fix issues with output configuration GUI

Make it possible to reset if setting leads to an exception, check for
empty values, set temp configuration so expert settings stays happy.

Bug 881


  Commit: 4b2113d795eb78e5477fc0d019ad48bf1b6b5829
      https://github.com/VisTrails/VisTrails/commit/4b2113d795eb78e5477fc0d019ad48bf1b6b5829
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M doc/dist/instructions.txt

  Log Message:
  -----------
  Added instructions to make sure correct branch is used when building usersguide

Ticket: 891


  Commit: 30c7410bda1519f2aa3dfe3d1800ba564f18703b
      https://github.com/VisTrails/VisTrails/commit/30c7410bda1519f2aa3dfe3d1800ba564f18703b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Makes LevelCheckerLogger instanciation safer


  Commit: 0b7263fe45bddc3195db27075f0e7fa0fbf99922
      https://github.com/VisTrails/VisTrails/commit/0b7263fe45bddc3195db27075f0e7fa0fbf99922
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Prevents "no handlers for logger "root"" warning


  Commit: 79c3021a50b3852d09cb25a416da84a753cab0d2
      https://github.com/VisTrails/VisTrails/commit/79c3021a50b3852d09cb25a416da84a753cab0d2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M doc/usersguide/parameter_exploration.rst

  Log Message:
  -----------
  Usersguide: Fixed parameter exploration vtl links

docs/usersguide/parameter_exploration.rst:
  Custom link names should end with '.vt' not '.vtl'


  Commit: 2b4aff16693581e772d3c51d250f0ee77c3bbcdf
      https://github.com/VisTrails/VisTrails/commit/2b4aff16693581e772d3c51d250f0ee77c3bbcdf
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M doc/dist/instructions.txt

  Log Message:
  -----------
  Added instructions to make sure correct branch is used when building usersguide

Ticket: 891


  Commit: 66f00bc6e149e10de8d9d9d7481e263adda18b28
      https://github.com/VisTrails/VisTrails/commit/66f00bc6e149e10de8d9d9d7481e263adda18b28
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M doc/usersguide/parameter_exploration.rst

  Log Message:
  -----------
  Usersguide: Fixed parameter exploration vtl links

docs/usersguide/parameter_exploration.rst:
  Custom link names should end with '.vt' not '.vtl'


  Commit: 8971313528005e332f09ff3f06beaa993e785baa
      https://github.com/VisTrails/VisTrails/commit/8971313528005e332f09ff3f06beaa993e785baa
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-08-06 (Wed, 06 Aug 2014)

  Changed paths:
    M vistrails/run.py

  Log Message:
  -----------
  Improve initialization exception messages

traceback.print_exc takes file as its 2nd arg, and
format_final_exc_line includes its own newline.


  Commit: edf0838811d6f178af126be37891d501c248edb6
      https://github.com/VisTrails/VisTrails/commit/edf0838811d6f178af126be37891d501c248edb6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-07 (Thu, 07 Aug 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Makes do_version_switch() to current validate

Previously, no validation would occur if we were changing to the already
selected version. This was an important optimization. However, this
meant that calling perform_action() then change_selected_version(),
neither of them would validate.

This makes change_selected_version() to current pipeline (re)validate if
the current pipeline was invalid (or not yet validated). This means that
changing to the current version is still fast, but errors will be raised
if present.

The behavior that changes is that you will get exceptions when changing
to an invalid pipeline if it was previously selected.


  Commit: 632db4ea8499ba7c0a2b931531c3051d637ca622
      https://github.com/VisTrails/VisTrails/commit/632db4ea8499ba7c0a2b931531c3051d637ca622
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-07 (Thu, 07 Aug 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Makes perform_action() validate

Previously, no validation would occur when performing an action. This
meant that the pipeline stayed unvalidated until the next call to
change_selected_version(). However, the latter call wouldn't validate
without from_root=True because it was effectively changing to the
currently selected version.

This makes perform_action() validate the new pipeline, however it still
won't raise exceptions on error by default. The next call to
change_selected_version() will raise that, thanks to the previous
commit.


  Commit: 13690a4d33844c6d5d96759a777efa5454bf406b
      https://github.com/VisTrails/VisTrails/commit/13690a4d33844c6d5d96759a777efa5454bf406b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-07 (Thu, 07 Aug 2014)

  Changed paths:
    M doc/dist/instructions.txt
    M doc/usersguide/parameter_exploration.rst
    M vistrails/core/application.py
    R vistrails/core/command_line.py
    M vistrails/core/configuration.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/services/io.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_4/domain/auto_gen.py
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/gui/application.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/preferences.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py
    M vistrails/run.py

  Log Message:
  -----------
  Merge branch 'master' into 'fix-open-workflow'

Conflicts:
	vistrails/core/application.py


  Commit: 067e556d8682593e51087e0a5776ff8599028310
      https://github.com/VisTrails/VisTrails/commit/067e556d8682593e51087e0a5776ff8599028310
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-07 (Thu, 07 Aug 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Merge branch 'pipeline-validation' into 'fix-open-workflow'


  Commit: 3d938913fd21be3f0ff26e6ec5506bb4a0441101
      https://github.com/VisTrails/VisTrails/commit/3d938913fd21be3f0ff26e6ec5506bb4a0441101
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-07 (Thu, 07 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Revert "Adds from_root=True for no good reason"

This reverts commit 611a366c0e3ef4b09a11b2ade737cedd6fd15ae3.

Conflicts:
	vistrails/core/application.py


  Commit: 21a7d6c848d65539b95511d1280d55dac1b2568f
      https://github.com/VisTrails/VisTrails/commit/21a7d6c848d65539b95511d1280d55dac1b2568f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-08 (Fri, 08 Aug 2014)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Fixes UnboundLocalError in Package#dependencies()


  Commit: c324acad38f9fa0d3ff2637fa77d0c9b8b665130
      https://github.com/VisTrails/VisTrails/commit/c324acad38f9fa0d3ff2637fa77d0c9b8b665130
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_table.py

  Log Message:
  -----------
  Fixed parameter exploration dates not saved in vistrail

Also fixed comparing PE:s.
A new version was always created on execution because
they were always considered different.

core/paramexplore/paramexplore.py
  Added __ne__ and removed real_id comparison

db/specs/all.xml:
  Added missing parameter exploration date in xml

Fixed PE date format in:
gui/paramexplore/pe_inspector.py
gui/paramexplore/pe_table.py
core/collection/parameter_exploration.py:

Regenerated:
db/versions/v1_0_3/persistence/xml/auto_gen.py
db/versions/v1_0_3/schemas/xml/vistrail.xsd
db/versions/v1_0_3/specs/all.xml

Bugfix: Could not load saved Parameter Explorations
Bugfix: New Parameter Exploration was created for each execution


  Commit: 5f928bd180103a6d13867d3d75dce25c260c807f
      https://github.com/VisTrails/VisTrails/commit/5f928bd180103a6d13867d3d75dce25c260c807f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/paramexplore/paramexplore.py

  Log Message:
  -----------
  Fixed TestParameterExploration.testComparisonOperator

core/paramexplore/paramexplore.py


  Commit: 9f829012ecc382cda95a2caea47184fa5137ae37
      https://github.com/VisTrails/VisTrails/commit/9f829012ecc382cda95a2caea47184fa5137ae37
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/requirements.py
    M vistrails/gui/resources/images/vistrails_splash.png
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/run.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'deployment/v2.1'


  Commit: ceda8c4defcd2d272c07c1928230dc16199193a4
      https://github.com/VisTrails/VisTrails/commit/ceda8c4defcd2d272c07c1928230dc16199193a4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Bumps version to v2.1.3


  Commit: b21471a6c018d33d0c15d39f92e8c83ce6eb0aa9
      https://github.com/VisTrails/VisTrails/commit/b21471a6c018d33d0c15d39f92e8c83ce6eb0aa9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  initialize_packages optionally reports missing dependencies

This particular type of error might be expected if you are loading
packages non-interactively. They are not application-level errors, they
just indicate that the package cannot be used.


  Commit: 40df6298242a763b91711efbb82bcee1c899b2fd
      https://github.com/VisTrails/VisTrails/commit/40df6298242a763b91711efbb82bcee1c899b2fd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/startup.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Don't cry about missing deps on first run

This makes VistrailsStartup set a 'first_run' flag, indicating whether
the default configuration was installed and loaded. In this situation,
the applications ask the PackageManager not to report missing
dependencies.


  Commit: fdc5646365f0f06a921a5d522d26bdd06c6f37cd
      https://github.com/VisTrails/VisTrails/commit/fdc5646365f0f06a921a5d522d26bdd06c6f37cd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Don't report MissingRequirements on first run

ModuleRegistry#initialize_package() can now raise MissingRequirement.

PackageManager#initialize_packages() reports missing requirements
separately, and silences that if report_missing_dependencies is False.


  Commit: 46c9afd1e2426d980b1055fbeac43e3994fb7a8b
      https://github.com/VisTrails/VisTrails/commit/46c9afd1e2426d980b1055fbeac43e3994fb7a8b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    R vistrails/core/resources/default_vistrails_startup
    M vistrails/core/startup.py

  Log Message:
  -----------
  Removes last traces of .vistrails/startup.py


  Commit: 96a4f1ad2e641794fdcef953651760a361016252
      https://github.com/VisTrails/VisTrails/commit/96a4f1ad2e641794fdcef953651760a361016252
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    M vistrails/core/startup.py

  Log Message:
  -----------
  Fixes other warnings in startup.py


  Commit: 4352a82eb6fa5cb1eb3285f9804eeb934b08e73c
      https://github.com/VisTrails/VisTrails/commit/4352a82eb6fa5cb1eb3285f9804eeb934b08e73c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-11 (Mon, 11 Aug 2014)

  Changed paths:
    R vistrails/core/resources/default_vistrails_startup
    M vistrails/core/startup.py

  Log Message:
  -----------
  Merge branch 'removes-startup-py' into 'master'


  Commit: d823e4e1ad02beeef7e41e4a79859ec2d9066b52
      https://github.com/VisTrails/VisTrails/commit/d823e4e1ad02beeef7e41e4a79859ec2d9066b52
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_table.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Also adds missing date to 1.0.4 schema

Conflicts:
	vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
	vistrails/gui/paramexplore/pe_table.py


  Commit: b0494df87189805d90d9a6edfc33e525a06541d5
      https://github.com/VisTrails/VisTrails/commit/b0494df87189805d90d9a6edfc33e525a06541d5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/db/locator.py

  Log Message:
  -----------
  Fixed vtl:s without version not working

core/db/locator.py:
  - guess_extension_from_contents:
    int conversion need to check for TypeError


  Commit: f0b62c9ca3817cc54e3a998b836febad704ed9e3
      https://github.com/VisTrails/VisTrails/commit/f0b62c9ca3817cc54e3a998b836febad704ed9e3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    A doc/usersguide/figures/parameter_exploration/inspector.png
    M doc/usersguide/parameter_exploration.rst

  Log Message:
  -----------
  Added info on saving parameter explorations

doc/usersguide/parameter_exploration.rst:
  Added Saving parameter explorations chapter

doc/usersguide/figures/parameter_exploration/inspector.png: *new


  Commit: f4186ba91fb152a0211e23be810cee2a5f38d224
      https://github.com/VisTrails/VisTrails/commit/f4186ba91fb152a0211e23be810cee2a5f38d224
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    A doc/usersguide/figures/parameter_exploration/inspector.png
    M doc/usersguide/parameter_exploration.rst

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: d3db65418fad8c1640f66f77e8a5d6a686be6c6a
      https://github.com/VisTrails/VisTrails/commit/d3db65418fad8c1640f66f77e8a5d6a686be6c6a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Fixed 'Create Version' and 'Locate Version' spreadsheet buttons

packages/spreadsheet/spreadsheet_cell.py:
  We should now use locator, not controller, to find the view.

Ticket: 893


  Commit: 8adad9ad867994fb9cd263116cef8c47d0a53848
      https://github.com/VisTrails/VisTrails/commit/8adad9ad867994fb9cd263116cef8c47d0a53848
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/paramexplore/paramexplore.py

  Log Message:
  -----------
  Fixed invalid alias when creating version from PE

Bugfix: Alias error when using spreadsheet button "Create Version"


  Commit: 3609a03beaf8e5754969dfb4f876be3357ad7f43
      https://github.com/VisTrails/VisTrails/commit/3609a03beaf8e5754969dfb4f876be3357ad7f43
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Fixes typo: MissingRequirement should disable pkg

Fixes fdc56463, MissingRequirement should disable the package just like
InitializationFailed does.


  Commit: 7337e8e008916d61f6ecdfb09e7f413152d2da0c
      https://github.com/VisTrails/VisTrails/commit/7337e8e008916d61f6ecdfb09e7f413152d2da0c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Loads packages from pkg_resources entry points


  Commit: 26f84ba19f9327c248dc11b248710f7d85c5e892
      https://github.com/VisTrails/VisTrails/commit/26f84ba19f9327c248dc11b248710f7d85c5e892
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M .gitignore
    A .travis.yml
    A LICENSE
    M README.md
    A Vagrantfile
    R dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/common/splash/README
    R dist/common/splash/splash.ai
    R dist/common/splash/splash.svg
    R dist/common/wiki_header/header.ai
    R dist/common/wiki_header/header.jpg
    R dist/common/wiki_header/header.png
    R dist/common/wiki_header/header_fill.png
    R dist/mac/Input/CLToolsWizard.command
    R dist/mac/Input/LICENSE
    R dist/mac/Input/README
    R dist/mac/Input/VisTrails.command
    R dist/mac/Input/qt.conf
    R dist/mac/fix_itk_libraries.py
    R dist/mac/fix_qtplugin_libs.py
    R dist/mac/make_app
    R dist/mac/make_app_itk
    R dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/mac/resources/splash/splash.ai
    R dist/mac/resources/vistrails_icon.icns
    R dist/mac/resources/vistrails_icon_small.icns
    R dist/mac/setup.py
    R dist/mac/setup_itk.py
    R dist/mac/vistrails.dmgCanvas
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/bookmarks.xml
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/git.exe
    R dist/windows/Input/libiconv-2.dll
    R dist/windows/Input/libiconv2.dll
    R dist/windows/Input/libintl-2.dll
    R dist/windows/Input/license.txt
    R dist/windows/Input/qt.conf
    R dist/windows/Input/releaseNotes.txt
    R dist/windows/Input/runvistrails.py
    R dist/windows/Input/startup.py
    R dist/windows/Input/tar.exe
    R dist/windows/Input/unzip.exe
    R dist/windows/Input/unzip32.dll
    R dist/windows/Input/zip.exe
    R dist/windows/custom/vistrails-gdal.iss
    R dist/windows/custom/vistrailsx64-gdal.iss
    R dist/windows/resources/icons/src/vistrails_install.xcf
    R dist/windows/resources/icons/src/vistrails_install_flat.xcf
    R dist/windows/resources/icons/vistrails_install2.ico
    R dist/windows/resources/images/vistrails_icon.bmp
    R dist/windows/resources/images/vistrails_icon.png
    R dist/windows/resources/images/vistrails_icon_small.bmp
    R dist/windows/resources/images/vistrails_icon_small.png
    R dist/windows/vistrails.iss
    R dist/windows/vistrailsx64.iss
    M doc/dist/instructions.txt
    M doc/usersguide/conf.py
    A doc/usersguide/figures/parameter_exploration/inspector.png
    M doc/usersguide/list_handling.rst
    M doc/usersguide/packages.rst
    M doc/usersguide/parameter_exploration.rst
    M examples/mta-yankees.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py
    A requirements.txt
    M scripts/build_usersguide.py
    M scripts/create_release_wiki_table.py
    A scripts/dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/common/splash/README
    A scripts/dist/common/splash/splash.ai
    A scripts/dist/common/splash/splash.svg
    A scripts/dist/common/wiki_header/header.ai
    A scripts/dist/common/wiki_header/header.jpg
    A scripts/dist/common/wiki_header/header.png
    A scripts/dist/common/wiki_header/header_fill.png
    A scripts/dist/mac/Input/CLToolsWizard.command
    A scripts/dist/mac/Input/LICENSE
    A scripts/dist/mac/Input/README
    A scripts/dist/mac/Input/VisTrails.command
    A scripts/dist/mac/Input/qt.conf
    A scripts/dist/mac/fix_itk_libraries.py
    A scripts/dist/mac/fix_qtplugin_libs.py
    A scripts/dist/mac/make_app
    A scripts/dist/mac/make_app_itk
    A scripts/dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/mac/resources/splash/splash.ai
    A scripts/dist/mac/resources/vistrails_icon.icns
    A scripts/dist/mac/resources/vistrails_icon_small.icns
    A scripts/dist/mac/setup.py
    A scripts/dist/mac/setup_itk.py
    A scripts/dist/mac/vistrails.dmgCanvas
    A scripts/dist/source/make-vistrails-src-nightly.py
    A scripts/dist/source/make-vistrails-src-release.py
    A scripts/dist/ubuntu/_debian/control
    A scripts/dist/ubuntu/_debian/copyright
    A scripts/dist/ubuntu/create_debian_pkg.sh
    A scripts/dist/windows/Input/bookmarks.xml
    A scripts/dist/windows/Input/download_usersguide.py
    A scripts/dist/windows/Input/git.exe
    A scripts/dist/windows/Input/libiconv-2.dll
    A scripts/dist/windows/Input/libiconv2.dll
    A scripts/dist/windows/Input/libintl-2.dll
    A scripts/dist/windows/Input/license.txt
    A scripts/dist/windows/Input/qt.conf
    A scripts/dist/windows/Input/releaseNotes.txt
    A scripts/dist/windows/Input/runvistrails.py
    A scripts/dist/windows/Input/startup.py
    A scripts/dist/windows/Input/tar.exe
    A scripts/dist/windows/Input/unzip.exe
    A scripts/dist/windows/Input/unzip32.dll
    A scripts/dist/windows/Input/zip.exe
    A scripts/dist/windows/common1.iss
    A scripts/dist/windows/common2.iss
    A scripts/dist/windows/resources/icons/src/vistrails_install.xcf
    A scripts/dist/windows/resources/icons/src/vistrails_install_flat.xcf
    A scripts/dist/windows/resources/icons/vistrails_install2.ico
    A scripts/dist/windows/resources/images/vistrails_icon.bmp
    A scripts/dist/windows/resources/images/vistrails_icon.png
    A scripts/dist/windows/resources/images/vistrails_icon_small.bmp
    A scripts/dist/windows/resources/images/vistrails_icon_small.png
    A scripts/dist/windows/vistrails-gdal.iss
    A scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64-gdal.iss
    A scripts/dist/windows/vistrailsx64.iss
    M scripts/release_notes.py
    A setup.py
    M vistrails/__init__.py
    M vistrails/core/application.py
    M vistrails/core/collection/parameter_exploration.py
    R vistrails/core/command_line.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/default.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    A vistrails/core/modules/output_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/param_explore.py
    M vistrails/core/paramexplore/paramexplore.py
    R vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/resources/spawned_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/windows.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/bin/templates/domain.py.mako
    M vistrails/db/services/io.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_3.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    M vistrails/db/versions/v1_0_4/domain/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/debug.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/module_info.py
    M vistrails/gui/module_iteration.py
    M vistrails/gui/modules/constant_configuration.py
    A vistrails/gui/modules/output_configuration.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/repository.py
    M vistrails/gui/requirements.py
    M vistrails/gui/shell.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/run.py
    A vistrails/tests/__main__.py
    A vistrails/tests/resources/startup-0.1.xml.tmpl
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'master' into 'pkg-as-setuptools-plugins'


  Commit: 0326f6d045e4c1e3ba70c2857f01443b1a99867b
      https://github.com/VisTrails/VisTrails/commit/0326f6d045e4c1e3ba70c2857f01443b1a99867b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Fills in _available_packages early


  Commit: 0d0b4f22998a5cfa36bb0f70661ecf775942a171
      https://github.com/VisTrails/VisTrails/commit/0d0b4f22998a5cfa36bb0f70661ecf775942a171
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/package.py
    M vistrails/core/packagemanager.py
    M vistrails/core/startup.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Removes a whole lot of dead code


  Commit: 1192052124f292f8f5024327b5456b5ccdf00453
      https://github.com/VisTrails/VisTrails/commit/1192052124f292f8f5024327b5456b5ccdf00453
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Fixes whitespace madness in vistrails_module.py

Very long lines because of trailing whitespace.


  Commit: f73e4009c06d7b7999c6f1a19e334a4213ed92a4
      https://github.com/VisTrails/VisTrails/commit/f73e4009c06d7b7999c6f1a19e334a4213ed92a4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Removes unused create_default_package()


  Commit: 473a97c7c770425fcb8101bf3769927ca4a42ca7
      https://github.com/VisTrails/VisTrails/commit/473a97c7c770425fcb8101bf3769927ca4a42ca7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-12 (Tue, 12 Aug 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removes SmartSource


  Commit: 61fa8536ef3b9fabcb5cc78c88ee6973df3c9633
      https://github.com/VisTrails/VisTrails/commit/61fa8536ef3b9fabcb5cc78c88ee6973df3c9633
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-13 (Wed, 13 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Passes sys.argv to QApplication() again

Ticket: 889


  Commit: 6142517548a548d6e2684ae95c4c97fc3bb9dfbe
      https://github.com/VisTrails/VisTrails/commit/6142517548a548d6e2684ae95c4c97fc3bb9dfbe
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-20 (Wed, 20 Aug 2014)

  Changed paths:
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/mashups_widgets.py

  Log Message:
  -----------
  Fixed alias parameters to get_widget_class

Calls to get_widget_class had not been updated to use descriptor:
  gui/mashups/alias_inspector.py
  gui/mashups/mashups_widgets.py


  Commit: 06b415b3ac1edd441c8a41245931e47df9776e07
      https://github.com/VisTrails/VisTrails/commit/06b415b3ac1edd441c8a41245931e47df9776e07
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-20 (Wed, 20 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/packagemanager.py
    M vistrails/core/startup.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Merge branch 'hide-missing-dependencies' into 'master'

Conflicts:
	vistrails/core/startup.py


  Commit: 05c522e4ad2c8eb4753b48e421d62726cafd26c4
      https://github.com/VisTrails/VisTrails/commit/05c522e4ad2c8eb4753b48e421d62726cafd26c4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-20 (Wed, 20 Aug 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/startup.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Merge branch 'remove-dead-code' into 'master'


  Commit: 30c1b4bf377b266afc48a8b12620583d2d47b1bf
      https://github.com/VisTrails/VisTrails/commit/30c1b4bf377b266afc48a8b12620583d2d47b1bf
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-20 (Wed, 20 Aug 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py

  Log Message:
  -----------
  Merge branch 'pipeline-validation' into 'master'


  Commit: d851d09d4700723e964b71333f9aba6690001453
      https://github.com/VisTrails/VisTrails/commit/d851d09d4700723e964b71333f9aba6690001453
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-20 (Wed, 20 Aug 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Merge branch 'fix-open-workflow' into 'master'


  Commit: 0db067551366ad22d2b928fe3f9197a924c7c900
      https://github.com/VisTrails/VisTrails/commit/0db067551366ad22d2b928fe3f9197a924c7c900
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-22 (Fri, 22 Aug 2014)

  Changed paths:
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Disabled module info resize fix on non-OSX platforms

gui/module_info.py:
  Only set stylesheet for Input/Output/Annotation labels on OSX


  Commit: 2d5494ed1d10df0e2f65a4eca9612a2dfc9050b3
      https://github.com/VisTrails/VisTrails/commit/2d5494ed1d10df0e2f65a4eca9612a2dfc9050b3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-22 (Fri, 22 Aug 2014)

  Changed paths:
    M vistrails/gui/graphics_view.py

  Log Message:
  -----------
  Reduced graphics view zoom range to half

gui/graphics_view.py:
 - QInteractiveGraphicsView:
   Reduced scaling range to half (on a power scale)

 - QInteractiveGraphicsView.viewPortEvent:
   Improved pinch gesture scaling
   Fixed properties not being a Variant after change to API v2

Bugfix: Pinch gesture was broken


  Commit: e19cc7df202bf4e7a819aec906a8bcee4cc38681
      https://github.com/VisTrails/VisTrails/commit/e19cc7df202bf4e7a819aec906a8bcee4cc38681
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-22 (Fri, 22 Aug 2014)

  Changed paths:
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/gui/graphics_view.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 5eadc2dfeebabc87cd3bcdedb0e69c774319e373
      https://github.com/VisTrails/VisTrails/commit/5eadc2dfeebabc87cd3bcdedb0e69c774319e373
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-25 (Mon, 25 Aug 2014)

  Changed paths:
    M dist/source/make-vistrails-src-nightly.py
    M dist/source/make-vistrails-src-release.py

  Log Message:
  -----------
  Fixed removing contrib dir in source builds


  Commit: 27a0170e0397a75fa4a058e841d2610c42a72874
      https://github.com/VisTrails/VisTrails/commit/27a0170e0397a75fa4a058e841d2610c42a72874
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-25 (Mon, 25 Aug 2014)

  Changed paths:
    M scripts/dist/source/make-vistrails-src-nightly.py
    M scripts/dist/source/make-vistrails-src-release.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	scripts/dist/source/make-vistrails-src-nightly.py
	scripts/dist/source/make-vistrails-src-release.py


  Commit: 269e4808eca324c669cdc989a26176d95dd3c6be
      https://github.com/VisTrails/VisTrails/commit/269e4808eca324c669cdc989a26176d95dd3c6be
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-25 (Mon, 25 Aug 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/resources/images/vistrails_splash.png

  Log Message:
  -----------
  Updated for release 2.1.4


  Commit: 2ac098fafb52082e3aa36b973c3bcf5f0f01af6a
      https://github.com/VisTrails/VisTrails/commit/2ac098fafb52082e3aa36b973c3bcf5f0f01af6a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-25 (Mon, 25 Aug 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Updated hash for release 2.1.4


  Commit: 391c2cbe407d4a362d8a1bdb5728830911d1b56b
      https://github.com/VisTrails/VisTrails/commit/391c2cbe407d4a362d8a1bdb5728830911d1b56b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-08-25 (Mon, 25 Aug 2014)

  Changed paths:
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/dist/mac/Input/README
    M scripts/dist/mac/setup.py
    M scripts/dist/source/make-vistrails-src-release.py
    M scripts/dist/windows/Input/releaseNotes.txt
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss
    M scripts/release_notes.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	dist/windows/custom/vistrails-gdal.iss
	dist/windows/custom/vistrailsx64-gdal.iss
	dist/windows/vistrails.iss
	dist/windows/vistrailsx64.iss
	scripts/dist/common/splash/splash.svg
	vistrails/gui/resources/images/vistrails_splash.png


  Commit: 64ca4c70e6df64f66adecc9893115a5d4a1c01eb
      https://github.com/VisTrails/VisTrails/commit/64ca4c70e6df64f66adecc9893115a5d4a1c01eb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M dist/common/splash/splash.svg
    M dist/mac/Input/README
    M dist/mac/setup.py
    M dist/source/make-vistrails-src-nightly.py
    M dist/source/make-vistrails-src-release.py
    M dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M doc/dist/instructions.txt
    M doc/usersguide/conf.py
    A doc/usersguide/figures/parameter_exploration/inspector.png
    M doc/usersguide/parameter_exploration.rst
    M scripts/create_release_wiki_table.py
    M scripts/release_notes.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/modules/package.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/system/__init__.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/requirements.py
    M vistrails/gui/resources/images/vistrails_splash.png
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'deployment/v2.1'


  Commit: 5ee4117579b7aa10bbbb10300e09fe42859dff24
      https://github.com/VisTrails/VisTrails/commit/5ee4117579b7aa10bbbb10300e09fe42859dff24
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Bumps version to v2.1.4


  Commit: 189ca7bd7f66a4e63aa29f235c80c2124cc6c2ad
      https://github.com/VisTrails/VisTrails/commit/189ca7bd7f66a4e63aa29f235c80c2124cc6c2ad
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M Vagrantfile

  Log Message:
  -----------
  Adds a 64bit machine to the Vagrantfile


  Commit: eb51f7319e8061097d037e431b24b98acb38dddd
      https://github.com/VisTrails/VisTrails/commit/eb51f7319e8061097d037e431b24b98acb38dddd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M Vagrantfile
    M setup.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'master'


  Commit: e60714af663cbfd338cdef61f25053b12c95fbaa
      https://github.com/VisTrails/VisTrails/commit/e60714af663cbfd338cdef61f25053b12c95fbaa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Passes xdg-mime vt from tests instead of examples

The examples directory might not be available.


  Commit: e411602a0d437850be90a03e3d07caefce9a7c46
      https://github.com/VisTrails/VisTrails/commit/e411602a0d437850be90a03e3d07caefce9a7c46
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'deployment/v2.1'


  Commit: 1a3d1039f2d9cf9d644384594c46fe0c80b49d51
      https://github.com/VisTrails/VisTrails/commit/1a3d1039f2d9cf9d644384594c46fe0c80b49d51
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'master'


  Commit: 54e770a67a3490229dea2b2f5e7ff578936c81b8
      https://github.com/VisTrails/VisTrails/commit/54e770a67a3490229dea2b2f5e7ff578936c81b8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Renames debug's logger VisLog -> vistrails


  Commit: 0d6e56357a656e5d4b7547ab16de899d736be52c
      https://github.com/VisTrails/VisTrails/commit/0d6e56357a656e5d4b7547ab16de899d736be52c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Different approach -- two loggers

The logger that the 'debug' module logs on is now vistrails.logger. It
is internal and API users should NOT configure it (change level or
attach filters/handlers to it). It is controlled by the 'debug' module.

This internal logger re-logs to a 'vistrails' logger, which is meant to
be configured by API users if needed -- changing the level of this one
won't break anything.


  Commit: 224f49e8df749b15a8264c56d13ecca24de86f6f
      https://github.com/VisTrails/VisTrails/commit/224f49e8df749b15a8264c56d13ecca24de86f6f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py
    M vistrails/run.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Importing debug no longer adds a console handler

This means that a root logger should either be configured (usually the
case when VisTrails is used by something else) or log_to_console()
should be called to add the console StreamHandler to the root logger.


  Commit: 85773c44526441d9f6da4731f89e85520aad89c2
      https://github.com/VisTrails/VisTrails/commit/85773c44526441d9f6da4731f89e85520aad89c2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-27 (Wed, 27 Aug 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Makes set_message_level() change 'vistrails' level


  Commit: ce0b7e49c1e5562bd9105f2695c58ebd2b760461
      https://github.com/VisTrails/VisTrails/commit/ce0b7e49c1e5562bd9105f2695c58ebd2b760461
  Author: Eric Dill <edill at bnl.gov>
  Date:   2014-08-28 (Thu, 28 Aug 2014)

  Changed paths:
    M vistrails/api/__init__.py

  Log Message:
  -----------
  ENH: Updated create_group to return the created group


  Commit: fe55a2f20efe57ab1f20958b524730198b5e3baf
      https://github.com/VisTrails/VisTrails/commit/fe55a2f20efe57ab1f20958b524730198b5e3baf
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-28 (Thu, 28 Aug 2014)

  Changed paths:
    A dist/conda/README.md
    A dist/conda/vistrails/bld.bat
    A dist/conda/vistrails/build.sh
    A dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Adds conda recipe dist/conda/


  Commit: 37b0eafa369090f2ecd3768bb0f0136b4045ee5b
      https://github.com/VisTrails/VisTrails/commit/37b0eafa369090f2ecd3768bb0f0136b4045ee5b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-28 (Thu, 28 Aug 2014)

  Changed paths:
    A scripts/dist/conda/README.md
    A scripts/dist/conda/vistrails/bld.bat
    A scripts/dist/conda/vistrails/build.sh
    A scripts/dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Merge branch 'deployment/v2.1' into 'master'


  Commit: d320a13b7b68d42dc4896ec691749e6ea348970c
      https://github.com/VisTrails/VisTrails/commit/d320a13b7b68d42dc4896ec691749e6ea348970c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-08-30 (Sat, 30 Aug 2014)

  Changed paths:
    M vistrails/api/__init__.py

  Log Message:
  -----------
  Merge pull request 20 from NSLS-II


  Commit: 54510d0cd4fb71c4ec1a0a7abc218e2becc518c0
      https://github.com/VisTrails/VisTrails/commit/54510d0cd4fb71c4ec1a0a7abc218e2becc518c0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-01 (Mon, 01 Sep 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml

  Log Message:
  -----------
  Removes looping and machine changes from 1.0.3 schema

They should only be on schema 1.0.4

db/versions/v1_0_3/specs/all.xml:
* Machine object moved back to log object
* Removed LOOP_ITERATION

db/versions/v1_0_3/domain/auto_gen.py
db/versions/v1_0_3/persistence/sql/auto_gen.py
db/versions/v1_0_3/persistence/xml/auto_gen.py
db/versions/v1_0_3/schemas/sql/vistrails.sql
db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
db/versions/v1_0_3/schemas/xml/log.xsd

Ticket: 894


  Commit: 444b9d054ef5fa4b3a468d563d47ca4d003a305e
      https://github.com/VisTrails/VisTrails/commit/444b9d054ef5fa4b3a468d563d47ca4d003a305e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-02 (Tue, 02 Sep 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  update_connections: do not run mark_list_depth on invalid pipeline

This was triggered by the upgrade code

gui/pipeline_view.py:
 - update_connections:
   Check if valid before calling mark_list_depth


  Commit: 15364544cb00235ff948d4fda293866e810f40bc
      https://github.com/VisTrails/VisTrails/commit/15364544cb00235ff948d4fda293866e810f40bc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-02 (Tue, 02 Sep 2014)

  Changed paths:
    M vistrails/core/upgradeworkflow.py

  Log Message:
  -----------
  Fixed typo in remap_module

core/upgradeworkflow.py:
 - remap_module:
   module_desc.spec_tuple() -> module_desc.spec_tuple


  Commit: 6dbef8723f03f2683567725ff59e0d31be4ce4d6
      https://github.com/VisTrails/VisTrails/commit/6dbef8723f03f2683567725ff59e0d31be4ce4d6
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-02 (Tue, 02 Sep 2014)

  Changed paths:
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Added missing Results port upgrade for Map and Filter

They are now of type List but upgrade only existed for Map on master

Bugfix: Map and Filter upgrades were missing


  Commit: 06d117cc754fd35d324f0223ccdaf4e27730240c
      https://github.com/VisTrails/VisTrails/commit/06d117cc754fd35d324f0223ccdaf4e27730240c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-02 (Tue, 02 Sep 2014)

  Changed paths:
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	vistrails/packages/controlflow/init.py


  Commit: d958998a40b88f31b6428f7aeafb2120413dfb44
      https://github.com/VisTrails/VisTrails/commit/d958998a40b88f31b6428f7aeafb2120413dfb44
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-02 (Tue, 02 Sep 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed update_connections using wrong pipeline attribute


  Commit: 9a5203db265bf686df0cd5fb7053a398c9f437dd
      https://github.com/VisTrails/VisTrails/commit/9a5203db265bf686df0cd5fb7053a398c9f437dd
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-03 (Wed, 03 Sep 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py

  Log Message:
  -----------
  Added DBLoopIteration upgrade path

db/versions/v1_0_4/translate/v1_0_3.py:
  Convert LoopExecs to LoopIterations and put them in a single LoopExec

Ticket: 817


  Commit: d2e038a9504dab3a7367fca59fcb3d1a411fbd37
      https://github.com/VisTrails/VisTrails/commit/d2e038a9504dab3a7367fca59fcb3d1a411fbd37
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-05 (Fri, 05 Sep 2014)

  Changed paths:
    M vistrails/packages/tabledata/read/read_json.py

  Log Message:
  -----------
  Fixes error messages in read_json.py


  Commit: d4dd5f740594e61ad3f0091e88ae3b1db8564622
      https://github.com/VisTrails/VisTrails/commit/d4dd5f740594e61ad3f0091e88ae3b1db8564622
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-05 (Fri, 05 Sep 2014)

  Changed paths:
    M examples/mta-yankees.vt
    M examples/mta.vt

  Log Message:
  -----------
  Updates data URLs in mta examples

Retrieved the stationlocations_dict.json from a cache file and uploaded
it to vgchead so that it doesn't break again (original was from Wall
Street Journal and is now 404).


  Commit: 6e6b2198002dce2350b59d56daa90b42d8a5eba9
      https://github.com/VisTrails/VisTrails/commit/6e6b2198002dce2350b59d56daa90b42d8a5eba9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-05 (Fri, 05 Sep 2014)

  Changed paths:
    M examples/mta-yankees.vt

  Log Message:
  -----------
  Adds Sandy parameter exploration to mta-yankees.vt


  Commit: 999fce0c802587825559b3e9aa5d778a889fadf9
      https://github.com/VisTrails/VisTrails/commit/999fce0c802587825559b3e9aa5d778a889fadf9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-08 (Mon, 08 Sep 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Mark invalid parameters in parameter view

gui/modules/constant_configuration.py:
  - StandardConstantWidget.contents:
    Mark invalid parameters with dashed yellow border and
    show conversion error in tooltip.

Ticket: 898


  Commit: 4e34c131c3912535fc6145bbbd6b00b324ee7fb9
      https://github.com/VisTrails/VisTrails/commit/4e34c131c3912535fc6145bbbd6b00b324ee7fb9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/gui/module_info.py
    M vistrails/gui/version_prop.py

  Log Message:
  -----------
  Show workflow info when no module is selected

Also renamed:
"Properties" -> "Workflow Info"
"Module Information" -> "Module Info"

gui/module_info.py:
  Set title to "Module Info"
 - update_module:
   Show workflow info when no module is selected, both are docked, and
   one of them is visible.

gui/version_prop.py:
  Set title to "Workflow Info"

fixes #15


  Commit: dafb01773de2d9ddc882bd4aa864e5aeb77a40ab
      https://github.com/VisTrails/VisTrails/commit/dafb01773de2d9ddc882bd4aa864e5aeb77a40ab
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/read_csv.py

  Log Message:
  -----------
  Fixes three (3!) NameErrors in tabledata


  Commit: 7e5ce4f2f66bf10267f841c3a707e50e6456043a
      https://github.com/VisTrails/VisTrails/commit/7e5ce4f2f66bf10267f841c3a707e50e6456043a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/packages/tabledata/operations.py

  Log Message:
  -----------
  Removes unused variable


  Commit: 78567b5ceb1be436ea644b5acd0bafa3d0d0b3a5
      https://github.com/VisTrails/VisTrails/commit/78567b5ceb1be436ea644b5acd0bafa3d0d0b3a5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Correctly handles allowDefault -> allow_default


  Commit: 71c2b1d5fcf2447b21b89f06b1c1bd2445fc63d8
      https://github.com/VisTrails/VisTrails/commit/71c2b1d5fcf2447b21b89f06b1c1bd2445fc63d8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/analogy/eigen.py

  Log Message:
  -----------
  Removes EigenPipelineSimilarity


  Commit: 7d04857f4dfd594ee355933ff74f639bb4b86417
      https://github.com/VisTrails/VisTrails/commit/7d04857f4dfd594ee355933ff74f639bb4b86417
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/api.py
    M vistrails/core/db/locator.py

  Log Message:
  -----------
  Removes untitled_locator()


  Commit: b21313554fbf15028e1c114f0209974be2ba2e59
      https://github.com/VisTrails/VisTrails/commit/b21313554fbf15028e1c114f0209974be2ba2e59
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py

  Log Message:
  -----------
  Removes CachedInterpreter#_executed


  Commit: 8956ac99ea9f7462d2844e78bbeaf0f843540212
      https://github.com/VisTrails/VisTrails/commit/8956ac99ea9f7462d2844e78bbeaf0f843540212
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/interpreter/job.py

  Log Message:
  -----------
  Removes BaseMonitor


  Commit: 08f4c79a485226d2dfbefd0e642b9425474c42f6
      https://github.com/VisTrails/VisTrails/commit/08f4c79a485226d2dfbefd0e642b9425474c42f6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/modules/config.py
    M vistrails/core/vistrail/module_function.py

  Log Message:
  -----------
  Removes some unused locals


  Commit: ef8f5b1dda5748c6c63740bf8aadd55fdfdd1508
      https://github.com/VisTrails/VisTrails/commit/ef8f5b1dda5748c6c63740bf8aadd55fdfdd1508
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-09 (Tue, 09 Sep 2014)

  Changed paths:
    M vistrails/core/modules/output_modules.py

  Log Message:
  -----------
  Removes OutputModeConfig#get_local_fields()


  Commit: 2590b8f03ddb0e8ed22dd5faebf2a732244c267f
      https://github.com/VisTrails/VisTrails/commit/2590b8f03ddb0e8ed22dd5faebf2a732244c267f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-10 (Wed, 10 Sep 2014)

  Log Message:
  -----------
  Merge commit '093508df037c0a6e3c7aebb88cb8e574e5fc637c'

Conflicts:
	vistrails/core/modules/vistrails_module.py
	vistrails/core/vistrail/pipeline.py


  Commit: 791ff3d536091a5fc10657aabb5fe39b473a5935
      https://github.com/VisTrails/VisTrails/commit/791ff3d536091a5fc10657aabb5fe39b473a5935
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-10 (Wed, 10 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako

  Log Message:
  -----------
  Merge branch 'automatic-loops-changes' into 'master'

Conflicts:
	vistrails/packages/matplotlib/bases.py


  Commit: 8cfea5cfca131a8ced045b6f2289fb69ef5843d8
      https://github.com/VisTrails/VisTrails/commit/8cfea5cfca131a8ced045b6f2289fb69ef5843d8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-10 (Wed, 10 Sep 2014)

  Changed paths:
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_info.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/version_prop.py

  Log Message:
  -----------
  Views should always check if controller has changed

Right now we do not have an explicit state to tell which
is the current view so we send controller_changed signals even
when it has not changed. All views need to ignore this signal if
the controller has not changed, but they did not.

This greatly increased time to switch views.

Fixed in:
gui/collection/vis_log.py
gui/module_configuration.py
gui/module_info.py
gui/paramexplore/param_view.py
gui/paramexplore/pe_inspector.py
gui/version_prop.py


  Commit: aa17d4a127eca107e53208cc42b194d0281b9500
      https://github.com/VisTrails/VisTrails/commit/aa17d4a127eca107e53208cc42b194d0281b9500
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-15 (Mon, 15 Sep 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/configuration.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Added back running vistrail in db from command line

This also adds back the "parameters" flag and removes temp_db code

core/configuration.py:
  New conf options parameters,host,port,db,user

Use conf and not temp_db in:
  core/application.py
  gui/application.py


  Commit: a347af519d4ba549be3accf1b69bea617788b5df
      https://github.com/VisTrails/VisTrails/commit/a347af519d4ba549be3accf1b69bea617788b5df
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-15 (Mon, 15 Sep 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py

  Log Message:
  -----------
  Fixed control_parameter typo in translating 1.0.4->1.0.3

db/versions/v1_0_3/translate/v1_0_4.py:
  Should have used "controlParameter"


  Commit: e02779083aeb933722fba01d770aca8151f558c7
      https://github.com/VisTrails/VisTrails/commit/e02779083aeb933722fba01d770aca8151f558c7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/analogy/eigen.py
    M vistrails/core/api.py
    M vistrails/core/db/locator.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/output_modules.py
    M vistrails/core/vistrail/module_function.py

  Log Message:
  -----------
  Merge branch 'remove-dead-code' into 'master'


  Commit: 5bcf9039930a278ee25aba332d384fe6e4ed4dc6
      https://github.com/VisTrails/VisTrails/commit/5bcf9039930a278ee25aba332d384fe6e4ed4dc6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M Vagrantfile
    M doc/usersguide/conf.py
    M examples/mta-yankees.vt
    M examples/mta.vt
    M scripts/create_release_wiki_table.py
    A scripts/dist/conda/README.md
    A scripts/dist/conda/vistrails/bld.bat
    A scripts/dist/conda/vistrails/build.sh
    A scripts/dist/conda/vistrails/meta.yaml
    M scripts/dist/mac/Input/README
    M scripts/dist/mac/setup.py
    M scripts/dist/source/make-vistrails-src-nightly.py
    M scripts/dist/source/make-vistrails-src-release.py
    M scripts/dist/windows/Input/releaseNotes.txt
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss
    M scripts/release_notes.py
    M setup.py
    M vistrails/api/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/configuration.py
    M vistrails/core/db/locator.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/output_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_info.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/version_prop.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_json.py

  Log Message:
  -----------
  Merge branch 'master' into 'pkg-as-setuptools-plugins'


  Commit: cbe6fa6697062a03f23082081261c737b569b3eb
      https://github.com/VisTrails/VisTrails/commit/cbe6fa6697062a03f23082081261c737b569b3eb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Fixes bug with nested packages


  Commit: 038396171dfb8aa628cf25f3849b120e96cc9016
      https://github.com/VisTrails/VisTrails/commit/038396171dfb8aa628cf25f3849b120e96cc9016
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Don't check package structure for plugins


  Commit: 43ce27c8c7b82856a83aff8a9efbc88689b1ed8e
      https://github.com/VisTrails/VisTrails/commit/43ce27c8c7b82856a83aff8a9efbc88689b1ed8e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M doc/usersguide/batch.rst
    M scripts/start_vistrails.sh
    M scripts/start_vistrails_xvfb.sh
    M vistrails/core/configuration.py
    M vistrails/gui/application_server.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Updated VisTrails Server for rewrite-startup

vistrails/core/configuration.py:
  Added server flags back. There are now no single-letter versions.
  Added descriptions for server and job sections.

scripts/start_vistrails.sh:
  Use new flags

scripts/start_vistrails_xvfb.sh:
  Use new flags

vistrails/gui/application_server.py:
  Use new flags and propagate argv

vistrails/vistrails_server.py:
  Use new flags and propagate argv

doc/usersguide/batch.rst:
  Updated flags and ../examples path
  The table is still out-of-date


  Commit: 64921712ce9484760fb4c0ceb0142810395dcb89
      https://github.com/VisTrails/VisTrails/commit/64921712ce9484760fb4c0ceb0142810395dcb89
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    A scripts/add_future_import.py

  Log Message:
  -----------
  Implements script/add_future_imports.py


  Commit: bc56a70bbd2a10740b7e62c2cd08a22eb5532ddd
      https://github.com/VisTrails/VisTrails/commit/bc56a70bbd2a10740b7e62c2cd08a22eb5532ddd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/data_structures/queue.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/param_explore.py
    M vistrails/core/system/windows.py
    M vistrails/gui/bundles/linux_debian_install.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py

  Log Message:
  -----------
  Turns / into // where appropriate


  Commit: 3996af20f1896414cae58f9dbe3c585533132f45
      https://github.com/VisTrails/VisTrails/commit/3996af20f1896414cae58f9dbe3c585533132f45
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/__init__.py
    M vistrails/core/analogy/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/bundles/__init__.py
    M vistrails/core/bundles/installbundle.py
    M vistrails/core/bundles/pyimport.py
    M vistrails/core/cache/__init__.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/cache/utils.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/common.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/__init__.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/data_structures/queue.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/data_structures/stack.py
    M vistrails/core/db/__init__.py
    M vistrails/core/db/action.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/inspector.py
    M vistrails/core/interpreter/__init__.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/default.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/interpreter/noncached.py
    M vistrails/core/keychain.py
    M vistrails/core/layout/__init__.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/log/__init__.py
    M vistrails/core/log/controller.py
    M vistrails/core/log/group_exec.py
    M vistrails/core/log/log.py
    M vistrails/core/log/loop_exec.py
    M vistrails/core/log/machine.py
    M vistrails/core/log/module_exec.py
    M vistrails/core/log/opm_graph.py
    M vistrails/core/log/prov_document.py
    M vistrails/core/log/workflow_exec.py
    M vistrails/core/mashup/__init__.py
    M vistrails/core/mashup/action.py
    M vistrails/core/mashup/action_annotation.py
    M vistrails/core/mashup/alias.py
    M vistrails/core/mashup/component.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/__init__.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_descriptor.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/output_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/param_explore.py
    M vistrails/core/paramexplore/__init__.py
    M vistrails/core/paramexplore/function.py
    M vistrails/core/paramexplore/param.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/publishing/__init__.py
    M vistrails/core/publishing/parse_latex.py
    M vistrails/core/query/__init__.py
    M vistrails/core/query/combined.py
    M vistrails/core/query/multiple.py
    M vistrails/core/query/version.py
    M vistrails/core/query/visual.py
    M vistrails/core/recent_vistrails.py
    M vistrails/core/repository/__init__.py
    M vistrails/core/repository/poster/__init__.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/requirements.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/mac_site.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/unix.py
    M vistrails/core/system/windows.py
    M vistrails/core/theme.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/color.py
    M vistrails/core/utils/enum.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/gcutils.py
    M vistrails/core/utils/timemethod.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/utils/uxml.py
    M vistrails/core/vistrail/__init__.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/action.py
    M vistrails/core/vistrail/action_annotation.py
    M vistrails/core/vistrail/annotation.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/location.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/core/vistrail/module_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/plugin_data.py
    M vistrails/core/vistrail/port.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/tag.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/core/vistrail/vistrailvariable.py
    M vistrails/db/__init__.py
    M vistrails/db/bin/__init__.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/generate.py
    M vistrails/db/bin/parser.py
    M vistrails/db/bin/sql_gen_objects.py
    M vistrails/db/bin/xml_gen_objects.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/__init__.py
    M vistrails/db/services/abstraction.py
    M vistrails/db/services/action.py
    M vistrails/db/services/action_chain.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/log.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/query.py
    M vistrails/db/services/registry.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/services/workflow.py
    M vistrails/db/tests/__init__.py
    M vistrails/db/tests/setup_db_tables.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/tests/xml_to_sql.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v0_3_0/__init__.py
    M vistrails/db/versions/v0_3_0/domain/__init__.py
    M vistrails/db/versions/v0_3_0/domain/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/xml/io.py
    M vistrails/db/versions/v0_3_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_3_1/__init__.py
    M vistrails/db/versions/v0_3_1/domain/__init__.py
    M vistrails/db/versions/v0_3_1/persistence/__init__.py
    M vistrails/db/versions/v0_3_1/translate/__init__.py
    M vistrails/db/versions/v0_3_1/translate/v0_3_0.py
    M vistrails/db/versions/v0_5_0/__init__.py
    M vistrails/db/versions/v0_5_0/domain/__init__.py
    M vistrails/db/versions/v0_5_0/domain/auto_gen.py
    M vistrails/db/versions/v0_5_0/domain/id_scope.py
    M vistrails/db/versions/v0_5_0/domain/vistrail.py
    M vistrails/db/versions/v0_5_0/domain/workflow.py
    M vistrails/db/versions/v0_5_0/persistence/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_5_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/xml/io.py
    M vistrails/db/versions/v0_5_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_5_0/translate/__init__.py
    M vistrails/db/versions/v0_5_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/__init__.py
    M vistrails/db/versions/v0_6_0/domain/__init__.py
    M vistrails/db/versions/v0_6_0/domain/auto_gen.py
    M vistrails/db/versions/v0_6_0/domain/id_scope.py
    M vistrails/db/versions/v0_6_0/domain/vistrail.py
    M vistrails/db/versions/v0_6_0/domain/workflow.py
    M vistrails/db/versions/v0_6_0/persistence/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_6_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/xml/io.py
    M vistrails/db/versions/v0_6_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_6_0/translate/__init__.py
    M vistrails/db/versions/v0_6_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/translate/v0_5_0.py
    M vistrails/db/versions/v0_7_0/__init__.py
    M vistrails/db/versions/v0_7_0/domain/__init__.py
    M vistrails/db/versions/v0_7_0/domain/abstraction.py
    M vistrails/db/versions/v0_7_0/domain/auto_gen.py
    M vistrails/db/versions/v0_7_0/domain/id_scope.py
    M vistrails/db/versions/v0_7_0/domain/vistrail.py
    M vistrails/db/versions/v0_7_0/domain/workflow.py
    M vistrails/db/versions/v0_7_0/persistence/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_7_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/xml/io.py
    M vistrails/db/versions/v0_7_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_7_0/translate/__init__.py
    M vistrails/db/versions/v0_7_0/translate/v0_6_0.py
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    M vistrails/db/versions/v0_8_0/domain/__init__.py
    M vistrails/db/versions/v0_8_0/domain/abstraction.py
    M vistrails/db/versions/v0_8_0/domain/auto_gen.py
    M vistrails/db/versions/v0_8_0/domain/id_scope.py
    M vistrails/db/versions/v0_8_0/domain/vistrail.py
    M vistrails/db/versions/v0_8_0/domain/workflow.py
    M vistrails/db/versions/v0_8_0/persistence/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_8_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_8_0/translate/__init__.py
    M vistrails/db/versions/v0_8_0/translate/v0_7_0.py
    M vistrails/db/versions/v0_8_1/__init__.py
    M vistrails/db/versions/v0_8_1/domain/__init__.py
    M vistrails/db/versions/v0_8_1/persistence/__init__.py
    M vistrails/db/versions/v0_8_1/translate/__init__.py
    M vistrails/db/versions/v0_8_1/translate/v0_8_0.py
    M vistrails/db/versions/v0_9_0/__init__.py
    M vistrails/db/versions/v0_9_0/domain/__init__.py
    M vistrails/db/versions/v0_9_0/domain/abstraction.py
    M vistrails/db/versions/v0_9_0/domain/auto_gen.py
    M vistrails/db/versions/v0_9_0/domain/id_scope.py
    M vistrails/db/versions/v0_9_0/domain/log.py
    M vistrails/db/versions/v0_9_0/domain/vistrail.py
    M vistrails/db/versions/v0_9_0/domain/workflow.py
    M vistrails/db/versions/v0_9_0/persistence/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/sql/sql_dao.py
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    M vistrails/db/versions/v0_9_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_0/translate/__init__.py
    M vistrails/db/versions/v0_9_0/translate/v0_8_1.py
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    M vistrails/db/versions/v0_9_1/domain/__init__.py
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    M vistrails/db/versions/v0_9_1/domain/auto_gen.py
    M vistrails/db/versions/v0_9_1/domain/id_scope.py
    M vistrails/db/versions/v0_9_1/domain/log.py
    M vistrails/db/versions/v0_9_1/domain/vistrail.py
    M vistrails/db/versions/v0_9_1/domain/workflow.py
    M vistrails/db/versions/v0_9_1/persistence/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_1/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_1/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_1/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_1/translate/__init__.py
    M vistrails/db/versions/v0_9_1/translate/v0_9_0.py
    M vistrails/db/versions/v0_9_2/__init__.py
    M vistrails/db/versions/v0_9_2/domain/__init__.py
    M vistrails/db/versions/v0_9_2/persistence/__init__.py
    M vistrails/db/versions/v0_9_2/translate/__init__.py
    M vistrails/db/versions/v0_9_2/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/__init__.py
    M vistrails/db/versions/v0_9_3/domain/__init__.py
    M vistrails/db/versions/v0_9_3/domain/abstraction.py
    M vistrails/db/versions/v0_9_3/domain/auto_gen.py
    M vistrails/db/versions/v0_9_3/domain/id_scope.py
    M vistrails/db/versions/v0_9_3/domain/log.py
    M vistrails/db/versions/v0_9_3/domain/vistrail.py
    M vistrails/db/versions/v0_9_3/domain/workflow.py
    M vistrails/db/versions/v0_9_3/persistence/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_3/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_3/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_3/translate/__init__.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_1.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_2.py
    M vistrails/db/versions/v0_9_3/translate/v0_9_4.py
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    M vistrails/db/versions/v0_9_4/domain/__init__.py
    M vistrails/db/versions/v0_9_4/domain/auto_gen.py
    M vistrails/db/versions/v0_9_4/domain/id_scope.py
    M vistrails/db/versions/v0_9_4/domain/log.py
    M vistrails/db/versions/v0_9_4/domain/vistrail.py
    M vistrails/db/versions/v0_9_4/domain/workflow.py
    M vistrails/db/versions/v0_9_4/persistence/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/sql/sql_dao.py
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    M vistrails/db/versions/v0_9_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_4/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_4/translate/__init__.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_3.py
    M vistrails/db/versions/v0_9_4/translate/v0_9_5.py
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    M vistrails/db/versions/v0_9_5/domain/__init__.py
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    M vistrails/db/versions/v0_9_5/domain/registry.py
    M vistrails/db/versions/v0_9_5/domain/vistrail.py
    M vistrails/db/versions/v0_9_5/domain/workflow.py
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    M vistrails/db/versions/v0_9_5/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_5/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_5/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_5/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_5/translate/__init__.py
    M vistrails/db/versions/v0_9_5/translate/v0_9_4.py
    M vistrails/db/versions/v0_9_5/translate/v1_0_0.py
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    M vistrails/db/versions/v1_0_0/domain/__init__.py
    M vistrails/db/versions/v1_0_0/domain/auto_gen.py
    M vistrails/db/versions/v1_0_0/domain/id_scope.py
    M vistrails/db/versions/v1_0_0/domain/log.py
    M vistrails/db/versions/v1_0_0/domain/registry.py
    M vistrails/db/versions/v1_0_0/domain/vistrail.py
    M vistrails/db/versions/v1_0_0/domain/workflow.py
    M vistrails/db/versions/v1_0_0/persistence/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/__init__.py
    M vistrails/db/versions/v1_0_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_0/persistence/sql/sql_dao.py
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    M vistrails/db/versions/v1_0_0/persistence/xml/auto_gen.py
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    M vistrails/db/versions/v1_0_0/translate/v0_9_5.py
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    M vistrails/db/versions/v1_0_1/domain/vistrail.py
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    M vistrails/db/versions/v1_0_3/domain/registry.py
    M vistrails/db/versions/v1_0_3/domain/vistrail.py
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    M vistrails/packages/controlflow/conditional.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/controlflow/order.py
    M vistrails/packages/controlflow/products.py
    M vistrails/packages/controlflow/utils.py
    M vistrails/packages/dialogs/__init__.py
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/gmaps/__init__.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/gmaps/utils.py
    M vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/__init__.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mixins.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/matplotlib/widgets.py
    M vistrails/packages/parallelflow/__init__.py
    M vistrails/packages/parallelflow/api.py
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/parallelflow/init.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/__init__.py
    M vistrails/packages/persistence/compute_hash.py
    M vistrails/packages/persistence/db_utils.py
    M vistrails/packages/persistence/find_files.py
    M vistrails/packages/persistence/find_workflows.py
    M vistrails/packages/persistence/identifiers.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pipelineEdit/__init__.py
    M vistrails/packages/pipelineEdit/init.py
    M vistrails/packages/pythonCalc/__init__.py
    M vistrails/packages/pythonCalc/init.py
    M vistrails/packages/pythonCalcQt/__init__.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/__init__.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/__init__.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/rpy/widgets.py
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/cell_rc.py
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/__init__.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/__init__.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/__init__.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/__init__.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    M vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/__init__.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/widgets.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/tabledata/write/write_csv.py
    M vistrails/packages/tabledata/write/write_excel.py
    M vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/class_tree.py
    M vistrails/packages/vtk/fix_classes.py
    M vistrails/packages/vtk/hasher.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/offscreen.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/vtk/wrapper.py
    M vistrails/packages/vtlcreator/__init__.py
    M vistrails/packages/vtlcreator/init.py
    M vistrails/packages/webServices/__init__.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Adds division from __future__

scripts/add_future_import.py \
    vistrails/core vistrails/gui vistrails/packages vistrails/db \
    -e division


  Commit: 96b730412327a2b9bf4be226bcae7a454197f9e1
      https://github.com/VisTrails/VisTrails/commit/96b730412327a2b9bf4be226bcae7a454197f9e1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes NameError in basic_modules.py


  Commit: 2bf369e06aee26c4d3048f0618c624df3b55e91e
      https://github.com/VisTrails/VisTrails/commit/2bf369e06aee26c4d3048f0618c624df3b55e91e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Removes unused printVersion()


  Commit: a9d222d7b80f319b94705835bef8a32367a69654
      https://github.com/VisTrails/VisTrails/commit/a9d222d7b80f319b94705835bef8a32367a69654
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Adds --version


  Commit: d016b33c6b7dd4894ab6ec3b1e1b7e6222fe4d8c
      https://github.com/VisTrails/VisTrails/commit/d016b33c6b7dd4894ab6ec3b1e1b7e6222fe4d8c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-16 (Tue, 16 Sep 2014)

  Changed paths:
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Fixes vistrails_revision()


  Commit: 1257d391fb7e385207e4e0fced462a79c0192927
      https://github.com/VisTrails/VisTrails/commit/1257d391fb7e385207e4e0fced462a79c0192927
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-17 (Wed, 17 Sep 2014)

  Changed paths:
    M vistrails/core/debug.py
    M vistrails/run.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'logger-propagation' into 'master'


  Commit: 2a78f37cd19b112ee7c1f4df23403f081c93cf6d
      https://github.com/VisTrails/VisTrails/commit/2a78f37cd19b112ee7c1f4df23403f081c93cf6d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Removes __import__ madness


  Commit: d54fde8c9f9d70d925a5cdb961a7da44971c4bf4
      https://github.com/VisTrails/VisTrails/commit/d54fde8c9f9d70d925a5cdb961a7da44971c4bf4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Fixes issues in mashup_app.py


  Commit: 6734c8512f9f31396803ed8a5853f832a60ae99f
      https://github.com/VisTrails/VisTrails/commit/6734c8512f9f31396803ed8a5853f832a60ae99f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Issue in webServices/init.py


  Commit: 9eac6d488b5702d6197c4f707bb612ca1680ab91
      https://github.com/VisTrails/VisTrails/commit/9eac6d488b5702d6197c4f707bb612ca1680ab91
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py

  Log Message:
  -----------
  Removes get_subpipeline(), "unfinished" since 2007


  Commit: 2de767f20c91f3803c6020bcde0917e978afef94
      https://github.com/VisTrails/VisTrails/commit/2de767f20c91f3803c6020bcde0917e978afef94
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/vistrail/controller.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Moves abstraction creation to GUI controller


  Commit: d6779b8599ac50fbac1a45fbab366f7ca4bf16d4
      https://github.com/VisTrails/VisTrails/commit/d6779b8599ac50fbac1a45fbab366f7ca4bf16d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/analogy/__init__.py
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/configuration.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagerepository.py
    M vistrails/core/query/__init__.py
    M vistrails/core/requirements.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/debugger.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/query_view.py
    M vistrails/gui/shell.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Fixes lots of issues found by my IDE


  Commit: ad18c1e260f612e7691125bc1cd958e63f1bfc9c
      https://github.com/VisTrails/VisTrails/commit/ad18c1e260f612e7691125bc1cd958e63f1bfc9c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/modules/abstraction.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/shell.py
    M vistrails/packages/JobSubmission/init.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py

  Log Message:
  -----------
  Marks problems


  Commit: 64b40dd73c0765450dc9bcbfdd54b849895582a5
      https://github.com/VisTrails/VisTrails/commit/64b40dd73c0765450dc9bcbfdd54b849895582a5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py

  Log Message:
  -----------
  Removes broken methods that I confirmed are unused


  Commit: e361b3481b2a9d648474389d417d63780f1ae6b3
      https://github.com/VisTrails/VisTrails/commit/e361b3481b2a9d648474389d417d63780f1ae6b3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Fixes ModuleRegistry raising MissingPackageVersion

If no version exists, get_descriptor_by_name() is supposed to raise
MissingPackage, apparently.


  Commit: f38d237d4e21dbfb1ac32580081941c530710c0b
      https://github.com/VisTrails/VisTrails/commit/f38d237d4e21dbfb1ac32580081941c530710c0b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-19 (Fri, 19 Sep 2014)

  Changed paths:
    M vistrails/core/debug.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Renames 'developperDebugger' -> 'developerDebugger'


  Commit: 93f1e5d375ee1e870f9bad699a22c9aafb954090
      https://github.com/VisTrails/VisTrails/commit/93f1e5d375ee1e870f9bad699a22c9aafb954090
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-22 (Mon, 22 Sep 2014)

  Changed paths:
    M doc/usersguide/batch.rst
    M doc/usersguide/conf.py

  Log Message:
  -----------
  Generate command documentation using sphinx-argparse

doc/usersguide/batch.rst:
Replaced html and latex version of command list with argparse command

doc/usersguide/conf.py:
Added "sphinxarg.ext" dependency


  Commit: 9a14ab39953b1ac32f1521bcae01ddbcc5d7f635
      https://github.com/VisTrails/VisTrails/commit/9a14ab39953b1ac32f1521bcae01ddbcc5d7f635
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M requirements.txt

  Log Message:
  -----------
  Adds sphinx-argparse to requirements.txt

This is now needed to build the documentation.


  Commit: 406650f94346bdae4f178d297722cf90e7b7dfc3
      https://github.com/VisTrails/VisTrails/commit/406650f94346bdae4f178d297722cf90e7b7dfc3
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Added back logging.handlers

core/debug.py:
  It was removed by 30c7410b but is needed on non-windows.
  Buildbot only issued a warning.


  Commit: ff27b470cbf1578fce16c9eb109d3fbaa50e036b
      https://github.com/VisTrails/VisTrails/commit/ff27b470cbf1578fce16c9eb109d3fbaa50e036b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Added parameterExploration config option back


  Commit: 7d791514762b6991ad6577ada9089546277ebc93
      https://github.com/VisTrails/VisTrails/commit/7d791514762b6991ad6577ada9089546277ebc93
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Fixes formatting of critical message in core.debug


  Commit: e6452be70fc13b8f96b704ade3fde4eadfca36ca
      https://github.com/VisTrails/VisTrails/commit/e6452be70fc13b8f96b704ade3fde4eadfca36ca
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Fixes use of debug.critical()


  Commit: cf7afc4fc41cf58b4b682308ea61a9f0d83834f6
      https://github.com/VisTrails/VisTrails/commit/cf7afc4fc41cf58b4b682308ea61a9f0d83834f6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M scripts/delete_from_db.py
    M scripts/diff_package.py
    M scripts/extract.py
    M scripts/generate_pkg_doc.py
    M scripts/merge_vistrails.py
    M scripts/sql_delete.py
    M scripts/sql_to_xml.py
    M scripts/update_db.py
    M scripts/watch_vistrail_servers.py

  Log Message:
  -----------
  Adds missing +x on scripts


  Commit: 8dd1a1d231d109b8c6f86ea7df043d35eeeede88
      https://github.com/VisTrails/VisTrails/commit/8dd1a1d231d109b8c6f86ea7df043d35eeeede88
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixes passwd being marked as uninitialized

in gui/application.py:
  The logic should always initialize it but moving it should
  remove the warning.


  Commit: e222ab7c0ebe54275212f970d3f99187a8a2b76f
      https://github.com/VisTrails/VisTrails/commit/e222ab7c0ebe54275212f970d3f99187a8a2b76f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Fixes typo: parameterExploration is a flag


  Commit: 8cdd44c8a226522168acea61058429ac393931b2
      https://github.com/VisTrails/VisTrails/commit/8cdd44c8a226522168acea61058429ac393931b2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Removed command_line import from application_server.py

command_line.py does not exist anymore. I missed this because the .pyc still
existed and application_server.py is not tested by the test suite.


  Commit: db7abd40ba90411c704adea547be9ee957fe7f7e
      https://github.com/VisTrails/VisTrails/commit/db7abd40ba90411c704adea547be9ee957fe7f7e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Adds unexpected_exception() for core notifications


  Commit: 7fad01699503e8068fd81e2d877d24031a876560
      https://github.com/VisTrails/VisTrails/commit/7fad01699503e8068fd81e2d877d24031a876560
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/db/services/locator.py

  Log Message:
  -----------
  Fixes DBLocator#parse() broken by cccf158c

"Details to be added later".

I'm unsure whether these "parse" methods are actually used.


  Commit: a65aedca026f91206e7617df2a3c2482b766e784
      https://github.com/VisTrails/VisTrails/commit/a65aedca026f91206e7617df2a3c2482b766e784
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-23 (Tue, 23 Sep 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Pass on application_server.py


  Commit: 2ab3a777623497be3d078c4c466653fe6668a43a
      https://github.com/VisTrails/VisTrails/commit/2ab3a777623497be3d078c4c466653fe6668a43a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-24 (Wed, 24 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py

  Log Message:
  -----------
  Fixes shell.py

Removes old dead code that was left here for unknown reasons.


  Commit: f0d5dcf57bddee330771af86029f3059383f8993
      https://github.com/VisTrails/VisTrails/commit/f0d5dcf57bddee330771af86029f3059383f8993
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-24 (Wed, 24 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Adds py_import to shell.py


  Commit: f6e12cb3092fde3b26cd562560271172beafa2fe
      https://github.com/VisTrails/VisTrails/commit/f6e12cb3092fde3b26cd562560271172beafa2fe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Fixes capture_stdout()


  Commit: cb21717976d8f9d26de66d09510b9c04d2ae077f
      https://github.com/VisTrails/VisTrails/commit/cb21717976d8f9d26de66d09510b9c04d2ae077f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/tests/utils.py

  Log Message:
  -----------
  Adds capture_stderr()


  Commit: ef5e426e6e71bb2859b58d4a13c08f00e88e21a0
      https://github.com/VisTrails/VisTrails/commit/ef5e426e6e71bb2859b58d4a13c08f00e88e21a0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Silences core.configuration tests


  Commit: 272199523acde4fc3160d81bf486030e6b04016b
      https://github.com/VisTrails/VisTrails/commit/272199523acde4fc3160d81bf486030e6b04016b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Splits ModuleRegistry#auto_add_ports()

This takes the decoding logic, decode_input_port() and
decode_output_port(), out of auto_add_ports().


  Commit: ecb89f0c1ad1a3fa4a8aa83d6388edfc222aa030
      https://github.com/VisTrails/VisTrails/commit/ecb89f0c1ad1a3fa4a8aa83d6388edfc222aa030
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Adds Constant#__metaclass__ to add 'value' i/oport


  Commit: addff868900b58f050613dd67e02f483c43e5f0e
      https://github.com/VisTrails/VisTrails/commit/addff868900b58f050613dd67e02f483c43e5f0e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/packages/analytics/init.py

  Log Message:
  -----------
  Removes unused imports from analytics package


  Commit: a6409c7c58dc60016ae05fbdc7c8eeb4ad5c9bb8
      https://github.com/VisTrails/VisTrails/commit/a6409c7c58dc60016ae05fbdc7c8eeb4ad5c9bb8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/packages/rpy/init.py

  Log Message:
  -----------
  Removes unused imports from rpy package


  Commit: e060a37e024a353956e6006650e61b98527612d4
      https://github.com/VisTrails/VisTrails/commit/e060a37e024a353956e6006650e61b98527612d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/packages/webServices/enumeration_widget.py

  Log Message:
  -----------
  Removes new_constant() function from webServices


  Commit: f7525df9122d55236c7c8e9ee7dde47bc1a30ace
      https://github.com/VisTrails/VisTrails/commit/f7525df9122d55236c7c8e9ee7dde47bc1a30ace
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removes explicit inheritance in new_constant()


  Commit: 33292c787ff0be3b85428164c5700b44901712ff
      https://github.com/VisTrails/VisTrails/commit/33292c787ff0be3b85428164c5700b44901712ff
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Defines constant classes without new_constant()


  Commit: 402c6d2d34c52b0ee7844c14701a8c9362e20d7b
      https://github.com/VisTrails/VisTrails/commit/402c6d2d34c52b0ee7844c14701a8c9362e20d7b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Asserts that String#translate_to_python() gets str


  Commit: f6f93327e23bf5cc351518d96000afd8d2cfbe69
      https://github.com/VisTrails/VisTrails/commit/f6f93327e23bf5cc351518d96000afd8d2cfbe69
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Moves query_compute methods in classes


  Commit: 23250710c29cf1c4c04990f758c7de722c8186cc
      https://github.com/VisTrails/VisTrails/commit/23250710c29cf1c4c04990f758c7de722c8186cc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-25 (Thu, 25 Sep 2014)

  Changed paths:
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  TransferFunctionConstant without new_constant()


  Commit: 5ee3e5637f10b6a7abf5c27169c7bf42b2138e2f
      https://github.com/VisTrails/VisTrails/commit/5ee3e5637f10b6a7abf5c27169c7bf42b2138e2f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-26 (Fri, 26 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py

  Log Message:
  -----------
  Removes mentions of __std*__


  Commit: 48d7c3607145a2978af22999c33e8f12b1b03f3b
      https://github.com/VisTrails/VisTrails/commit/48d7c3607145a2978af22999c33e8f12b1b03f3b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-26 (Fri, 26 Sep 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Makes stdout/stderr unbuffered for the test suite


  Commit: 3f0281632be6f147fc90cb01dc6a8393debee64c
      https://github.com/VisTrails/VisTrails/commit/3f0281632be6f147fc90cb01dc6a8393debee64c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/modules/abstraction.py

  Log Message:
  -----------
  Fix abstraction vistrail reference

Moved out of try block because we shouldn't run into MissingPackage
when reading a vistrail.


  Commit: c46ef1fb90ddc672a0576de6db757422398c518c
      https://github.com/VisTrails/VisTrails/commit/c46ef1fb90ddc672a0576de6db757422398c518c
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py

  Log Message:
  -----------
  Fix change_connection by conn -> old_conn

Not sure this code path is ever hit currently since we have factored
everything to add/delete, but keeping in just in case


  Commit: 9fc2cb03a1342f29f6f8f870c083819015a56ac2
      https://github.com/VisTrails/VisTrails/commit/9fc2cb03a1342f29f6f8f870c083819015a56ac2
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Get missing options in outupt_config code

OutputModeConfigurationWidget.set_combo_value needs to get options
from the field before using them.


  Commit: 5b3752c84f7d67dd60f75ed249512ffe9df0bfbc
      https://github.com/VisTrails/VisTrails/commit/5b3752c84f7d67dd60f75ed249512ffe9df0bfbc
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/plots.py

  Log Message:
  -----------
  Fix missing output type for brokenbarh plot

We need output_type to be specified to be able to set
properties. Probably should encode this as logic in the generator code
in the future.

Also, regenerate the plot python code and the diff


  Commit: 554267290d0afd0678b3c12508d74b23647e509b
      https://github.com/VisTrails/VisTrails/commit/554267290d0afd0678b3c12508d74b23647e509b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Sorts configuration documentations


  Commit: bdb87a3fa7c67f6e214ab5a99c22e248c4edbd98
      https://github.com/VisTrails/VisTrails/commit/bdb87a3fa7c67f6e214ab5a99c22e248c4edbd98
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Adds missing simple documentations


  Commit: 253fa351167706cc506fcd75ae396cf2b204dc22
      https://github.com/VisTrails/VisTrails/commit/253fa351167706cc506fcd75ae396cf2b204dc22
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Adds to the complete documentations


  Commit: e52700eaa5252aa4c07f3ff4dd5db26c8f1e638b
      https://github.com/VisTrails/VisTrails/commit/e52700eaa5252aa4c07f3ff4dd5db26c8f1e638b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Merge branch 'fix-config-doc' into 'master'


  Commit: d1e519651b8438e8f8698fbf03cc5452390b8d48
      https://github.com/VisTrails/VisTrails/commit/d1e519651b8438e8f8698fbf03cc5452390b8d48
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py

  Log Message:
  -----------
  Comment out ImageOutput registration and add fixme

Issue is that we really want an Image type that might permit in-memory
images to be used here as well so comment this out for now.


  Commit: 6e1d9635358130575fc71d4c664fd58e6ba334f4
      https://github.com/VisTrails/VisTrails/commit/6e1d9635358130575fc71d4c664fd58e6ba334f4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Don't alter path in runtestsuite.py if not needed


  Commit: b50ecfe6739dc57af3e1ff4695597ed83ec38546
      https://github.com/VisTrails/VisTrails/commit/b50ecfe6739dc57af3e1ff4695597ed83ec38546
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/modules/abstraction.py
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Marks new unset variable


  Commit: ba5ee0098eb2785bbbf92ea3eca6e184115b6137
      https://github.com/VisTrails/VisTrails/commit/ba5ee0098eb2785bbbf92ea3eca6e184115b6137
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Fix the output_config fix

field is not usually passed to set_*_value calls, and is needed for
set_combo_value so we just pass it through.


  Commit: c31cc4a8d0a2fa45b6c978e4a408db3e71d13406
      https://github.com/VisTrails/VisTrails/commit/c31cc4a8d0a2fa45b6c978e4a408db3e71d13406
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Remove fixme comment


  Commit: 6a2c09cdd5ae942417d8e2b0fecdfa92d187a2f0
      https://github.com/VisTrails/VisTrails/commit/6a2c09cdd5ae942417d8e2b0fecdfa92d187a2f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Removes unused local


  Commit: f426a5c09e5bc3714deae3e4c3521521ffbab027
      https://github.com/VisTrails/VisTrails/commit/f426a5c09e5bc3714deae3e4c3521521ffbab027
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/analogy/__init__.py
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/configuration.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagerepository.py
    M vistrails/core/query/__init__.py
    M vistrails/core/requirements.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/locator.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/debugger.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/query_view.py
    M vistrails/gui/shell.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/JobSubmission/init.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Merge branch 'fix-code-issues' into 'master'

Conflicts:
	vistrails/gui/shell.py


  Commit: 53986f9f43f9a7edfcf804789ecb4a531633b28b
      https://github.com/VisTrails/VisTrails/commit/53986f9f43f9a7edfcf804789ecb4a531633b28b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  get_shell_dialog() now returns None on missing dep


  Commit: f12fc853a8219da15d12666ea8f397f65065cc1b
      https://github.com/VisTrails/VisTrails/commit/f12fc853a8219da15d12666ea8f397f65065cc1b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py

  Log Message:
  -----------
  Don't rebuild IPythonDialog on each call


  Commit: fab8eae9a2a466830b68f840e89b8ec4e8b62fbb
      https://github.com/VisTrails/VisTrails/commit/fab8eae9a2a466830b68f840e89b8ec4e8b62fbb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/shell.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge branch 'optional-shell' into 'master'

Feature: Allows VisTrails to work without its console window


  Commit: 00d915256066a1b3cedfd008775883a81b244e5d
      https://github.com/VisTrails/VisTrails/commit/00d915256066a1b3cedfd008775883a81b244e5d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/packagemanager.py
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Correctly handle MissingRequirement from packages

Bug introduced by fdc56463


  Commit: e74f1087b0c746fd45f4abebcb95ac6ff6d41c4b
      https://github.com/VisTrails/VisTrails/commit/e74f1087b0c746fd45f4abebcb95ac6ff6d41c4b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removes explicit query_compute() inheritance


  Commit: b59df7984bd4ec8df9623fb4ef4b2d9e8e383110
      https://github.com/VisTrails/VisTrails/commit/b59df7984bd4ec8df9623fb4ef4b2d9e8e383110
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Fixes warnings in application_server.py


  Commit: c744091d8ef5cae61a0d6909e4d6341e7c35af65
      https://github.com/VisTrails/VisTrails/commit/c744091d8ef5cae61a0d6909e4d6341e7c35af65
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes debug.warning() usage


  Commit: ff41df555bcee857f0d06a4b57548d49b23ba3c7
      https://github.com/VisTrails/VisTrails/commit/ff41df555bcee857f0d06a4b57548d49b23ba3c7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-29 (Mon, 29 Sep 2014)

  Changed paths:
    M vistrails/gui/application_server.py

  Log Message:
  -----------
  Merge branch 'fix-code-issues' into 'master'


  Commit: b799f50078abf1ebd7e0abea4d217a5bac545dec
      https://github.com/VisTrails/VisTrails/commit/b799f50078abf1ebd7e0abea4d217a5bac545dec
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Don't leave None palette classes in palette_layout


  Commit: 45361914b49ddf7ec3b64e985885d50db1dced32
      https://github.com/VisTrails/VisTrails/commit/45361914b49ddf7ec3b64e985885d50db1dced32
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge branch 'optional-shell' into 'master'


  Commit: 9a108784e93f3775253453363f73239ebbd21e9e
      https://github.com/VisTrails/VisTrails/commit/9a108784e93f3775253453363f73239ebbd21e9e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Don't reflow version message


  Commit: 9c9d04ab1c6f7aa516b9af52dee29eeed42779ac
      https://github.com/VisTrails/VisTrails/commit/9c9d04ab1c6f7aa516b9af52dee29eeed42779ac
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/core/collection/__init__.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Fixes bad indentation


  Commit: 62fefa1029a70d7858e2a7000b271f40104b176b
      https://github.com/VisTrails/VisTrails/commit/62fefa1029a70d7858e2a7000b271f40104b176b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/core/interpreter/noncached.py

  Log Message:
  -----------
  Removes unused imports from interpreter.noncached


  Commit: 843c4294c7f19bb4f59991ae6472de4dc75ef90e
      https://github.com/VisTrails/VisTrails/commit/843c4294c7f19bb4f59991ae6472de4dc75ef90e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/configuration.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/packagemanager.py
    M vistrails/gui/application_server.py
    M vistrails/gui/qt.py
    M vistrails/gui/theme.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Removes useless 'global' statements


  Commit: 756f8e14204ab19ba0f87884ddbdcba91848bac9
      https://github.com/VisTrails/VisTrails/commit/756f8e14204ab19ba0f87884ddbdcba91848bac9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-09-30 (Tue, 30 Sep 2014)

  Changed paths:
    M vistrails/core/collection/__init__.py
    M vistrails/core/utils/color.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Fixes unassigned expressions


  Commit: 0171f96a6df07e6afd4ce2ee4d8ac6ceccb38454
      https://github.com/VisTrails/VisTrails/commit/0171f96a6df07e6afd4ce2ee4d8ac6ceccb38454
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Show function values as tooltip when holding Ctrl

gui/pipeline_view.py:
 - QGraphicsModuleItem.__init__:
   call setAcceptHoverEvents
   New attribute function_overview
 - QGraphicsModuleItem.updateFunctionPorts:
   Create a html tooltip showing function values
 - QGraphicsModuleItem.hoverEnterEvent: *new
   Show function_overview as tooltip
   Note that this overwrites errorTrace tooltips


  Commit: 5e83501385740f40e843947733effcb34b98eec8
      https://github.com/VisTrails/VisTrails/commit/5e83501385740f40e843947733effcb34b98eec8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Replaced functions tooltip with QGraphicsText

Using QGraphicsText is more consistent and faster to hover
We may also want an option to show functions for all modules simultaneously
e.g. to ge a full provenance pdf

gui/pipeline_view.py


  Commit: 4113f7a8aee9ec8eac85d9c454b006869d22c207
      https://github.com/VisTrails/VisTrails/commit/4113f7a8aee9ec8eac85d9c454b006869d22c207
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  Edit constant values on module in pipeline

Added ability to use the edit widget for constant modules directly
on the module in the pipeline view.

TODO
* Improve layout
* Create graphicsitem versions of constant edit widgets
* Improve wrapping of graphicsitem widgets
* Allow showing edit widgets on select parameters on non-constant modules
* Fix dot error on uninitialized transferfunction

gui/pipeline_view.py:
 -  setupModule: Add edit widget on module if it is a constant module.
  GraphicsModule now handle its own key presses and focus.
  vtk transferfunction is added as an GraphicsWidget. Others are added using
  QGraphicsProxy, and may look pixelated.

packages/vtk/tf_widget.py:
  Moved logic from scene to graphicswidget so that it can
  be added the pipelinescene directly.


  Commit: c48a9c37477e0a9673dae140772b5cfb1a3dc55d
      https://github.com/VisTrails/VisTrails/commit/c48a9c37477e0a9673dae140772b5cfb1a3dc55d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/module_info.py
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Added buttons to toggle visibility of type and port visibility icon

gui/module_info.py:
  Added portVisibility and typeVisibility buttons
gui/ports_pane.py:
  Use portVisibility and typeVisibility options


  Commit: 22d1703d0356ee2040cffaf68ede494c04d975f0
      https://github.com/VisTrails/VisTrails/commit/22d1703d0356ee2040cffaf68ede494c04d975f0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Removed leftover space when hiding parameter type

gui/ports_pane.py


  Commit: fb81f43696bc2674110935808d2f891c80ae0aa2
      https://github.com/VisTrails/VisTrails/commit/fb81f43696bc2674110935808d2f891c80ae0aa2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/module.py
    M vistrails/gui/module_info.py
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Added non-functional temporary "edits visible" button to module-info tab


  Commit: 8866be7476b7a164a7d9a48fee17b4d54f67fbe1
      https://github.com/VisTrails/VisTrails/commit/8866be7476b7a164a7d9a48fee17b4d54f67fbe1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  Show selected function widgets on module

TODO:

* Visibility mode is only temporary
* Add labels
* Improve layout
* Add native GraphicsItem widgets

gui/modules/constant_configuration.py:
- ConstantWidgetMixin:
  Changed to use new-style signals, but need to add signal to
  classes inheriting QWidget

gui/pipeline_view.py:
  Added widgets for showing selected functions

gui/ports_pane.py:
  New 'E' icon for toggling visibility on module

Updated contentsChanged signal:
  packages/vtk/tf_widget.py
  gui/mashups/mashups_widgets.py


  Commit: 3a777458760e48526104d736a2524fd0a4d7d16c
      https://github.com/VisTrails/VisTrails/commit/3a777458760e48526104d736a2524fd0a4d7d16c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/module.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Store shown widgets in annotation

* Also disabled showing empty functions

core/vistrail/module.py:
  New property editable_input_ports that returns contents of
  INLINE_WIDGET_ANNOTATION as a set

gui/pipeline_view.py:
  Fixed missing portspec in dummy functions

gui/ports_pane.py:
  Do not show functions with length 0


  Commit: 992a337cc924023da3cd58edccf3b11c166b54c5
      https://github.com/VisTrails/VisTrails/commit/992a337cc924023da3cd58edccf3b11c166b54c5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/theme.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/webServices/enumeration_widget.py

  Log Message:
  -----------
  Improved edit widget layout

gui/pipeline_view.py:
 - computeBoundingRect:
   Simplified the way rects are combined
   The default layout should still be the same

core/theme.py:
  New attribute MODULE_EDIT_MARGIN

Fixed issue with contentsChanged in ConstantWidgetMixin subclasses,
the type was wrong, (object, str) -> (tuple):
  gui/modules/constant_configuration.py
  gui/mashups/mashups_widgets.py
  packages/vtk/tf_widget.py

Added missing contentsChanged attributes:
  packages/persistence/widgets.py
  packages/webServices/enumeration_widget.py


  Commit: 0a5a38498c1721da5e600cd7f8f255985c842840
      https://github.com/VisTrails/VisTrails/commit/0a5a38498c1721da5e600cd7f8f255985c842840
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/theme.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Added function name to module edit widgets

gui/pipeline_view.py:
 - QGraphicsFunctionWidget:
   Added function name
 - QGraphicsFunctionWidget:
   Adjusted bottom margin

core/theme.py:
  Adjusted MODULE_EDIT_MARGIN bottom

gui/theme.py:
  Added MODULE_EDIT_FONT + _METRIC


  Commit: 4ea2b02e1b11da2f4e8b5f455ca28486ef9bef40
      https://github.com/VisTrails/VisTrails/commit/4ea2b02e1b11da2f4e8b5f455ca28486ef9bef40
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed hiding module edit widgets in read-only mode

gui/pipeline_view.py:
 setupModule needs to be called with the read_only flag set


  Commit: 831aec119f39b777826d1b53f1c9e7bb82512ec4
      https://github.com/VisTrails/VisTrails/commit/831aec119f39b777826d1b53f1c9e7bb82512ec4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  Fixed error adding transfer function to edit widget

Transfer function widget try to access scene before it is initialized
because of update_function_ports being called

gui/pipeline_view.py:
 - create_tf_items:
   Skip if scene not initialized and items to delete exist

packages/vtk/tf_widget.py:
 - setupModule:
   call update_function_ports last


  Commit: 4b7fb9411fa2dad911e2c1d6651914b62ba2d1e4
      https://github.com/VisTrails/VisTrails/commit/4b7fb9411fa2dad911e2c1d6651914b62ba2d1e4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  Added missing contentsChanged signal in packages/vtk/tf_widget.py


  Commit: 48d71681e6ab4d7a00acc2704e6b420b42860a49
      https://github.com/VisTrails/VisTrails/commit/48d71681e6ab4d7a00acc2704e6b420b42860a49
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Added tooltip to module edit widget funtion name

gui/pipeline_view.py:
 - QGraphicsFunctionWidget:
   Show parameter types as tooltip for name label


  Commit: 3a116d7ef47f3bf113b30b746e3b2eaf3a0a598b
      https://github.com/VisTrails/VisTrails/commit/3a116d7ef47f3bf113b30b746e3b2eaf3a0a598b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/module_info.py
    M vistrails/gui/ports_pane.py
    A vistrails/gui/resources/images/pencil-disabled.png
    A vistrails/gui/resources/images/pencil.png

  Log Message:
  -----------
  Use pencil icon for edit widget visibility

Changed 'E' icon to pencil icon in:
  gui/module_info.py
  gui/ports_pane.py

New images:
  gui/resources/images/pencil-disabled.png
  gui/resources/images/pencil.png


  Commit: a5f05344acacef37672b6293e9404dc2433d3160
      https://github.com/VisTrails/VisTrails/commit/a5f05344acacef37672b6293e9404dc2433d3160
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed module text scaling on Linux

Also fixed abstract upgrade icon position


  Commit: e4f8dbedf24e6cca7e0b0a023b7684eb585a56c2
      https://github.com/VisTrails/VisTrails/commit/e4f8dbedf24e6cca7e0b0a023b7684eb585a56c2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed children of proxied module edit widget being rendered inside graphicsview

gui/pipeline_view.py:
  Set Qt.BypassGraphicsProxyWidget flag on proxied widgets so that
  children are rendered as normal widgets


  Commit: c129cf65bdf291f1907158a60adf92996c01e5a0
      https://github.com/VisTrails/VisTrails/commit/c129cf65bdf291f1907158a60adf92996c01e5a0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/theme.py
    M vistrails/gui/pipeline_view.py
    M vistrails/packages/vtk/tf_widget.py

  Log Message:
  -----------
  QGraphicsTransferFunction now use standard coordinate system

This makes it easier to add graphicswidgets for other constant types

Also adjusted edit widget bottom margin

core/theme.py:
  Changed edit widget bottom margin from 2 to 4

gui/pipeline_view.py:
  Removed special transformation needed by qgraphicstransferfunction

packages/vtk/tf_widget.py:
  Transform qgraphicstransferfunction to normal coordinate system


  Commit: ff902a64faec744c87628e08823ddedc1af1231d
      https://github.com/VisTrails/VisTrails/commit/ff902a64faec744c87628e08823ddedc1af1231d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Added native GraphicsItem version of StandardConstantWidget

This is now the default for String/Float/Int

gui/modules/constant_configuration.py:
  - QGraphicsLineEdit: *new
    Extends QGraphicsTextItem to fully support unlimited single-line strings
    The tricky part was to scroll to the cursor for overflowing strings

gui/pipeline_view.py:
  Background needs to pass focusIn to the widget because its clickable area
  is just on the existing text
 - update_module_color:
    Recreate module if visible function has been deleted


  Commit: a42b4c83084382ca17bdc88bf925fa84e7ccc81a
      https://github.com/VisTrails/VisTrails/commit/a42b4c83084382ca17bdc88bf925fa84e7ccc81a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed focus-clicking always focusing last inline parameter widget


  Commit: e87a31035d8bf77358da20bf7ce4f1815082664b
      https://github.com/VisTrails/VisTrails/commit/e87a31035d8bf77358da20bf7ce4f1815082664b
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Fixed QGraphicsLineEdit not resizing when using different font


  Commit: a323230524d3d08f5235b85a5021ba7745cb57f1
      https://github.com/VisTrails/VisTrails/commit/a323230524d3d08f5235b85a5021ba7745cb57f1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/gui/module_info.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Added configuration option setInlineParameterWidgets

This controls if module edit widgets and the icons to add them are visible

core/configuration.py:
  New bool option setInlineParameterWidgets

gui/module_info.py:
  Toggle setInlineParameterWidgets when edit button is pressed

gui/pipeline_view.py:
  Show module edit widgets if setInlineParameterWidgets is true
  Adjusted function name pos by -1,-1

gui/ports_pane.py:
  Display edit toggle buttons if setInlineParameterWidgets is true


  Commit: d0bcc1ae7a1f1f9f840f487f5d513082b3412571
      https://github.com/VisTrails/VisTrails/commit/d0bcc1ae7a1f1f9f840f487f5d513082b3412571
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/module.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Added ability to modify edit widgets on constant modules

The default is still to show the widget for 'value'

core/vistrail/module.py:
  Fixed _get_editable_input_ports returning [''] for empty strings
  Treat missing annotation on constant modules as ['value']

gui/pipeline_view.py:
 Do not show function name if ['value'] is only widget on constant module


  Commit: 20ebfc7251e9b7cd210ab9de695ff77b19ef789f
      https://github.com/VisTrails/VisTrails/commit/20ebfc7251e9b7cd210ab9de695ff77b19ef789f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/module_info.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixes to edit mode

gui/module_info.py:
  Fixed edit mode not being persisted

gui/pipeline_view.py:
  Made proxied widgets background transparent
  Correctly scale module width using widget width


  Commit: 344c89f5c623c8c6f8c690bf97d0a80712aca5b1
      https://github.com/VisTrails/VisTrails/commit/344c89f5c623c8c6f8c690bf97d0a80712aca5b1
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Use cyan border on string edit widget in modules

gui/modules/constant_configuration.py:
 - QGraphicsLineEdit.paint:
   Draw custom cyan selection border


  Commit: 0c90e30430e6f16299c75f7b1b0317ffa734f1f8
      https://github.com/VisTrails/VisTrails/commit/0c90e30430e6f16299c75f7b1b0317ffa734f1f8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Do not recreate module when function is missing

gui/pipeline_view.py:
 - update_module_functions:
   Handle case where function did not exist in the first place
 - QGraphicsFunctionWidget:
   Forward mouse-click when clicking in background so that text can be selected
   with double-, and triple-click.


  Commit: 9ba4c227cb5f9030e46adb5970f682b840e05776
      https://github.com/VisTrails/VisTrails/commit/9ba4c227cb5f9030e46adb5970f682b840e05776
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Hide module edit widgets when zooming out

gui/pipeline_view.py:
  set_lod: *new
    Check zoom distance before calling paint on widget and its children


  Commit: ec6534987b7cbfa8440a422446dcf72cd5d7e842
      https://github.com/VisTrails/VisTrails/commit/ec6534987b7cbfa8440a422446dcf72cd5d7e842
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/graphics_view.py

  Log Message:
  -----------
  Disabled keep_square for updateSceneBoundingRect

It had no direct purpose, I am not sure it works correctly,
and gives large wasteful margins on the sides.

gui/graphics_view.py:
 - QInteractiveGraphicsScene.updateSceneBoundingRect:
   Set keep_square=False by default


  Commit: 594653dd63396677acbfb3b03cd80792cdff6d26
      https://github.com/VisTrails/VisTrails/commit/594653dd63396677acbfb3b03cd80792cdff6d26
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/pipeline.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Optimize calls to mark_list_depth

This greatly speeds up switching between versions that have
many changed modules.

core/vistrail/pipeline.py:
 - mark_list_depth:
   Take modules parameter that indicates which modules have changed, and
   skip the upstream.

gui/pipeline_view.py:
 - setupScene:
   Only call mark_list_depth at the end


  Commit: 1107357a03c102d5f5ea58f47a03715b4c812fd6
      https://github.com/VisTrails/VisTrails/commit/1107357a03c102d5f5ea58f47a03715b4c812fd6
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/ports_pane.py

  Log Message:
  -----------
  Skip set_entry_klass of not changed

This speeds up view switching

gui/ports_pane.py:
 - set_entry_klass:
   Skip if not changed


  Commit: f19be40d91493f49aa21b43c2dd414c9cf966e82
      https://github.com/VisTrails/VisTrails/commit/f19be40d91493f49aa21b43c2dd414c9cf966e82
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Improvements for module edit widget border

gui/modules/constant_configuration.py:
  Mark invalid inline edit widgets with yellow border
  Use default system color for highlighted borders

gui/pipeline_view.py:
  Fixed empty .port_spec_item attribute

gui/theme.py:
  Added PARAM_INVALID_COLOR


  Commit: ad54fe2c5a9b9ad73d77beeb2a654cdf8ca7c624
      https://github.com/VisTrails/VisTrails/commit/ad54fe2c5a9b9ad73d77beeb2a654cdf8ca7c624
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M doc/usersguide/example.rst
    A doc/usersguide/figures/edit_widgets/edit-widget.png
    A doc/usersguide/figures/edit_widgets/edit-widgets.png
    A doc/usersguide/figures/edit_widgets/enabling-edit-widgets.png
    A doc/usersguide/parameter_widgets.rst
    A doc/usersguide/vtl/parameter_widgets.vtl
    M examples/terminator.vt
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Added documentation for parameter widgets

vistrails/gui/module_info.py: Fixed edit widgets button label text
doc/usersguide/example.rst: Added parameter widgets section
doc/usersguide/parameter_widgets.rst: *new - Documentation for parameter widgets
doc/usersguide/vtl/parameter_widgets.vtl: *new - Link to terminator.vt:"parameter widgets"

examples/terminator.vt: Added "parameter widgets" workflow

New images:
doc/usersguide/figures/edit_widgets/edit-widget.png
doc/usersguide/figures/edit_widgets/edit-widgets.png
doc/usersguide/figures/edit_widgets/enabling-edit-widgets.png


  Commit: 627a4cb89b43b9ec1ce70400ae144c8bf90751d9
      https://github.com/VisTrails/VisTrails/commit/627a4cb89b43b9ec1ce70400ae144c8bf90751d9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M doc/usersguide/parameter_widgets.rst

  Log Message:
  -----------
  parameter_widgets.rst: Changed figure names from "Example" to "Figure"


  Commit: 392cad35b8eadcb69f01212be7326be41fd29620
      https://github.com/VisTrails/VisTrails/commit/392cad35b8eadcb69f01212be7326be41fd29620
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Fixes typo


  Commit: 450acce022d655a341b15bd701e7eb29334340ea
      https://github.com/VisTrails/VisTrails/commit/450acce022d655a341b15bd701e7eb29334340ea
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Removes Lod attribute 'scale'

This is not actually used, purpose unknown.


  Commit: 4360e79aa9ec8bd00bfda786b7637c6d87e3c3c3
      https://github.com/VisTrails/VisTrails/commit/4360e79aa9ec8bd00bfda786b7637c6d87e3c3c3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Rewrites set_lod()


  Commit: d967cede8b09410c35de243c7eec575dd20e4970
      https://github.com/VisTrails/VisTrails/commit/d967cede8b09410c35de243c7eec575dd20e4970
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixes set_lod()


  Commit: 4037d3ddb602a6362c8e94c5e29cc863b7372461
      https://github.com/VisTrails/VisTrails/commit/4037d3ddb602a6362c8e94c5e29cc863b7372461
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  No need to store LOD, just store whether to draw


  Commit: 3eaff2b0efc91faa5e21598555ccbc997a593950
      https://github.com/VisTrails/VisTrails/commit/3eaff2b0efc91faa5e21598555ccbc997a593950
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Center parameter widgets in modules

gui/pipeline_view.py:
 - QGraphicsFunctionWidget:
   Store parameter widths

 - QGraphicsFunctionsWidget:
   Center parameter widths when the final width is known


  Commit: 49404bfc69bf56723717fc8f1be9b451cb71e6a9
      https://github.com/VisTrails/VisTrails/commit/49404bfc69bf56723717fc8f1be9b451cb71e6a9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed enum type for inline widgets

* Set line edit border to default
* Fixes transparent backgrounds

gui/modules/constant_configuration.py:
 - QGraphicsLineEdit:
  Set default bg color to "QPalette.Dark".
 - StandardConstantEnumWidget:
   Use widget as proxy in GraphicsView
   Fix buggy popup when proxied

gui/pipeline_view.py:
 - QGraphicsFunctionWidget:
   Pass entry_type so that enum type is detected
   Remove background on proxied widgets the correct way


  Commit: ccc7dd60ba8521c9d61002f12074f62ce607bd70
      https://github.com/VisTrails/VisTrails/commit/ccc7dd60ba8521c9d61002f12074f62ce607bd70
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py

  Log Message:
  -----------
  Fixed default value for inline widgets

gui/modules/constant_configuration.py:
 - ConstantWidgetBase:
   Show default value if strVal is empty
   strValue was always set before, which worked in QLineEdit but broke inline widgets


  Commit: 53012658e0f9bdb482a8ea8e1545ec9ced82c36d
      https://github.com/VisTrails/VisTrails/commit/53012658e0f9bdb482a8ea8e1545ec9ced82c36d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/graphics_view.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_pipeline.py

  Log Message:
  -----------
  Fixed miniature pipeline views

* Re-enabled far-out zoom
* Set parameter exploration pipeline view to read-only
* Fixed fitting parameter exploration pipeline view to read-only

gui/graphics_view.py:
  Enabled zooming out for miniature views
  Zooming in is still more limited
  New scaleoffset for adjusting the in/out zooming difference
  Also added computing scale after fitting

gui/paramexplore/param_view.py:
  Set pipeline view read-only and fixed fitting when pipeline changes

gui/paramexplore/pe_pipeline.py:
  Recompute bounding box before fitting views


  Commit: de1755606000d07165288a9ab844347ad39bddb8
      https://github.com/VisTrails/VisTrails/commit/de1755606000d07165288a9ab844347ad39bddb8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    A vistrails/gui/resources/fonts/LiberationSans-Bold.ttf
    A vistrails/gui/resources/fonts/LiberationSans-BoldItalic.ttf
    A vistrails/gui/resources/fonts/LiberationSans-Italic.ttf
    A vistrails/gui/resources/fonts/LiberationSans-Regular.ttf
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Use Liberation Font in QPipelineView


  Commit: 797803476df0237832749f52c6e759fe9880ec84
      https://github.com/VisTrails/VisTrails/commit/797803476df0237832749f52c6e759fe9880ec84
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Set pixelSize on fonts in graphics view


  Commit: 7cee05b499a8de151bb4d20ad044be20fd086c85
      https://github.com/VisTrails/VisTrails/commit/7cee05b499a8de151bb4d20ad044be20fd086c85
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Use setPixelSize and NoHinting for fonts in graphics view


  Commit: 99c2cb16e859b42617bc5190eefba0714af7d478
      https://github.com/VisTrails/VisTrails/commit/99c2cb16e859b42617bc5190eefba0714af7d478
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    R vistrails/gui/resources/fonts/LiberationSans-Bold.ttf
    R vistrails/gui/resources/fonts/LiberationSans-BoldItalic.ttf
    R vistrails/gui/resources/fonts/LiberationSans-Italic.ttf
    R vistrails/gui/resources/fonts/LiberationSans-Regular.ttf
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Remove DPI scaling on graphicsview fonts

It works better than setpixelsize and bundled font.

gui/theme.py:
 - fixDPI:
   Multiply font size with 72/DPI to get same size on all platforms.

Also removed LiberationSans fonts.


  Commit: 2baa7d6e9440e2a38cf9df0d30c65c6da0bb1f3d
      https://github.com/VisTrails/VisTrails/commit/2baa7d6e9440e2a38cf9df0d30c65c6da0bb1f3d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/graphics_view.py

  Log Message:
  -----------
  Right-click drag on module uses wrong scale

gui/graphics_view.py:
  Call computeScale if clicking on a module and dragging


  Commit: 968dede3c6bbe39aae9f37242af9cd2f0e61166e
      https://github.com/VisTrails/VisTrails/commit/968dede3c6bbe39aae9f37242af9cd2f0e61166e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  api tests fails when setting current_pipeline_view to None

Why is this needed?

gui/pipeline_view.py:
  - set_controller:
    Do not set current_pipeline_view to None


  Commit: ff69d08a2c6ad1133675a376a946ab434e83e77a
      https://github.com/VisTrails/VisTrails/commit/ff69d08a2c6ad1133675a376a946ab434e83e77a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Added documentation for viewOnLoad


  Commit: d1097c1513f17772d412becbcb0e335eeaaf0cf2
      https://github.com/VisTrails/VisTrails/commit/d1097c1513f17772d412becbcb0e335eeaaf0cf2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Pipeline view was not shown when version was specified

gui/vistrails_window.py:
  - open_vistrail_without_prompt:
    Always switch to pipeline view when version is specified


  Commit: 172174a0ad5ad21affd12342d2c25d83bc05de07
      https://github.com/VisTrails/VisTrails/commit/172174a0ad5ad21affd12342d2c25d83bc05de07
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M doc/usersguide/example.rst
    A doc/usersguide/figures/edit_widgets/edit-widget.png
    A doc/usersguide/figures/edit_widgets/edit-widgets.png
    A doc/usersguide/figures/edit_widgets/enabling-edit-widgets.png
    A doc/usersguide/parameter_widgets.rst
    A doc/usersguide/vtl/parameter_widgets.vtl
    M examples/terminator.vt
    M vistrails/core/configuration.py
    M vistrails/core/theme.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/module_info.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/ports_pane.py
    A vistrails/gui/resources/images/pencil-disabled.png
    A vistrails/gui/resources/images/pencil.png
    M vistrails/gui/theme.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/webServices/enumeration_widget.py

  Log Message:
  -----------
  Merge branch 'function-tooltip-rebased' into 'master'


  Commit: b62ded4c9adc4ff6a04e3cea450fdc5a6d385dbf
      https://github.com/VisTrails/VisTrails/commit/b62ded4c9adc4ff6a04e3cea450fdc5a6d385dbf
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Fixes syntax typo from b799f500

Module Configuration button didn't work.


  Commit: 560092c6e35a4d95e6acbb9f8e1c5d8ba6b6ed8e
      https://github.com/VisTrails/VisTrails/commit/560092c6e35a4d95e6acbb9f8e1c5d8ba6b6ed8e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/module_iteration.py

  Log Message:
  -----------
  Removes method QPortCombineTreeWidget#getPorts()


  Commit: f596617b227482642954ac33600e968bd8498323
      https://github.com/VisTrails/VisTrails/commit/f596617b227482642954ac33600e968bd8498323
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-01 (Wed, 01 Oct 2014)

  Changed paths:
    M vistrails/gui/module_configuration.py
    M vistrails/gui/modules/output_configuration.py

  Log Message:
  -----------
  Fixes spacing inside output configuration palette


  Commit: e9d84d51ca6e25f143542f1bf5fe875b8da4ed6e
      https://github.com/VisTrails/VisTrails/commit/e9d84d51ca6e25f143542f1bf5fe875b8da4ed6e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-02 (Thu, 02 Oct 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixed eventFilter being called before configuration is set

gui/application.py:
 - check if temp_configuration exists before accessing it


  Commit: 6360d0892c40e8388f6605ba25fcc8d55023c548
      https://github.com/VisTrails/VisTrails/commit/6360d0892c40e8388f6605ba25fcc8d55023c548
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-02 (Thu, 02 Oct 2014)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  conf.execute should not be used to get the value

This sometimes caused vistrail files to be wrongly executed when opened

core/application.py:
 - processInteractiveInput:
   Use .check() and not .execute to get execute value from configuration


  Commit: 7e2670f92ee08b05fa841f754b437b64d94052af
      https://github.com/VisTrails/VisTrails/commit/7e2670f92ee08b05fa841f754b437b64d94052af
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-03 (Fri, 03 Oct 2014)

  Changed paths:
    M vistrails/packages/tabledata/write/__init__.py

  Log Message:
  -----------
  Makes xlwt optional


  Commit: 61a5d306d6cc949225e9db2a4b405352ded3b1f9
      https://github.com/VisTrails/VisTrails/commit/61a5d306d6cc949225e9db2a4b405352ded3b1f9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-03 (Fri, 03 Oct 2014)

  Changed paths:
    M vistrails/packages/tabledata/read/__init__.py

  Log Message:
  -----------
  Makes xlrd optional


  Commit: 290603db2317ba782b91c84fc4757318940f8422
      https://github.com/VisTrails/VisTrails/commit/290603db2317ba782b91c84fc4757318940f8422
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-06 (Mon, 06 Oct 2014)

  Changed paths:
    M .gitignore
    A .travis.yml
    A LICENSE
    M README.md
    A Vagrantfile
    R dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/common/splash/README
    R dist/common/splash/splash.ai
    R dist/common/splash/splash.svg
    R dist/common/wiki_header/header.ai
    R dist/common/wiki_header/header.jpg
    R dist/common/wiki_header/header.png
    R dist/common/wiki_header/header_fill.png
    R dist/mac/Input/CLToolsWizard.command
    R dist/mac/Input/LICENSE
    R dist/mac/Input/README
    R dist/mac/Input/VisTrails.command
    R dist/mac/Input/qt.conf
    R dist/mac/fix_itk_libraries.py
    R dist/mac/fix_qtplugin_libs.py
    R dist/mac/make_app
    R dist/mac/make_app_itk
    R dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    R dist/mac/resources/splash/splash.ai
    R dist/mac/resources/vistrails_icon.icns
    R dist/mac/resources/vistrails_icon_small.icns
    R dist/mac/setup.py
    R dist/mac/setup_itk.py
    R dist/mac/vistrails.dmgCanvas
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/bookmarks.xml
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/git.exe
    R dist/windows/Input/libiconv-2.dll
    R dist/windows/Input/libiconv2.dll
    R dist/windows/Input/libintl-2.dll
    R dist/windows/Input/license.txt
    R dist/windows/Input/qt.conf
    R dist/windows/Input/releaseNotes.txt
    R dist/windows/Input/runvistrails.py
    R dist/windows/Input/startup.py
    R dist/windows/Input/tar.exe
    R dist/windows/Input/unzip.exe
    R dist/windows/Input/unzip32.dll
    R dist/windows/Input/zip.exe
    R dist/windows/custom/vistrails-gdal.iss
    R dist/windows/custom/vistrailsx64-gdal.iss
    R dist/windows/resources/icons/src/vistrails_install.xcf
    R dist/windows/resources/icons/src/vistrails_install_flat.xcf
    R dist/windows/resources/icons/vistrails_install2.ico
    R dist/windows/resources/images/vistrails_icon.bmp
    R dist/windows/resources/images/vistrails_icon.png
    R dist/windows/resources/images/vistrails_icon_small.bmp
    R dist/windows/resources/images/vistrails_icon_small.png
    R dist/windows/vistrails.iss
    R dist/windows/vistrailsx64.iss
    M doc/dist/instructions.txt
    M doc/usersguide/batch.rst
    M doc/usersguide/conf.py
    M doc/usersguide/example.rst
    A doc/usersguide/figures/edit_widgets/edit-widget.png
    A doc/usersguide/figures/edit_widgets/edit-widgets.png
    A doc/usersguide/figures/edit_widgets/enabling-edit-widgets.png
    A doc/usersguide/figures/parameter_exploration/inspector.png
    M doc/usersguide/list_handling.rst
    M doc/usersguide/packages.rst
    M doc/usersguide/parameter_exploration.rst
    A doc/usersguide/parameter_widgets.rst
    A doc/usersguide/vtl/parameter_widgets.vtl
    A examples/mta-yankees.vt
    M examples/mta.vt
    M examples/scripting/brain_script.py
    M examples/scripting/combined_script.py
    M examples/scripting/vtk_book_3rd_p189_script.py
    M examples/terminator.vt
    A requirements.txt
    M scripts/build_usersguide.py
    M scripts/create_release_wiki_table.py
    M scripts/delete_from_db.py
    M scripts/diff_package.py
    A scripts/dist/common/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/common/splash/README
    A scripts/dist/common/splash/splash.ai
    A scripts/dist/common/splash/splash.svg
    A scripts/dist/common/wiki_header/header.ai
    A scripts/dist/common/wiki_header/header.jpg
    A scripts/dist/common/wiki_header/header.png
    A scripts/dist/common/wiki_header/header_fill.png
    A scripts/dist/conda/README.md
    A scripts/dist/conda/vistrails/bld.bat
    A scripts/dist/conda/vistrails/build.sh
    A scripts/dist/conda/vistrails/meta.yaml
    A scripts/dist/mac/Input/CLToolsWizard.command
    A scripts/dist/mac/Input/LICENSE
    A scripts/dist/mac/Input/README
    A scripts/dist/mac/Input/VisTrails.command
    A scripts/dist/mac/Input/qt.conf
    A scripts/dist/mac/fix_itk_libraries.py
    A scripts/dist/mac/fix_qtplugin_libs.py
    A scripts/dist/mac/make_app
    A scripts/dist/mac/make_app_itk
    A scripts/dist/mac/resources/splash/Franklin Gothic No. 2 Roman.ttf
    A scripts/dist/mac/resources/splash/splash.ai
    A scripts/dist/mac/resources/vistrails_icon.icns
    A scripts/dist/mac/resources/vistrails_icon_small.icns
    A scripts/dist/mac/setup.py
    A scripts/dist/mac/setup_itk.py
    A scripts/dist/mac/vistrails.dmgCanvas
    A scripts/dist/source/make-vistrails-src-nightly.py
    A scripts/dist/source/make-vistrails-src-release.py
    A scripts/dist/ubuntu/_debian/control
    A scripts/dist/ubuntu/_debian/copyright
    A scripts/dist/ubuntu/create_debian_pkg.sh
    A scripts/dist/windows/Input/bookmarks.xml
    A scripts/dist/windows/Input/download_usersguide.py
    A scripts/dist/windows/Input/git.exe
    A scripts/dist/windows/Input/libiconv-2.dll
    A scripts/dist/windows/Input/libiconv2.dll
    A scripts/dist/windows/Input/libintl-2.dll
    A scripts/dist/windows/Input/license.txt
    A scripts/dist/windows/Input/qt.conf
    A scripts/dist/windows/Input/releaseNotes.txt
    A scripts/dist/windows/Input/runvistrails.py
    A scripts/dist/windows/Input/startup.py
    A scripts/dist/windows/Input/tar.exe
    A scripts/dist/windows/Input/unzip.exe
    A scripts/dist/windows/Input/unzip32.dll
    A scripts/dist/windows/Input/zip.exe
    A scripts/dist/windows/common1.iss
    A scripts/dist/windows/common2.iss
    A scripts/dist/windows/resources/icons/src/vistrails_install.xcf
    A scripts/dist/windows/resources/icons/src/vistrails_install_flat.xcf
    A scripts/dist/windows/resources/icons/vistrails_install2.ico
    A scripts/dist/windows/resources/images/vistrails_icon.bmp
    A scripts/dist/windows/resources/images/vistrails_icon.png
    A scripts/dist/windows/resources/images/vistrails_icon_small.bmp
    A scripts/dist/windows/resources/images/vistrails_icon_small.png
    A scripts/dist/windows/vistrails-gdal.iss
    A scripts/dist/windows/vistrails.iss
    A scripts/dist/windows/vistrailsx64-gdal.iss
    A scripts/dist/windows/vistrailsx64.iss
    M scripts/extract.py
    M scripts/generate_pkg_doc.py
    M scripts/merge_vistrails.py
    M scripts/release_notes.py
    M scripts/sql_delete.py
    M scripts/sql_to_xml.py
    M scripts/start_vistrails.sh
    M scripts/start_vistrails_xvfb.sh
    M scripts/update_db.py
    M scripts/watch_vistrail_servers.py
    A setup.py
    M vistrails/__init__.py
    M vistrails/api/__init__.py
    M vistrails/core/analogy/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/vistrail.py
    R vistrails/core/command_line.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/default.py
    M vistrails/core/interpreter/job.py
    M vistrails/core/interpreter/noncached.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    A vistrails/core/modules/output_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/param_explore.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/query/__init__.py
    M vistrails/core/requirements.py
    R vistrails/core/resources/default_vistrails_startup
    M vistrails/core/resources/default_vistrails_startup_xml
    M vistrails/core/resources/spawned_startup_xml
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/windows.py
    M vistrails/core/theme.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/color.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/bin/templates/domain.py.mako
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/specs/all.xml
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v1_0_2/translate/v1_0_3.py
    M vistrails/db/versions/v1_0_3/domain/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_3/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_3/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_3/schemas/xml/log.xsd
    M vistrails/db/versions/v1_0_3/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_3/specs/all.xml
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_4.py
    M vistrails/db/versions/v1_0_4/domain/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/sql/auto_gen.py
    M vistrails/db/versions/v1_0_4/persistence/xml/auto_gen.py
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails.sql
    M vistrails/db/versions/v1_0_4/schemas/sql/vistrails_drop.sql
    M vistrails/db/versions/v1_0_4/schemas/xml/vistrail.xsd
    M vistrails/db/versions/v1_0_4/specs/all.xml
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/bundles/installbundle.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debug.py
    M vistrails/gui/debugger.py
    M vistrails/gui/extras/core/db/locator.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/mashups/alias_inspector.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_info.py
    M vistrails/gui/module_options.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/constant_configuration.py
    A vistrails/gui/modules/output_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    M vistrails/gui/repository.py
    M vistrails/gui/requirements.py
    A vistrails/gui/resources/images/pencil-disabled.png
    A vistrails/gui/resources/images/pencil.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/JobSubmission/init.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/identifiers.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/controlflow/__init__.py
    M vistrails/packages/controlflow/init.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/dialogs/init.py
    M vistrails/packages/gmaps/gmap_cell.py
    M vistrails/packages/gmaps/identifiers.py
    M vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    M vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/read_csv.py
    M vistrails/packages/tabledata/read/read_excel.py
    M vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/viewer.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    A vistrails/tests/__main__.py
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py
    A vistrails/tests/resources/startup-0.1.xml.tmpl
    M vistrails/tests/resources/test-list-custom.vt
    M vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into job-cache

Conflicts:
	vistrails/core/interpreter/job.py
	vistrails/core/modules/vistrails_module.py
	vistrails/gui/module_options.py


  Commit: 6c1b88d28c3b692b9631edeefe751d09a42b7977
      https://github.com/VisTrails/VisTrails/commit/6c1b88d28c3b692b9631edeefe751d09a42b7977
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/gui/qt.py

  Log Message:
  -----------
  Fixes 843c4294


  Commit: 49eb08b3e14e43fb98b896624498cfe031775803
      https://github.com/VisTrails/VisTrails/commit/49eb08b3e14e43fb98b896624498cfe031775803
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/core/query/__init__.py
    M vistrails/core/query/visual.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vis_diff.py

  Log Message:
  -----------
  Removes list comprehensions from set() calls


  Commit: 18945e9baf0abffe4b181c9fcaeda058b4f72e08
      https://github.com/VisTrails/VisTrails/commit/18945e9baf0abffe4b181c9fcaeda058b4f72e08
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removes None default_value in new_constant()


  Commit: fcb48d62c18dc2606e195a3f1ec4e437fac490cd
      https://github.com/VisTrails/VisTrails/commit/fcb48d62c18dc2606e195a3f1ec4e437fac490cd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/module_registry.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/webServices/enumeration_widget.py

  Log Message:
  -----------
  Merge branch 'constant-classes' into 'master'


  Commit: 7d28ec7cf201c08e97dcd050b3bcf6e94d5b1309
      https://github.com/VisTrails/VisTrails/commit/7d28ec7cf201c08e97dcd050b3bcf6e94d5b1309
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/core/collection/__init__.py

  Log Message:
  -----------
  Removes unused Collection#update_from_database()


  Commit: 7e33a0e391cbb8f7d451d831290b488ba143478f
      https://github.com/VisTrails/VisTrails/commit/7e33a0e391cbb8f7d451d831290b488ba143478f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-08 (Wed, 08 Oct 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/configuration.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'version-flag' into 'master'


  Commit: 590cddf3b072aa49cd5caa288a31a20b739f4f39
      https://github.com/VisTrails/VisTrails/commit/590cddf3b072aa49cd5caa288a31a20b739f4f39
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/gui/common_widgets.py

  Log Message:
  -----------
  Removes unused MultiLineWidget, unused since 2009

Last usage removed by 63aa48e7.


  Commit: bc4d03c48313d611e89576818d600ef4917ff00f
      https://github.com/VisTrails/VisTrails/commit/bc4d03c48313d611e89576818d600ef4917ff00f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/gui/common_widgets.py

  Log Message:
  -----------
  Removes QTabBarDetachButton, unused since 2011

Last usage removed by 72884448.


  Commit: 7ffda884314e5b7f18b22f38b6c9fed3da74d149
      https://github.com/VisTrails/VisTrails/commit/7ffda884314e5b7f18b22f38b6c9fed3da74d149
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/gui/configuration.py
    M vistrails/gui/module_annotation.py
    M vistrails/gui/vistrail_variables.py
    M vistrails/packages/persistence/widgets.py

  Log Message:
  -----------
  Removes unused imports from common_widgets


  Commit: a77b21350c86da7b4b8b147c99184b27daef3ca8
      https://github.com/VisTrails/VisTrails/commit/a77b21350c86da7b4b8b147c99184b27daef3ca8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Merge branch 'pkg-as-setuptools-plugins' into 'master'


  Commit: bc7b558177387e5e2307363097369d16eee8f8f0
      https://github.com/VisTrails/VisTrails/commit/bc7b558177387e5e2307363097369d16eee8f8f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/core/packagemanager.py

  Log Message:
  -----------
  Fixes TestImports#test_package()


  Commit: 66da79b8c5a4b230b70f6764a8ea88aa69d27e70
      https://github.com/VisTrails/VisTrails/commit/66da79b8c5a4b230b70f6764a8ea88aa69d27e70
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Uses assertIn() in test


  Commit: eb877d185f4fd40d8b5ef9c7b532b645fb0a7434
      https://github.com/VisTrails/VisTrails/commit/eb877d185f4fd40d8b5ef9c7b532b645fb0a7434
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/debug.py
    M vistrails/core/startup.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Adds -v command line flag for debugLevel


  Commit: 66a37496b3e0d6f7e44a67a290073d3901d2ea7f
      https://github.com/VisTrails/VisTrails/commit/66a37496b3e0d6f7e44a67a290073d3901d2ea7f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-09 (Thu, 09 Oct 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Adds __repr__() to module registry exceptions


  Commit: 52b68df168e057ab9d09ec0edb00dcd00b88223e
      https://github.com/VisTrails/VisTrails/commit/52b68df168e057ab9d09ec0edb00dcd00b88223e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-10 (Fri, 10 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/interpreter/cached.py
    R vistrails/core/interpreter/job.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/controller.py
    A vistrails/core/vistrail/job.py
    M vistrails/gui/application.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Save job info in the vistrail

* Jobs are shared between workflows in a vistrail
* Easier to share jobs

core/configuration.py:
  Removed runJob and added jobInfo
  runJob is not needed when you can run a workflow normally
  jobInfo lists jobs in a workflow

core/console_mode.py:
  Use the controller JobMonitor

core/interpreter/cached.py:
  Use the controller JobMonitor

core/modules/vistrails_module.py:
  Use the controller JobMonitor
 - job_monitor: *new
   Returns the JobMonitor if controller is specified

core/vistrail/controller.py:
  Use the controller JobMonitor
  load/save job information in the vistrail using a __jobs__ annotation

core/vistrail/job.py: *moved from core/interpreter
  Removed single instance. We now store a JobMonitor for each controller

gui/application.py:
  Need to create a controller before we can get job info

gui/job_monitor.py:
 - QVistrailItem:
   New class for showing the
 New icons for vistrail and workflow. Moved state icons to 2:nd column

gui/vistrail_controller.py:
 - getAllViews: *new
   Returns a list of current views

gui/vistrails_window.py:
  Added controller_changed signal to QJobView
  Removed check to delete jobs when closing vistrail


  Commit: 6054a287ab6c077412440639b923b7663b385a10
      https://github.com/VisTrails/VisTrails/commit/6054a287ab6c077412440639b923b7663b385a10
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-10 (Fri, 10 Oct 2014)

  Changed paths:
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Duplicates processEvents() calls


  Commit: 4d629c3579818da9a4abaaa9bfa003be9766950c
      https://github.com/VisTrails/VisTrails/commit/4d629c3579818da9a4abaaa9bfa003be9766950c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-10 (Fri, 10 Oct 2014)

  Changed paths:
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Removes useless loops


  Commit: a00c18aff40572832bb39b11d4764d4be7cae335
      https://github.com/VisTrails/VisTrails/commit/a00c18aff40572832bb39b11d4764d4be7cae335
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/job.py
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Fixes jobs inside automatic loops

core/interpreter/cached.py:
 - _handle_suspended:
   Removed error.signature and unused identifier i

core/modules/vistrails_module.py:
 - ModuleSuspended: Removed job_id attribute
 - VistrailsModule.compute_all:
   Create a new module for each iteration
   Fixed module.typeChecking -> self.typeChecking
   and module.setInputValues -> self.setInputValues
   This was breaking signatures. Also fixed other methods.

core/vistrail/job.py:
 - JobMixin:
   Removed finishJob call from updateUpstream. The logging object
   is not created yet so we need to call it in compute() instead.

gui/job_monitor.py:
   Updated to reflect other changes


  Commit: 724a2d981eb0528b9f807c4a4986fa43d96dd3d0
      https://github.com/VisTrails/VisTrails/commit/724a2d981eb0528b9f807c4a4986fa43d96dd3d0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  Moved hadoop modules to 'hadoop' namespace

Updated to use controllers JobMonitor

Bumped version to 0.3.1 and added upgrades


  Commit: 5389c99a6c978cac79f4f4c45d806bf4d5102c4f
      https://github.com/VisTrails/VisTrails/commit/5389c99a6c978cac79f4f4c45d806bf4d5102c4f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Fixed job using old workflow version

gui/vistrail_controller.py:
  The old job workflow was used when clicking execute while editing a parameter
  We now delay the job workflow creation to after all changes have been applied


  Commit: 64f7c59971c6f17fe360acd6bf0e57e73f32ccf6
      https://github.com/VisTrails/VisTrails/commit/64f7c59971c6f17fe360acd6bf0e57e73f32ccf6
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Fixes JobView not being updated when executing old job in new workflow

core/vistrail/job.py:
  - JobMixin.compute:
    Always call addJob or setCache so that the gui gets updated correctly


  Commit: 3f9aebd3289d7b27b6bdace29402fc0393685e59
      https://github.com/VisTrails/VisTrails/commit/3f9aebd3289d7b27b6bdace29402fc0393685e59
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/packages/RemoteQ/init.py

  Log Message:
  -----------
  Added RemoteQ module RunJob

packages/RemoteQ/init.py:
  - RunJob: *new
    Whereas RunCommand waits until it finishes, RunJob runs a job
    over SSH asynchronously. It can be detached, returns stdout/stderr,
    and fails with a ModuleError if return code is not 0.


  Commit: 48e459b1cc28cd80ca3121040b54c6896a55bce0
      https://github.com/VisTrails/VisTrails/commit/48e459b1cc28cd80ca3121040b54c6896a55bce0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/packages/RemoteQ/init.py

  Log Message:
  -----------
  RemoteQ: Check exit code after RunCommand finishes

packages/RemoteQ/init.py:
 -  RunCommand:
    Raise ModuleError if exit code is not 0
    Fixed removed self.cache


  Commit: e524b97f996f4c61d8b8192fd33057ec9a802d43
      https://github.com/VisTrails/VisTrails/commit/e524b97f996f4c61d8b8192fd33057ec9a802d43
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Expanding/collapsing versions don't change vt


  Commit: 09168466b777f775589d7ce9f265426bb691c8c0
      https://github.com/VisTrails/VisTrails/commit/09168466b777f775589d7ce9f265426bb691c8c0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-14 (Tue, 14 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py

  Log Message:
  -----------
  Removes unused set_num_versions_always_shown()


  Commit: a455b9f64009e113f25b272ddcc9e57f729480d0
      https://github.com/VisTrails/VisTrails/commit/a455b9f64009e113f25b272ddcc9e57f729480d0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-15 (Wed, 15 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/interpreter/cached.py
    R vistrails/core/interpreter/job.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/controller.py
    A vistrails/core/vistrail/job.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/gui/application.py
    M vistrails/gui/job_monitor.py
    R vistrails/gui/module_iteration.py
    A vistrails/gui/module_options.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  Merge branch 'job-cache'


  Commit: d91ff981d52911613fb95c03d39a9032135f277f
      https://github.com/VisTrails/VisTrails/commit/d91ff981d52911613fb95c03d39a9032135f277f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-15 (Wed, 15 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge branch 'controller-not-changed' into 'master'


  Commit: a2e7ab2797c4d65e1fcbabf450dec40120a9a7c5
      https://github.com/VisTrails/VisTrails/commit/a2e7ab2797c4d65e1fcbabf450dec40120a9a7c5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-16 (Thu, 16 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed inline widgets sometimes not getting updated

gui/pipeline_view.py:
  - function_changed:
    self.module does not get updated correctly so get module from controller instead
  - update_function_values: *new
  - functions_have_been_deleted: *new
  - hoverEnterEvent:
    Set widget on scene instead so that it never gets orphaned
  - setupScene:
    Call update_function_values

Ticket: 903


  Commit: dbde600deb4de865236a19e0addd5d932aba6532
      https://github.com/VisTrails/VisTrails/commit/dbde600deb4de865236a19e0addd5d932aba6532
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M doc/usersguide/mashups.rst

  Log Message:
  -----------
  Fixes typo in docs


  Commit: 1a23cd52382b6f84ce3721814ec95fd61961155b
      https://github.com/VisTrails/VisTrails/commit/1a23cd52382b6f84ce3721814ec95fd61961155b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M scripts/mac_update_bin.sh

  Log Message:
  -----------
  Fixes mac_update_bin.sh failing on spaces


  Commit: 65a6a50d7b7f4b25158b2c3f8024a1ee1df93153
      https://github.com/VisTrails/VisTrails/commit/65a6a50d7b7f4b25158b2c3f8024a1ee1df93153
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/mac/Input/VisTrails.command
    M scripts/update_vistrails_command.py

  Log Message:
  -----------
  Fixes VisTrails.command file


  Commit: a81728332f8c46c3e86bac9604ebb68fb7f91a09
      https://github.com/VisTrails/VisTrails/commit/a81728332f8c46c3e86bac9604ebb68fb7f91a09
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M scripts/dist/mac/Input/README
    M scripts/dist/mac/Input/VisTrails.command
    M scripts/mac_update_bin.sh
    M scripts/update_vistrails_command.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: 1e234d336e812aafa5a74fb551c92926c3d95edc
      https://github.com/VisTrails/VisTrails/commit/1e234d336e812aafa5a74fb551c92926c3d95edc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M scripts/update_vistrails_command.py

  Log Message:
  -----------
  Deprecates update_vistrails_command.py


  Commit: 377b80cfb62421819db4f11b8c5e1967e020f628
      https://github.com/VisTrails/VisTrails/commit/377b80cfb62421819db4f11b8c5e1967e020f628
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-17 (Fri, 17 Oct 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Adds some error checking to the GUI


  Commit: d2ee4a438cff48e460847a16b372ae99ae937510
      https://github.com/VisTrails/VisTrails/commit/d2ee4a438cff48e460847a16b372ae99ae937510
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixed interactive mode not working on Linux

gui/application.py:
  init: Fixed typo "elif", should be "if".


  Commit: 37eaf1dd4fac03b3f867ed155b7dd2098a21aab4
      https://github.com/VisTrails/VisTrails/commit/37eaf1dd4fac03b3f867ed155b7dd2098a21aab4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M examples/usersguide/mashups.vt

  Log Message:
  -----------
  Removed faulty upgrades in examples/usersguide/mashups.vt

Ticket: 906


  Commit: 4eaef51948d70b0805cf2dd75c12015ea8e837b2
      https://github.com/VisTrails/VisTrails/commit/4eaef51948d70b0805cf2dd75c12015ea8e837b2
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M examples/usersguide/mashups.vt

  Log Message:
  -----------
  Merge branch 'v2.1'


  Commit: 0ade6e5580a1f37432083b127b74e38e4b8cb74e
      https://github.com/VisTrails/VisTrails/commit/0ade6e5580a1f37432083b127b74e38e4b8cb74e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M doc/usersguide/mashups.rst

  Log Message:
  -----------
  Fixes typo in docs


  Commit: 03155bed629b0903be04331947695a9d0aebe6b0
      https://github.com/VisTrails/VisTrails/commit/03155bed629b0903be04331947695a9d0aebe6b0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M examples/usersguide/mashups.vt

  Log Message:
  -----------
  Adds missing tag "contour 4" to mashups.vt


  Commit: 105522a93d84e2aedfbaf63ad71a27e379e7c95a
      https://github.com/VisTrails/VisTrails/commit/105522a93d84e2aedfbaf63ad71a27e379e7c95a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M doc/usersguide/mashups.rst

  Log Message:
  -----------
  Usersguide: Use "contour 3" in mashups example


  Commit: 7f867743ebfdc85bbe7a30b7c0d3f4520556d7f5
      https://github.com/VisTrails/VisTrails/commit/7f867743ebfdc85bbe7a30b7c0d3f4520556d7f5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M doc/usersguide/mashups.rst
    M examples/usersguide/mashups.vt

  Log Message:
  -----------
  Merge branch 'v2.1'

Conflicts:
	doc/usersguide/mashups.rst


  Commit: 2f7069316eccd0a9742caf8adb6841d5712bd3ab
      https://github.com/VisTrails/VisTrails/commit/2f7069316eccd0a9742caf8adb6841d5712bd3ab
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-20 (Mon, 20 Oct 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Fixes VisTrails messages hitting the root logger

New IPython version might set up a root logger. Its StreamHandler would
thus handle VisTrails messages alongside our own handlers.


  Commit: 0614299178cd1bcd79a716ee353dfe5588f5e77d
      https://github.com/VisTrails/VisTrails/commit/0614299178cd1bcd79a716ee353dfe5588f5e77d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    M vistrails/gui/collection/vis_log.py

  Log Message:
  -----------
  Fixed "Go to pipeline" in provenance view

gui/collection/vis_log.py:
  - openVersion:
    The method had been moved but not changed to work at the new location.

Ticket: 913


  Commit: 2b36fb21dcb69aa40c11148c021c7caa6ee89923
      https://github.com/VisTrails/VisTrails/commit/2b36fb21dcb69aa40c11148c021c7caa6ee89923
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    M examples/list-handling.vt

  Log Message:
  -----------
  list-handling.py: Updated log version 1.0.4


  Commit: 2aabbeaaf941c9c4817a1c78f5aaf21603a9fd7a
      https://github.com/VisTrails/VisTrails/commit/2aabbeaaf941c9c4817a1c78f5aaf21603a9fd7a
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py

  Log Message:
  -----------
  translateLog: Use the log id_scope and not the global vistrail scope


  Commit: c814111037bc9e865b08624d1597c325e20bc744
      https://github.com/VisTrails/VisTrails/commit/c814111037bc9e865b08624d1597c325e20bc744
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py

  Log Message:
  -----------
  Removes print statement


  Commit: d1fcea8513fbc0c074ca540d7304434540e44694
      https://github.com/VisTrails/VisTrails/commit/d1fcea8513fbc0c074ca540d7304434540e44694
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    A dist/README.md

  Log Message:
  -----------
  Starts improving release procedure

The goal of this branch is to make it easier to build the release
binaries, and if possible completely automate that so buildbot can do
it.


  Commit: 0aacdac990a94e8a46f66dbe58c413d6a6de9a16
      https://github.com/VisTrails/VisTrails/commit/0aacdac990a94e8a46f66dbe58c413d6a6de9a16
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-22 (Wed, 22 Oct 2014)

  Changed paths:
    A dist/pypi.sh

  Log Message:
  -----------
  Adds dist/pypi.sh to build sdist and wheel


  Commit: 344afb5e6d220115ee0e24a0309e4689044f0835
      https://github.com/VisTrails/VisTrails/commit/344afb5e6d220115ee0e24a0309e4689044f0835
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/mac/Input/README
    M dist/mac/Input/VisTrails.command
    M doc/usersguide/mashups.rst
    M examples/usersguide/mashups.vt
    M scripts/mac_update_bin.sh
    M scripts/update_vistrails_command.py
    M vistrails/core/debug.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/controlflow/init.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'buildbot-nightly'


  Commit: 23b5b6a54ba56ae3b965dd241c33b302f2bf1d31
      https://github.com/VisTrails/VisTrails/commit/23b5b6a54ba56ae3b965dd241c33b302f2bf1d31
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/pypi.sh

  Log Message:
  -----------
  Error checking for pypi.sh


  Commit: 1204efc4be40d77feea3d2a97e4cb234844ea88f
      https://github.com/VisTrails/VisTrails/commit/1204efc4be40d77feea3d2a97e4cb234844ea88f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/README.md

  Log Message:
  -----------
  patchelf can now be installed from Conda


  Commit: f574213a432b17462959fbe7eab24f3cdce70cb0
      https://github.com/VisTrails/VisTrails/commit/f574213a432b17462959fbe7eab24f3cdce70cb0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    A dist/conda/conda.sh
    M dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Adds Conda build script


  Commit: a6541f52d89403e9c1daaae3add915e078d04c1f
      https://github.com/VisTrails/VisTrails/commit/a6541f52d89403e9c1daaae3add915e078d04c1f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh

  Log Message:
  -----------
  Error checking for conda.sh


  Commit: 737ef91e6a58e3dc3988fa4814a54c69c3675ee9
      https://github.com/VisTrails/VisTrails/commit/737ef91e6a58e3dc3988fa4814a54c69c3675ee9
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Makes Conda run the full testsuite


  Commit: 804ada05c2d0ac1501258d92fd21522e305b5045
      https://github.com/VisTrails/VisTrails/commit/804ada05c2d0ac1501258d92fd21522e305b5045
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh

  Log Message:
  -----------
  Clears Conda cache


  Commit: d8687d77fcc40a41f1ab84a38059a1cf98836875
      https://github.com/VisTrails/VisTrails/commit/d8687d77fcc40a41f1ab84a38059a1cf98836875
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh
    M dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Uses an absolute URL


  Commit: ff13035e5da5ea12b706ead2c574c533034ca4cd
      https://github.com/VisTrails/VisTrails/commit/ff13035e5da5ea12b706ead2c574c533034ca4cd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Makes sure TestMashupApp runs with the VTK package


  Commit: 146b810eb5401d07b1a334ce2b855e1564183e47
      https://github.com/VisTrails/VisTrails/commit/146b810eb5401d07b1a334ce2b855e1564183e47
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/README.md
    A dist/conda/conda.sh
    M dist/conda/vistrails/meta.yaml
    M vistrails/gui/mashups/mashup_app.py

  Log Message:
  -----------
  Merge branch 'buildbot-nightly_/conda' into 'buildbot-nightly'


  Commit: 8679363df0aa4578a1b53554d9b5fdf1854353bd
      https://github.com/VisTrails/VisTrails/commit/8679363df0aa4578a1b53554d9b5fdf1854353bd
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Fixed ports not being marked as set

We cannot compare with the current module because it is mutable.
This also created problems with updating the inline widgets.

gui/pipeline_view.py:
 - functions_have_been_deleted:
 - moduleFunctionsHaveChanged:
   Compare using stored function names
 - function_changed:
   Update ports
 - update_module_functions:
   Update widget values


  Commit: 12a16ea8607f44b480e34ed3cfe2ca20b5818950
      https://github.com/VisTrails/VisTrails/commit/12a16ea8607f44b480e34ed3cfe2ca20b5818950
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/README.md
    A dist/common/set_version.py
    M dist/pypi.sh

  Log Message:
  -----------
  Automatically sets version number in setup.py


  Commit: 17c0877d987b86a8ba2ebdaa94146216087b26dc
      https://github.com/VisTrails/VisTrails/commit/17c0877d987b86a8ba2ebdaa94146216087b26dc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/common/set_version.py
    M dist/conda/conda.sh

  Log Message:
  -----------
  Fixes getting version


  Commit: 4c4421b76f62681dff775c624e2e26d13946876b
      https://github.com/VisTrails/VisTrails/commit/4c4421b76f62681dff775c624e2e26d13946876b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh

  Log Message:
  -----------
  Fixes mktemp on OS X


  Commit: d953d6784ce878377cbca2c4b7073bb406317013
      https://github.com/VisTrails/VisTrails/commit/d953d6784ce878377cbca2c4b7073bb406317013
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh

  Log Message:
  -----------
  Works around sed -i on OS X


  Commit: a1e4f2c292bccab4b3fbbe49352415e056fd5139
      https://github.com/VisTrails/VisTrails/commit/a1e4f2c292bccab4b3fbbe49352415e056fd5139
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/vistrails/meta.yaml

  Log Message:
  -----------
  Disables image comparison in Conda package

Anaconda has an 'examples' directory, which tricks runtestsuite.py into
thinking that the VisTrails examples are available. There are not, and
so shouldn't be tried.


  Commit: cd48a494b61843f053d2c14a16143dfd42b40d92
      https://github.com/VisTrails/VisTrails/commit/cd48a494b61843f053d2c14a16143dfd42b40d92
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-23 (Thu, 23 Oct 2014)

  Changed paths:
    M dist/conda/conda.sh

  Log Message:
  -----------
  Fixes path to generated package (make it absolute)


  Commit: 9cf0aabed7d698e6342b52abbc68ea9866890770
      https://github.com/VisTrails/VisTrails/commit/9cf0aabed7d698e6342b52abbc68ea9866890770
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-24 (Fri, 24 Oct 2014)

  Changed paths:
    R vistrails/packages/JobSubmission/__init__.py
    R vistrails/packages/JobSubmission/common_definitions.py
    R vistrails/packages/JobSubmission/init.py
    R vistrails/packages/JobSubmission/machine.py

  Log Message:
  -----------
  Removed package JobSubmission


  Commit: ebc1f060f5dc8110a2e3e4637eca2a5384b34a44
      https://github.com/VisTrails/VisTrails/commit/ebc1f060f5dc8110a2e3e4637eca2a5384b34a44
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-24 (Fri, 24 Oct 2014)

  Changed paths:
    M vistrails/core/modules/module_registry.py

  Log Message:
  -----------
  Fixed get_module_package not working on dynamic packages

core/modules/module_registry.py:
  - get_module_package:
    prefix and codepath can be None for dynamic packages


  Commit: cf9646962a39adb8abb44846b39af28d3f2ad9ed
      https://github.com/VisTrails/VisTrails/commit/cf9646962a39adb8abb44846b39af28d3f2ad9ed
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-24 (Fri, 24 Oct 2014)

  Changed paths:
    A examples-internal/EMBOSS_webservices.vt
    A examples-internal/KEGGPathway.vt
    A examples-internal/KEGG_SearchEntities_webservice.vt
    A examples-internal/KEGG_webservices.vt
    R examples/EMBOSS_webservices.vt
    R examples/KEGGPathway.vt
    R examples/KEGG_SearchEntities_webservice.vt
    R examples/KEGG_webservices.vt

  Log Message:
  -----------
  Moved non-working Web Service examples to examples-internal


  Commit: 3b359b736602106169d88d9f370d449e9313508c
      https://github.com/VisTrails/VisTrails/commit/3b359b736602106169d88d9f370d449e9313508c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-24 (Fri, 24 Oct 2014)

  Changed paths:
    M examples/chebi_webservice.vt

  Log Message:
  -----------
  chebi_webservice.vt: Use List and not Module when connecting to List.

Module type now have list depth 0, so it cannot take a List.


  Commit: 145ae3c7768bd04c86516aad4bed46a7edd5edc0
      https://github.com/VisTrails/VisTrails/commit/145ae3c7768bd04c86516aad4bed46a7edd5edc0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/README.md
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh

  Log Message:
  -----------
  Removed dist/ubuntu scripts


  Commit: 5b5221e83c6177a79ee2ceac9e8bc2e8c8eeecb9
      https://github.com/VisTrails/VisTrails/commit/5b5221e83c6177a79ee2ceac9e8bc2e8c8eeecb9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    A CHANGELOG
    M dist/README.md
    A dist/common/prepare_release.py
    M dist/mac/Input/README
    M dist/windows/Input/releaseNotes.txt
    M scripts/create_release_wiki_table.py
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  CHANGELOG: *new
  Please keep up-to-date with changes since previous release.

README.md: Added prepare_release.py instructions

dist/prepare_release.py: *new
  Uses CHANGELOG to auto-generate version,hash,branch and copies
  release notes to mac and win binaries.

dist/mac/Input/README:
  Updated from changelog.
  Removed installation instructions.

dist/windows/Input/releaseNotes.txt:
  Updated from changelog.

scripts/create_release_wiki_table.py:
  Updated branch

vistrails/core/system/__init__.py:
 New globals VERSION and REVISION that makes it easier to auto-generate them


  Commit: 537df66b390b6bcebbf9af0f5bb558dec7ce48ba
      https://github.com/VisTrails/VisTrails/commit/537df66b390b6bcebbf9af0f5bb558dec7ce48ba
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/README.md
    M dist/common/prepare_release.py

  Log Message:
  -----------
  Auto-generate splash screen

dist/README.md:
  Added inkscape dependency

dist/common/prepare_release.py:
  Update version in splash svg and call inkscape to generate png


  Commit: 6f7b1d050694cf5121d0d5056e9525b4adfaf644
      https://github.com/VisTrails/VisTrails/commit/6f7b1d050694cf5121d0d5056e9525b4adfaf644
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py

  Log Message:
  -----------
  Changes CWD in prepare_release.py


  Commit: 213dd59c88aa3ae4736bdbf1baa4acb681a4def7
      https://github.com/VisTrails/VisTrails/commit/213dd59c88aa3ae4736bdbf1baa4acb681a4def7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py
    R dist/mac/Input/README
    M dist/mac/make_app
    M dist/mac/make_app_itk

  Log Message:
  -----------
  Removes mac/Input/README


  Commit: 8cb9ecf760f45f9b7bc5b4df42e6bb108358566d
      https://github.com/VisTrails/VisTrails/commit/8cb9ecf760f45f9b7bc5b4df42e6bb108358566d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py
    R dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Removes windows/Input/releaseNote.txt


  Commit: 1725ba87255d290174c54f88a0a4db9d29e5dcf8
      https://github.com/VisTrails/VisTrails/commit/1725ba87255d290174c54f88a0a4db9d29e5dcf8
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py

  Log Message:
  -----------
  Removes code copying CHANGELOG file


  Commit: 879b462496e0c3ed27fd44121c49592cb8e1e76e
      https://github.com/VisTrails/VisTrails/commit/879b462496e0c3ed27fd44121c49592cb8e1e76e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M LICENSE
    R dist/windows/Input/license.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Removes windows/Input/license.txt


  Commit: b5c4fd8c7fa2fe7c45ddae4da3f07512a26de193
      https://github.com/VisTrails/VisTrails/commit/b5c4fd8c7fa2fe7c45ddae4da3f07512a26de193
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    R dist/mac/make_app_itk

  Log Message:
  -----------
  Removes make_app_itk


  Commit: 8ec0baaf1e2553f58c447925e9ce33d240d854a1
      https://github.com/VisTrails/VisTrails/commit/8ec0baaf1e2553f58c447925e9ce33d240d854a1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/mac/make_app

  Log Message:
  -----------
  Makes make_app use the correct CWD


  Commit: 5a07ed5eeab0d4e03887921e4d5c44def3c36ef5
      https://github.com/VisTrails/VisTrails/commit/5a07ed5eeab0d4e03887921e4d5c44def3c36ef5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M vistrails/core/interpreter/cached.py
    M vistrails/core/vistrail/job.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/module_options.py

  Log Message:
  -----------
  Removes some scary str() calls


  Commit: d76a9fdbc640475fc70f2b1d0c9a9cb44643cfae
      https://github.com/VisTrails/VisTrails/commit/d76a9fdbc640475fc70f2b1d0c9a9cb44643cfae
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M vistrails/core/configuration.py
    M vistrails/core/modules/config.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Removes __magic__ methods


  Commit: 9f28d8b2c61fcc3ee78a872af1240390242928dc
      https://github.com/VisTrails/VisTrails/commit/9f28d8b2c61fcc3ee78a872af1240390242928dc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-27 (Mon, 27 Oct 2014)

  Changed paths:
    M dist/mac/make_app
    R dist/windows/Input/download_usersguide.py
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    A scripts/download_usersguide.py

  Log Message:
  -----------
  Download users guide when building mac binary

This way we do not have to build it for each distribution
Todo how to set corect url to usersguide automatically. For master it is "dev".

dist/windows/Input/download_usersguide.py -> scripts/download_usersguide.py
  Save file to first argument

dist/mac/make_app:
  Download instead of building usersguide

dist/windows/custom/vistrails-gdal.iss:
dist/windows/custom/vistrailsx64-gdal.iss:
dist/windows/vistrails.iss:
dist/windows/vistrailsx64.iss:
  Use new path to download_usersguide.py


  Commit: e320fa8e08a650927013f52b53c4ffc0c27aa4d6
      https://github.com/VisTrails/VisTrails/commit/e320fa8e08a650927013f52b53c4ffc0c27aa4d6
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-28 (Tue, 28 Oct 2014)

  Changed paths:
    R scripts/update_hash.py

  Log Message:
  -----------
  Deleted scripts/update_hash.py


  Commit: 06e8235834480a6c18d1bb81b1479a94bb3b2eac
      https://github.com/VisTrails/VisTrails/commit/06e8235834480a6c18d1bb81b1479a94bb3b2eac
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-29 (Wed, 29 Oct 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Fixes types in vistrails_module.py doc

Fixes 241a7700. PyCharm no longers highlight every parameter passed to
these Module methods.


  Commit: cccb5ef2e1e17dca8e903347e650c5b8738da842
      https://github.com/VisTrails/VisTrails/commit/cccb5ef2e1e17dca8e903347e650c5b8738da842
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-29 (Wed, 29 Oct 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  Fixes JobMixin method names


  Commit: 35d5752a3f2371c3df862a7af96e5a727d2da759
      https://github.com/VisTrails/VisTrails/commit/35d5752a3f2371c3df862a7af96e5a727d2da759
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-30 (Thu, 30 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py
    M dist/mac/make_app
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    M scripts/build_usersguide.py
    R scripts/download_usersguide.py
    A scripts/get_usersguide.py

  Log Message:
  -----------
  Build usersguide when possible

For Win and Mac build, and download as a fallback.

dist/common/prepare_release.py:
  Set 'dev' as path in scripts/get_usersguide.py

dist/mac/make_app:
  Call get_usersguide so that it tries to build if possible

scripts/build_usersguide.py:
  Accept Path to store pdf as argument and build pdf only by default
  Fixed pdflatex hanging

scripts/download_usersguide.py -> ../../scripts/get_usersguide.py:
  Build if possible before trying to download

Changed download_usersguide -> get_usersguide:
  dist/windows/custom/vistrails-gdal.iss
  dist/windows/custom/vistrailsx64-gdal.iss
  dist/windows/vistrails.iss
  dist/windows/vistrailsx64.iss


  Commit: ec6e13d7dd6517c4a2375eb4a3d0221214932198
      https://github.com/VisTrails/VisTrails/commit/ec6e13d7dd6517c4a2375eb4a3d0221214932198
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-30 (Thu, 30 Oct 2014)

  Changed paths:
    M dist/common/prepare_release.py

  Log Message:
  -----------
  prepare_release: Update hash in CHANGELOG if in a git repository


  Commit: 09db33daa78a005a179a9ce76486060fff8b8413
      https://github.com/VisTrails/VisTrails/commit/09db33daa78a005a179a9ce76486060fff8b8413
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-10-30 (Thu, 30 Oct 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Makes AssertEqual print reprs


  Commit: ec285c0e75c14e64b101f46e22368cd5453c6236
      https://github.com/VisTrails/VisTrails/commit/ec285c0e75c14e64b101f46e22368cd5453c6236
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-31 (Fri, 31 Oct 2014)

  Changed paths:
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Fixes error handling when job-check fails

gui/job_monitor.py:
 - update_jobs:
   Fixes call to debug.critical
 - timerEvent:
   Set updating_now in try/finally block so that it always gets called

Ref #27


  Commit: 9c42597043f6521057887029b8d2b5db452c8644
      https://github.com/VisTrails/VisTrails/commit/9c42597043f6521057887029b8d2b5db452c8644
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-31 (Fri, 31 Oct 2014)

  Changed paths:
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Mark controller changed when deleting job

gui/job_monitor.py:
 - keyPressEvent:
   Call .controller.set_changed(True)


  Commit: 05cfde54c33260b6a3795372b3cca930f7c06370
      https://github.com/VisTrails/VisTrails/commit/05cfde54c33260b6a3795372b3cca930f7c06370
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-31 (Fri, 31 Oct 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Fixed precompile in windows build scripts

dist/windows/vistrails.iss
dist/windows/vistrailsx64.iss
dist/windows/custom/vistrails-gdal.iss
dist/windows/custom/vistrailsx64-gdal.iss


  Commit: 8e929309f2797c8cbc0e81743e4422770e537e2d
      https://github.com/VisTrails/VisTrails/commit/8e929309f2797c8cbc0e81743e4422770e537e2d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-10-31 (Fri, 31 Oct 2014)

  Changed paths:
    M dist/mac/make_app

  Log Message:
  -----------
  Fixed copying README and LICENCE in mac binary script


  Commit: eb0eb4afb7ecf5c355f56fc45c6bc78f609fde52
      https://github.com/VisTrails/VisTrails/commit/eb0eb4afb7ecf5c355f56fc45c6bc78f609fde52
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-03 (Mon, 03 Nov 2014)

  Changed paths:
    A dist/source/make-vistrails-src-build.py
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py

  Log Message:
  -----------
  Updated source build script to be runnable by a buildbot

Removed archiving, git checkout/exporting, and hash/changelog generation.

The script now uses the existing git tree. You need to use 'git clean' and
run dist/common/prepare_release.py to get a clean and up-to-date tar file.

It will upload to sourceforge as nightly if username and keydir is provided.

It can do a release build by copying the resulting tar file, or by
modifying the script to upload to a new binary location.


  Commit: 71657f3ab2c0b15a4872f0fe414301a13cf3d032
      https://github.com/VisTrails/VisTrails/commit/71657f3ab2c0b15a4872f0fe414301a13cf3d032
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    A dist/windows/update_alps.py
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Download alps files automatically in windows builds

Except that right now the file path needs to be updated when
there is a new version of ALPS, since we want to use the latest beta.

dist/windows/update_alps.py: *new
  Downloads and unzips alps given a file name and destination path

Updated build scripts to call the alps update script:
  dist/windows/custom/vistrails-gdal.iss
  dist/windows/custom/vistrailsx64-gdal.iss
  dist/windows/vistrails.iss
  dist/windows/vistrailsx64.iss


  Commit: 9b629e058cb9fe3141dcf01c5eebee220758af3d
      https://github.com/VisTrails/VisTrails/commit/9b629e058cb9fe3141dcf01c5eebee220758af3d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Use system python dll in win build scripts


  Commit: ebf41e3e0c9e13e7bc237dd83bb797cdeaf2428d
      https://github.com/VisTrails/VisTrails/commit/ebf41e3e0c9e13e7bc237dd83bb797cdeaf2428d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Copy redist installers from user vistrails home directory


  Commit: 8b26a482aaeaf2b51b58c913699e3be812bde4e4
      https://github.com/VisTrails/VisTrails/commit/8b26a482aaeaf2b51b58c913699e3be812bde4e4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Adds debug.print_exc()

traceback.print_exc() prints the frames from the catching point to the
raising point. This new function prints frames above the catching point
as well.


  Commit: c7204663ce680cb9933cc65f4ab9e9bc4f931464
      https://github.com/VisTrails/VisTrails/commit/c7204663ce680cb9933cc65f4ab9e9bc4f931464
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  print_exc() refactoring: adds format_exc()


  Commit: c0cfecb6072304096136c30d09210f6eccf2bd2b
      https://github.com/VisTrails/VisTrails/commit/c0cfecb6072304096136c30d09210f6eccf2bd2b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M vistrails/core/debug.py

  Log Message:
  -----------
  Makes unexpected_exception() use print_exception()


  Commit: 0008c413e5f209ec6b7095362cebb722c709d612
      https://github.com/VisTrails/VisTrails/commit/0008c413e5f209ec6b7095362cebb722c709d612
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/console_mode.py
    M vistrails/core/vistrail/controller.py
    M vistrails/db/services/io.py
    M vistrails/db/versions/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Changes calls to traceback to calls to debug

When a full traceback is required, use debug.print_exc() and
debug.format_exc() instead of traceback functions.


  Commit: 2d6d4c4a4bf89b828c931e070ed6db2817a78c79
      https://github.com/VisTrails/VisTrails/commit/2d6d4c4a4bf89b828c931e070ed6db2817a78c79
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-04 (Tue, 04 Nov 2014)

  Changed paths:
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako

  Log Message:
  -----------
  Removes deprecated setResult() calls in matplotlib


  Commit: 31f1f9fbd0eec365ed328b5e860cb5ead701bd80
      https://github.com/VisTrails/VisTrails/commit/31f1f9fbd0eec365ed328b5e860cb5ead701bd80
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-05 (Wed, 05 Nov 2014)

  Changed paths:
    M doc/dist/setup_build_system_windows.txt

  Log Message:
  -----------
  Updated python dll and vcredist documentation


  Commit: b05de713ee61164c566d8fdefefcf00cb6b635b7
      https://github.com/VisTrails/VisTrails/commit/b05de713ee61164c566d8fdefefcf00cb6b635b7
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-05 (Wed, 05 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Fixed DestName property in windows build scripts


  Commit: de0888d9bf5ce5fe54760ab1573083af407a7722
      https://github.com/VisTrails/VisTrails/commit/de0888d9bf5ce5fe54760ab1573083af407a7722
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M dist/common/prepare_release.py

  Log Message:
  -----------
  dist/common/prepare_release.py: Updated source build filename


  Commit: 15297b08d687bd01632cbb39dbaaf8a73e9c2ce9
      https://github.com/VisTrails/VisTrails/commit/15297b08d687bd01632cbb39dbaaf8a73e9c2ce9
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Use inno setup preprocessor to run scripts

Before they used the [PreCompile] section, which is not executed by the
command line compiler.


  Commit: af1c2d09c9419d9ebc67199c5b200d1b1491cb89
      https://github.com/VisTrails/VisTrails/commit/af1c2d09c9419d9ebc67199c5b200d1b1491cb89
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M dist/windows/update_alps.py

  Log Message:
  -----------
  update_alps.py: handle script without dir specified


  Commit: 1a8c14b9220861ec512fd26aea910e09cf780440
      https://github.com/VisTrails/VisTrails/commit/1a8c14b9220861ec512fd26aea910e09cf780440
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Fixed using 64bit alps in win build scripts


  Commit: 6364eff8ee476a50fda413c44c3595f9aceed3f0
      https://github.com/VisTrails/VisTrails/commit/6364eff8ee476a50fda413c44c3595f9aceed3f0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Use quiet flag when calling compileall


  Commit: 4fd2885dc3a54b54a4562c86dbbf186eebcc74ec
      https://github.com/VisTrails/VisTrails/commit/4fd2885dc3a54b54a4562c86dbbf186eebcc74ec
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py

  Log Message:
  -----------
  Fixes CLTools not setting stdout/stderr if empty

Returning None instead of a file breaks type safety and will make
pipeline fails.


  Commit: a4866b4ea014693f358cdaea2211868fefe45ae5
      https://github.com/VisTrails/VisTrails/commit/a4866b4ea014693f358cdaea2211868fefe45ae5
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'

Conflicts:
	vistrails/core/debug.py


  Commit: 57250143345da5fd4b1557759818b1d4a4ba38b3
      https://github.com/VisTrails/VisTrails/commit/57250143345da5fd4b1557759818b1d4a4ba38b3
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/gui/application.py

  Log Message:
  -----------
  Fixes code issues in gui.application

Still missing VistrailController import.


  Commit: 61af793796c6dae42bf208647680a4bd374e5e24
      https://github.com/VisTrails/VisTrails/commit/61af793796c6dae42bf208647680a4bd374e5e24
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-06 (Thu, 06 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py

  Log Message:
  -----------
  Adds context menu to reload CLTools modules


  Commit: 41eb2e32883ab7df66066b03c02dfa0557e3623e
      https://github.com/VisTrails/VisTrails/commit/41eb2e32883ab7df66066b03c02dfa0557e3623e
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-07 (Fri, 07 Nov 2014)

  Changed paths:
    M dist/mac/make_app

  Log Message:
  -----------
  make_app: Run prepare_release and updated ALPS


  Commit: 7b6600cdbd2416509ad80bc380b5a6bfa75abef5
      https://github.com/VisTrails/VisTrails/commit/7b6600cdbd2416509ad80bc380b5a6bfa75abef5
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-07 (Fri, 07 Nov 2014)

  Changed paths:
    M dist/source/make-vistrails-src-build.py

  Log Message:
  -----------
  Run prepare_release in source build


  Commit: fd7dbacaab14ad7bbc0ac2cb78d5a155f6e3396c
      https://github.com/VisTrails/VisTrails/commit/fd7dbacaab14ad7bbc0ac2cb78d5a155f6e3396c
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-07 (Fri, 07 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Updated paths in win gdal scripts


  Commit: b5492fb19ad23e6a1f87ef4b347ce6cd65acc233
      https://github.com/VisTrails/VisTrails/commit/b5492fb19ad23e6a1f87ef4b347ce6cd65acc233
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-07 (Fri, 07 Nov 2014)

  Changed paths:
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss

  Log Message:
  -----------
  Updated alps paths in win gdal scripts


  Commit: 43bd26730c9f9da1dc302e5c00c939ac5d1bf090
      https://github.com/VisTrails/VisTrails/commit/43bd26730c9f9da1dc302e5c00c939ac5d1bf090
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-07 (Fri, 07 Nov 2014)

  Changed paths:
    M vistrails/gui/application.py

  Log Message:
  -----------
  Adds missing import in gui.application


  Commit: 8c5402897c11a90cfd55aa11e208c3856d261209
      https://github.com/VisTrails/VisTrails/commit/8c5402897c11a90cfd55aa11e208c3856d261209
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-10 (Mon, 10 Nov 2014)

  Changed paths:
    M dist/mac/make_app

  Log Message:
  -----------
  Fixed typo in mac binary script


  Commit: 40216e21119646e433f6d3e57866dcb40091bcb8
      https://github.com/VisTrails/VisTrails/commit/40216e21119646e433f6d3e57866dcb40091bcb8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-10 (Mon, 10 Nov 2014)

  Changed paths:
    M scripts/build_usersguide.py

  Log Message:
  -----------
  Fixed usersguide build script


  Commit: 117f8c0f002b8ad367cb1cb66ea82a4350515f16
      https://github.com/VisTrails/VisTrails/commit/117f8c0f002b8ad367cb1cb66ea82a4350515f16
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-10 (Mon, 10 Nov 2014)

  Changed paths:
    M dist/windows/update_alps.py

  Log Message:
  -----------
  update_alps.py: Handle relative path


  Commit: b1492f867fee237562e515b2e6c7fff6bb0973fb
      https://github.com/VisTrails/VisTrails/commit/b1492f867fee237562e515b2e6c7fff6bb0973fb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-10 (Mon, 10 Nov 2014)

  Changed paths:
    M doc/usersguide/batch.rst
    M doc/usersguide/conf.py
    M doc/usersguide/example.rst
    A doc/usersguide/figures/edit_widgets/edit-widget.png
    A doc/usersguide/figures/edit_widgets/edit-widgets.png
    A doc/usersguide/figures/edit_widgets/enabling-edit-widgets.png
    M doc/usersguide/mashups.rst
    A doc/usersguide/parameter_widgets.rst
    A doc/usersguide/vtl/parameter_widgets.vtl
    A examples-internal/EMBOSS_webservices.vt
    A examples-internal/KEGGPathway.vt
    A examples-internal/KEGG_SearchEntities_webservice.vt
    A examples-internal/KEGG_webservices.vt
    R examples/EMBOSS_webservices.vt
    R examples/KEGGPathway.vt
    R examples/KEGG_SearchEntities_webservice.vt
    R examples/KEGG_webservices.vt
    M examples/chebi_webservice.vt
    M examples/list-handling.vt
    M examples/terminator.vt
    M examples/usersguide/mashups.vt
    M requirements.txt
    M scripts/delete_from_db.py
    M scripts/diff_package.py
    M scripts/dist/mac/Input/README
    M scripts/dist/mac/Input/VisTrails.command
    M scripts/extract.py
    M scripts/generate_pkg_doc.py
    M scripts/mac_update_bin.sh
    M scripts/merge_vistrails.py
    M scripts/sql_delete.py
    M scripts/sql_to_xml.py
    M scripts/start_vistrails.sh
    M scripts/start_vistrails_xvfb.sh
    M scripts/update_db.py
    M scripts/update_vistrails_command.py
    M scripts/watch_vistrail_servers.py
    M vistrails/core/analogy/__init__.py
    M vistrails/core/application.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/interpreter/cached.py
    R vistrails/core/interpreter/job.py
    M vistrails/core/interpreter/noncached.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/query/__init__.py
    M vistrails/core/query/visual.py
    M vistrails/core/requirements.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/theme.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/color.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    A vistrails/core/vistrail/job.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/db/services/locator.py
    M vistrails/db/versions/v1_0_3/translate/v1_0_2.py
    M vistrails/db/versions/v1_0_4/translate/v1_0_3.py
    M vistrails/gui/application.py
    M vistrails/gui/application_server.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/vis_log.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/common_widgets.py
    M vistrails/gui/configuration.py
    M vistrails/gui/controlflow_assist.py
    M vistrails/gui/debugger.py
    M vistrails/gui/graphics_view.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/module_annotation.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_info.py
    R vistrails/gui/module_iteration.py
    A vistrails/gui/module_options.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/constant_configuration.py
    M vistrails/gui/modules/output_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    A vistrails/gui/resources/images/pencil-disabled.png
    A vistrails/gui/resources/images/pencil.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_variables.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/CLTools/init.py
    R vistrails/packages/JobSubmission/__init__.py
    R vistrails/packages/JobSubmission/common_definitions.py
    R vistrails/packages/JobSubmission/init.py
    R vistrails/packages/JobSubmission/machine.py
    M vistrails/packages/RemoteQ/__init__.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    M vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/gmaps/init.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/write/__init__.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/vtk/vtkviewcell.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into 'future_imports'

Conflicts:
	vistrails/core/interpreter/noncached.py
	vistrails/gui/application.py
	vistrails/gui/job_monitor.py
	vistrails/packages/JobSubmission/__init__.py
	vistrails/packages/JobSubmission/common_definitions.py
	vistrails/packages/JobSubmission/init.py
	vistrails/packages/JobSubmission/machine.py
	vistrails/packages/RemoteQ/hdfs.py
	vistrails/packages/RemoteQ/streaming.py
	vistrails/packages/analytics/init.py


  Commit: 0f168d85e7eb4630aa5c604a0075601f8f105bdf
      https://github.com/VisTrails/VisTrails/commit/0f168d85e7eb4630aa5c604a0075601f8f105bdf
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-10 (Mon, 10 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Updated dist/README.md


  Commit: 29c4db771021b3d69e7f28549b5ac6fd8883cae0
      https://github.com/VisTrails/VisTrails/commit/29c4db771021b3d69e7f28549b5ac6fd8883cae0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md
    R doc/dist/instructions.txt

  Log Message:
  -----------
  Updated dist README and removed old instructions


  Commit: dada992ac8cc73b12e872f6190c2c1be00793f84
      https://github.com/VisTrails/VisTrails/commit/dada992ac8cc73b12e872f6190c2c1be00793f84
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/source/make-vistrails-src-build.py

  Log Message:
  -----------
  Fixed nightly upload to sourceforge script


  Commit: de4572e2798814c4677a1e3ee6d620802dbe3ac0
      https://github.com/VisTrails/VisTrails/commit/de4572e2798814c4677a1e3ee6d620802dbe3ac0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    A CHANGELOG
    A LICENSE
    M README.md
    A Vagrantfile
    A dist/README.md
    A dist/common/prepare_release.py
    A dist/common/set_version.py
    A dist/conda/README.md
    A dist/conda/conda.sh
    A dist/conda/vistrails/bld.bat
    A dist/conda/vistrails/build.sh
    A dist/conda/vistrails/meta.yaml
    R dist/mac/Input/README
    M dist/mac/make_app
    R dist/mac/make_app_itk
    A dist/pypi.sh
    A dist/source/make-vistrails-src-build.py
    R dist/source/make-vistrails-src-nightly.py
    R dist/source/make-vistrails-src-release.py
    R dist/ubuntu/_debian/control
    R dist/ubuntu/_debian/copyright
    R dist/ubuntu/create_debian_pkg.sh
    R dist/windows/Input/download_usersguide.py
    R dist/windows/Input/license.txt
    R dist/windows/Input/releaseNotes.txt
    M dist/windows/custom/vistrails-gdal.iss
    M dist/windows/custom/vistrailsx64-gdal.iss
    A dist/windows/update_alps.py
    M dist/windows/vistrails.iss
    M dist/windows/vistrailsx64.iss
    R doc/dist/instructions.txt
    M doc/dist/setup_build_system_windows.txt
    A requirements.txt
    M scripts/build_usersguide.py
    M scripts/create_release_wiki_table.py
    A scripts/get_usersguide.py
    R scripts/update_hash.py
    A setup.py
    M vistrails/core/modules/package.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/run.py
    A vistrails/tests/__main__.py
    M vistrails/tests/runtestsuite.py

  Log Message:
  -----------
  Merge branch 'buildbot-nightly' into v2.1


  Commit: b5341fe97287be5038fdc7a5956e629d11afb6b0
      https://github.com/VisTrails/VisTrails/commit/b5341fe97287be5038fdc7a5956e629d11afb6b0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M .gitignore
    A .travis.yml
    M README.md
    M Vagrantfile
    M contrib/NumSciPy/ArrayAccess.py
    M contrib/NumSciPy/ArrayConvert.py
    M contrib/NumSciPy/ArrayIO.py
    M contrib/NumSciPy/ArrayInterpolate.py
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    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/mashups/mashups_manager.py
    M vistrails/gui/mashups/mashups_widgets.py
    M vistrails/gui/merge_gui.py
    M vistrails/gui/module_annotation.py
    M vistrails/gui/module_configuration.py
    M vistrails/gui/module_documentation.py
    M vistrails/gui/module_info.py
    A vistrails/gui/module_options.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/__init__.py
    M vistrails/gui/modules/constant_configuration.py
    A vistrails/gui/modules/output_configuration.py
    M vistrails/gui/modules/paramexplore.py
    A vistrails/gui/modules/resources/colorconfig.qrc
    M vistrails/gui/modules/resources/colorconfig_rc.py
    A vistrails/gui/modules/resources/colorwheel.png
    M vistrails/gui/modules/source_configure.py
    M vistrails/gui/modules/tuple_configuration.py
    A vistrails/gui/modules/utils.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/param_view.py
    M vistrails/gui/paramexplore/pe_inspector.py
    M vistrails/gui/paramexplore/pe_pipeline.py
    M vistrails/gui/paramexplore/pe_tab.py
    M vistrails/gui/paramexplore/pe_table.py
    M vistrails/gui/paramexplore/virtual_cell.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/pipeline_view_select.py
    M vistrails/gui/ports_pane.py
    M vistrails/gui/preferences.py
    M vistrails/gui/publishing.py
    M vistrails/gui/qt.py
    M vistrails/gui/query_view.py
    M vistrails/gui/repository.py
    R vistrails/gui/resources/images/camera.png
    A vistrails/gui/resources/images/eye_closed.png
    A vistrails/gui/resources/images/pencil-disabled.png
    A vistrails/gui/resources/images/pencil.png
    M vistrails/gui/resources/images/vistrails_splash.png
    M vistrails/gui/shell.py
    M vistrails/gui/theme.py
    M vistrails/gui/utils.py
    M vistrails/gui/variable_dropbox.py
    M vistrails/gui/version_prop.py
    M vistrails/gui/version_view.py
    R vistrails/gui/view_manager.py
    M vistrails/gui/vis_diff.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_variables.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/test_files/test_script_1.py
    M vistrails/packages/CLTools/wizard.py
    R vistrails/packages/HTTP/__init__.py
    R vistrails/packages/HTTP/http_directory.py
    R vistrails/packages/HTTP/init.py
    M vistrails/packages/ImageMagick/init.py
    R vistrails/packages/JobSubmission/__init__.py
    R vistrails/packages/JobSubmission/common_definitions.py
    R vistrails/packages/JobSubmission/init.py
    R vistrails/packages/JobSubmission/machine.py
    A vistrails/packages/RemoteQ/README
    A vistrails/packages/RemoteQ/__init__.py
    A vistrails/packages/RemoteQ/base.py
    A vistrails/packages/RemoteQ/hdfs.py
    A vistrails/packages/RemoteQ/init.py
    A vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/SUDSWebServices/init.py
    A vistrails/packages/URL/__init__.py
    A vistrails/packages/URL/http_directory.py
    A vistrails/packages/URL/https.py
    A vistrails/packages/URL/https_if_available.py
    A vistrails/packages/URL/identifiers.py
    A vistrails/packages/URL/init.py
    M vistrails/packages/analytics/init.py
    M vistrails/packages/controlflow/conditional.py
    M vistrails/packages/controlflow/fold.py
    M vistrails/packages/controlflow/looping.py
    M vistrails/packages/controlflow/order.py
    M vistrails/packages/controlflow/products.py
    M vistrails/packages/controlflow/utils.py
    M vistrails/packages/dialogs/continue_prompt.py
    M vistrails/packages/dialogs/init.py
    A vistrails/packages/gmaps/__init__.py
    A vistrails/packages/gmaps/gmap_cell.py
    A vistrails/packages/gmaps/identifiers.py
    A vistrails/packages/gmaps/init.py
    A vistrails/packages/gmaps/utils.py
    A vistrails/packages/gmaps/vis.py
    M vistrails/packages/matplotlib/artists.py
    M vistrails/packages/matplotlib/artists_template.py.mako
    M vistrails/packages/matplotlib/bases.py
    M vistrails/packages/matplotlib/diff.py
    M vistrails/packages/matplotlib/figure_cell.py
    M vistrails/packages/matplotlib/generate.py
    M vistrails/packages/matplotlib/identifiers.py
    M vistrails/packages/matplotlib/init.py
    M vistrails/packages/matplotlib/mixins.py
    M vistrails/packages/matplotlib/mpl_artists.xml
    M vistrails/packages/matplotlib/mpl_artists_diff.xml
    M vistrails/packages/matplotlib/mpl_plots.xml
    M vistrails/packages/matplotlib/mpl_plots_diff.xml
    M vistrails/packages/matplotlib/mpl_plots_raw.xml
    R vistrails/packages/matplotlib/object.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/matplotlib/plots.py
    M vistrails/packages/matplotlib/plots_template.py.mako
    M vistrails/packages/matplotlib/specs.py
    M vistrails/packages/matplotlib/update.py
    M vistrails/packages/parallelflow/engine_manager.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/persistence/init.py
    M vistrails/packages/persistence/repo.py
    M vistrails/packages/persistence/widgets.py
    M vistrails/packages/pythonCalc/__init__.py
    M vistrails/packages/pythonCalc/init.py
    M vistrails/packages/pythonCalcQt/init.py
    M vistrails/packages/qgis/init.py
    M vistrails/packages/rpy/init.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    A vistrails/packages/spreadsheet/cell.qrc
    M vistrails/packages/spreadsheet/cell_rc.py
    A vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    M vistrails/packages/spreadsheet/identifiers.py
    A vistrails/packages/spreadsheet/images/apply_analogy.png
    A vistrails/packages/spreadsheet/images/back.png
    A vistrails/packages/spreadsheet/images/camera.png
    A vistrails/packages/spreadsheet/images/camera_mount.png
    A vistrails/packages/spreadsheet/images/copy_cell.png
    A vistrails/packages/spreadsheet/images/create_analogy.png
    A vistrails/packages/spreadsheet/images/delete.png
    A vistrails/packages/spreadsheet/images/deletesheet.png
    A vistrails/packages/spreadsheet/images/fittowindow.png
    A vistrails/packages/spreadsheet/images/forward.png
    A vistrails/packages/spreadsheet/images/locate.png
    A vistrails/packages/spreadsheet/images/move_cell.png
    A vistrails/packages/spreadsheet/images/newsheet.png
    A vistrails/packages/spreadsheet/images/noatunloopsong.png
    A vistrails/packages/spreadsheet/images/ok.png
    A vistrails/packages/spreadsheet/images/open.png
    A vistrails/packages/spreadsheet/images/player_eject.png
    A vistrails/packages/spreadsheet/images/player_pause.png
    A vistrails/packages/spreadsheet/images/player_play.png
    A vistrails/packages/spreadsheet/images/save.png
    A vistrails/packages/spreadsheet/images/saveas.png
    A vistrails/packages/spreadsheet/images/update.png
    M vistrails/packages/spreadsheet/init.py
    A vistrails/packages/spreadsheet/spreadsheet.qrc
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_rc.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/iebrowser/iecell.py
    M vistrails/packages/spreadsheet/widgets/imageviewer/__init__.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/fittocell.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/flip.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/rotate.png
    A vistrails/packages/spreadsheet/widgets/imageviewer/images/save.png
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.py
    A vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer.qrc
    M vistrails/packages/spreadsheet/widgets/imageviewer/imageviewer_rc.py
    M vistrails/packages/spreadsheet/widgets/richtext/richtext.py
    M vistrails/packages/spreadsheet/widgets/svg/svg.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/sql/__init__.py
    M vistrails/packages/sql/init.py
    A vistrails/packages/sql/widgets.py
    M vistrails/packages/tabledata/__init__.py
    M vistrails/packages/tabledata/common.py
    M vistrails/packages/tabledata/convert/convert_dates.py
    M vistrails/packages/tabledata/identifiers.py
    M vistrails/packages/tabledata/init.py
    A vistrails/packages/tabledata/operations.py
    M vistrails/packages/tabledata/read/__init__.py
    M vistrails/packages/tabledata/read/read_csv.py
    A vistrails/packages/tabledata/read/read_excel.py
    A vistrails/packages/tabledata/read/read_json.py
    M vistrails/packages/tabledata/read/read_numpy.py
    A vistrails/packages/tabledata/test_files/xl.xls
    M vistrails/packages/tabledata/viewer.py
    A vistrails/packages/tabledata/widgets.py
    A vistrails/packages/tabledata/write/__init__.py
    A vistrails/packages/tabledata/write/write_csv.py
    A vistrails/packages/tabledata/write/write_excel.py
    A vistrails/packages/tabledata/write/write_numpy.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/identifiers.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/inspectors.py
    M vistrails/packages/vtk/offscreen.py
    M vistrails/packages/vtk/tf_widget.py
    M vistrails/packages/vtk/vtk_parser.py
    M vistrails/packages/vtk/vtkcell.py
    R vistrails/packages/vtk/vtkcell_rc.py
    M vistrails/packages/vtk/vtkhandler.py
    M vistrails/packages/vtk/vtkviewcell.py
    A vistrails/packages/vtk/wrapper.py
    M vistrails/packages/vtlcreator/init.py
    M vistrails/packages/webServices/enumeration_widget.py
    M vistrails/packages/webServices/init.py
    M vistrails/run.py
    M vistrails/tests/__init__.py
    M vistrails/tests/__main__.py
    M vistrails/tests/resources/console_mode_test.py
    M vistrails/tests/resources/import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/__init__.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/init.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module1.py
    M vistrails/tests/resources/import_pkg/test_import_pkg/module2.py
    M vistrails/tests/resources/import_targets/__init__.py
    M vistrails/tests/resources/import_targets/test1.py
    M vistrails/tests/resources/import_targets/test2.py
    M vistrails/tests/resources/import_targets/test3.py
    M vistrails/tests/resources/import_targets/test4.py
    M vistrails/tests/resources/import_targets/test5.py
    M vistrails/tests/resources/import_targets/test6.py
    A vistrails/tests/resources/startup-0.1.xml.tmpl
    A vistrails/tests/resources/test-implicit-while.vt
    A vistrails/tests/resources/test-list-custom.vt
    A vistrails/tests/resources/test-streaming.vt
    M vistrails/tests/resources/test_abstraction.xml
    M vistrails/tests/resources/triangle_count.vt
    A vistrails/tests/resources/upgrades/__init__.py
    A vistrails/tests/resources/upgrades/init.py
    M vistrails/tests/run_on_mac.sh
    M vistrails/tests/runtestsuite.py
    M vistrails/tests/utils.py
    M vistrails/vistrails_server.py

  Log Message:
  -----------
  Merge branch 'master' into buildbot-nightly

TODO: Update paths for dist -> scripts/dist

Conflicts:
	CHANGELOG
	dist/mac/Input/README
	dist/windows/Input/download_usersguide.py
	dist/windows/custom/vistrails-gdal.iss
	dist/windows/custom/vistrailsx64-gdal.iss
	dist/windows/update_alps.py
	dist/windows/vistrails.iss
	dist/windows/vistrailsx64.iss
	doc/dist/instructions.txt
	scripts/build_usersguide.py
	scripts/dist/mac/Input/README
	scripts/dist/mac/make_app
	scripts/dist/mac/make_app_itk
	scripts/dist/source/make-vistrails-src-nightly.py
	scripts/dist/source/make-vistrails-src-release.py
	scripts/dist/ubuntu/_debian/control
	scripts/dist/ubuntu/_debian/copyright
	scripts/dist/ubuntu/create_debian_pkg.sh
	scripts/dist/windows/Input/download_usersguide.py
	scripts/dist/windows/Input/license.txt
	scripts/dist/windows/Input/releaseNotes.txt
	vistrails/core/system/__init__.py
	vistrails/gui/mashups/mashup_app.py


  Commit: b05236c5c67838ac812fe67b774fd7c36f4c23b7
      https://github.com/VisTrails/VisTrails/commit/b05236c5c67838ac812fe67b774fd7c36f4c23b7
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M CHANGELOG
    M doc/usersguide/conf.py
    M scripts/create_release_wiki_table.py
    M scripts/dist/common/prepare_release.py
    M scripts/dist/common/splash/splash.svg
    M scripts/dist/conda/conda.sh
    M scripts/dist/mac/make_app
    M scripts/dist/mac/setup.py
    M scripts/dist/source/make-vistrails-src-build.py
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss
    M scripts/get_usersguide.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/resources/images/vistrails_splash.png

  Log Message:
  -----------
  Updated scripts for new dist directory location and prepared for master


  Commit: 244cbbb6053c93f53cfa39dd4646931e7638c3b2
      https://github.com/VisTrails/VisTrails/commit/244cbbb6053c93f53cfa39dd4646931e7638c3b2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    R vistrails/packages/CLTools/README
    A vistrails/packages/CLTools/README.md

  Log Message:
  -----------
  Format and fix CLTools/README.md


  Commit: fb1fb814300fa44d6e048ea84d7fa1bff5dc6f54
      https://github.com/VisTrails/VisTrails/commit/fb1fb814300fa44d6e048ea84d7fa1bff5dc6f54
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py

  Log Message:
  -----------
  Adds button to make CLTools module fail if $? != 0

This option supersedes 'return_code' which does not appear in the wizard
anyway.

It is on by default for new tools.


  Commit: acae77c0c8dc6cd9f4079d5c97caa692b4f547f7
      https://github.com/VisTrails/VisTrails/commit/acae77c0c8dc6cd9f4079d5c97caa692b4f547f7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Markup


  Commit: b0360b8f274d3117215aae5039eff748f2c354ee
      https://github.com/VisTrails/VisTrails/commit/b0360b8f274d3117215aae5039eff748f2c354ee
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  BuildBot FQDN


  Commit: a2c441fc343a4a3c4f091ab2602b16a7d1ea6ae6
      https://github.com/VisTrails/VisTrails/commit/a2c441fc343a4a3c4f091ab2602b16a7d1ea6ae6
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Updates notes


  Commit: 8fdd2f819e1736cc71f0e8e526be9b299e1bf530
      https://github.com/VisTrails/VisTrails/commit/8fdd2f819e1736cc71f0e8e526be9b299e1bf530
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Merge branch 'buildbot-nightly-2.1' into 'v2.1'


  Commit: 1f46f2f506156cbcd9c8d06824584409e958a6e1
      https://github.com/VisTrails/VisTrails/commit/1f46f2f506156cbcd9c8d06824584409e958a6e1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M .gitignore

  Log Message:
  -----------
  Fixes .gitignore


  Commit: 42d21de92519c26ee96b4976a023131467d0d56f
      https://github.com/VisTrails/VisTrails/commit/42d21de92519c26ee96b4976a023131467d0d56f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M scripts/dist/windows/common1.iss

  Log Message:
  -----------
  Fixed preprocessor variables in .iss scripts


  Commit: 97a84f6d383174eb7ef258e5f9cbdccfd9e31378
      https://github.com/VisTrails/VisTrails/commit/97a84f6d383174eb7ef258e5f9cbdccfd9e31378
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Fixes system/__init__.py


  Commit: eebd15eecbc95d29fafc5bc04425c392b9aee5a2
      https://github.com/VisTrails/VisTrails/commit/eebd15eecbc95d29fafc5bc04425c392b9aee5a2
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M scripts/build_usersguide.py

  Log Message:
  -----------
  Fixes scripts/build_usersguide.py


  Commit: 2f2cf80a22cefedb7c1053fd3b1fd8eb56853398
      https://github.com/VisTrails/VisTrails/commit/2f2cf80a22cefedb7c1053fd3b1fd8eb56853398
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M scripts/dist/README.md

  Log Message:
  -----------
  Updates paths in dist/README.md


  Commit: 9e1b5132642b61001c01ef2941b4ae871d7d5f80
      https://github.com/VisTrails/VisTrails/commit/9e1b5132642b61001c01ef2941b4ae871d7d5f80
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M scripts/dist/windows/common1.iss
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss

  Log Message:
  -----------
  Fixed python dll import and auto-set 64-bit flags


  Commit: 4b8ed861f851d77cec1aadd5c99c0a48241c173c
      https://github.com/VisTrails/VisTrails/commit/4b8ed861f851d77cec1aadd5c99c0a48241c173c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M scripts/dist/pypi.sh

  Log Message:
  -----------
  Fixes paths in pypi.sh


  Commit: ab88b33eb1e3e19b18a0f80c74d7144eacb5e57f
      https://github.com/VisTrails/VisTrails/commit/ab88b33eb1e3e19b18a0f80c74d7144eacb5e57f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-11 (Tue, 11 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Updates paths in dist/README.md


  Commit: 39e1990f3337b87e0c3e788b830cfe547eea31d7
      https://github.com/VisTrails/VisTrails/commit/39e1990f3337b87e0c3e788b830cfe547eea31d7
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-12 (Wed, 12 Nov 2014)

  Changed paths:
    M scripts/build_usersguide.py
    M scripts/dist/README.md
    M scripts/dist/pypi.sh
    M vistrails/core/system/__init__.py

  Log Message:
  -----------
  Merge branch 'buildbot-nightly-merge-fixes' into 'buildbot-nightly'


  Commit: 868d9d01629148be31d86b78e5a1f832c2fc9645
      https://github.com/VisTrails/VisTrails/commit/868d9d01629148be31d86b78e5a1f832c2fc9645
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-12 (Wed, 12 Nov 2014)

  Changed paths:
    M setup.py

  Log Message:
  -----------
  Bumps version to 2.2 in setup.py


  Commit: b7696e7eedded0df7accde4485708491e79dd2dd
      https://github.com/VisTrails/VisTrails/commit/b7696e7eedded0df7accde4485708491e79dd2dd
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    R vistrails/packages/CLTools/README
    A vistrails/packages/CLTools/README.md
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py

  Log Message:
  -----------
  Merge pull request #958 from VisTrails/cltools-check-exitcode

This looks ok. return_code is for the uncommon case where you want to use non-zero exit code. It is not in the wizard because the interface get easily cluttered when adding too many options.


  Commit: e3fb77aa61e6425ef394a02935c2640d6f2fee3f
      https://github.com/VisTrails/VisTrails/commit/e3fb77aa61e6425ef394a02935c2640d6f2fee3f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/console_mode.py
    M vistrails/core/debug.py
    M vistrails/core/vistrail/controller.py
    M vistrails/db/services/io.py
    M vistrails/db/versions/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Merge pull request #28 from VisTrails/show-full-traceback

This will be useful. I often have to improve tracebacks to get useful information!


  Commit: addfe6b40e35ef86af383d0f112185a442c2ade4
      https://github.com/VisTrails/VisTrails/commit/addfe6b40e35ef86af383d0f112185a442c2ade4
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    A CHANGELOG
    M LICENSE
    R doc/dist/instructions.txt
    M doc/dist/setup_build_system_windows.txt
    M doc/usersguide/conf.py
    M scripts/build_usersguide.py
    M scripts/create_release_wiki_table.py
    A scripts/dist/README.md
    A scripts/dist/common/prepare_release.py
    A scripts/dist/common/set_version.py
    M scripts/dist/common/splash/splash.svg
    M scripts/dist/conda/README.md
    A scripts/dist/conda/conda.sh
    M scripts/dist/conda/vistrails/meta.yaml
    R scripts/dist/mac/Input/README
    M scripts/dist/mac/make_app
    R scripts/dist/mac/make_app_itk
    M scripts/dist/mac/setup.py
    A scripts/dist/pypi.sh
    A scripts/dist/source/make-vistrails-src-build.py
    R scripts/dist/source/make-vistrails-src-nightly.py
    R scripts/dist/source/make-vistrails-src-release.py
    R scripts/dist/ubuntu/_debian/control
    R scripts/dist/ubuntu/_debian/copyright
    R scripts/dist/ubuntu/create_debian_pkg.sh
    R scripts/dist/windows/Input/download_usersguide.py
    R scripts/dist/windows/Input/license.txt
    R scripts/dist/windows/Input/releaseNotes.txt
    M scripts/dist/windows/common1.iss
    A scripts/dist/windows/update_alps.py
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss
    A scripts/get_usersguide.py
    R scripts/update_hash.py
    M setup.py
    M vistrails/core/system/__init__.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/resources/images/vistrails_splash.png

  Log Message:
  -----------
  Merge pull request #951 from VisTrails/buildbot-nightly

Merging so that we can start using this


  Commit: a91ee91768b88b559eaab472ecaa86d559c7337e
      https://github.com/VisTrails/VisTrails/commit/a91ee91768b88b559eaab472ecaa86d559c7337e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  monitor->handle avoids confusion with JobMonitor

BaseMonitor->JobHandle
get_job_monitor()->get_job_handle()


  Commit: 851b4dda19196d66ca11d4ac52e73b8bd0499ef1
      https://github.com/VisTrails/VisTrails/commit/851b4dda19196d66ca11d4ac52e73b8bd0499ef1
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Adds documentation to JobMixin


  Commit: 73e18c0362738e20dfe299f6d5e104b74af1b849
      https://github.com/VisTrails/VisTrails/commit/73e18c0362738e20dfe299f6d5e104b74af1b849
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Style fixes


  Commit: 758e4d0e1af237a6e6f961189fe0492cb8732f25
      https://github.com/VisTrails/VisTrails/commit/758e4d0e1af237a6e6f961189fe0492cb8732f25
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Fixes typo: params should be parameters


  Commit: 08e56c1a838d49da70038526cabc98e5980f826e
      https://github.com/VisTrails/VisTrails/commit/08e56c1a838d49da70038526cabc98e5980f826e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Fixes typo: there is no argument 'job_id'


  Commit: eb286c4a2b30a958c08f848866e286230b1cff20
      https://github.com/VisTrails/VisTrails/commit/eb286c4a2b30a958c08f848866e286230b1cff20
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/job.py
    M vistrails/gui/job_monitor.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/init.py

  Log Message:
  -----------
  More renaming of 'monitor' to 'handle'

There are enough "job monitor" things, this is a job handle.


  Commit: f5dd72a8232e7cbb28d937d72645061433a152c4
      https://github.com/VisTrails/VisTrails/commit/f5dd72a8232e7cbb28d937d72645061433a152c4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-13 (Thu, 13 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py

  Log Message:
  -----------
  Debug logging


  Commit: 6be69e3c11b61a3fc3920db51d8cbcb2b35e498a
      https://github.com/VisTrails/VisTrails/commit/6be69e3c11b61a3fc3920db51d8cbcb2b35e498a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-14 (Fri, 14 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py

  Log Message:
  -----------
  Fixes typo in CLTools tests


  Commit: 81f49cf986c2e653ee83c8a16a90dd73ff0448ee
      https://github.com/VisTrails/VisTrails/commit/81f49cf986c2e653ee83c8a16a90dd73ff0448ee
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-14 (Fri, 14 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Merge branch 'buildbot-nightly-2.1' into 'v2.1'


  Commit: 57d480bd576aa3b8272915105695a8d26c82f8d4
      https://github.com/VisTrails/VisTrails/commit/57d480bd576aa3b8272915105695a8d26c82f8d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-14 (Fri, 14 Nov 2014)

  Changed paths:
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Renames 'has_queue' to 'has_handle'


  Commit: aefbe6f9f6e2c734d997068719b0a43cbdb5a736
      https://github.com/VisTrails/VisTrails/commit/aefbe6f9f6e2c734d997068719b0a43cbdb5a736
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-15 (Sat, 15 Nov 2014)

  Changed paths:
    M vistrails/packages/CLTools/init.py

  Log Message:
  -----------
  Fixes typo in CLTools tests


  Commit: a4f05bb9d06a821d97d36f6fd3ccd6f75f530d17
      https://github.com/VisTrails/VisTrails/commit/a4f05bb9d06a821d97d36f6fd3ccd6f75f530d17
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-15 (Sat, 15 Nov 2014)

  Changed paths:
    M dist/README.md

  Log Message:
  -----------
  Revert "Updates paths in dist/README.md"

This reverts commit ab88b33eb1e3e19b18a0f80c74d7144eacb5e57f.


  Commit: b75a3cd5f48030ffd27e566be26c0032b2167e62
      https://github.com/VisTrails/VisTrails/commit/b75a3cd5f48030ffd27e566be26c0032b2167e62
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-15 (Sat, 15 Nov 2014)

  Changed paths:
    M scripts/dist/README.md
    R vistrails/packages/CLTools/README
    A vistrails/packages/CLTools/README.md
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py

  Log Message:
  -----------
  Merge branch 'v2.1' into 'master'


  Commit: 2ea634072a9549854af4877d4ef9701379195153
      https://github.com/VisTrails/VisTrails/commit/2ea634072a9549854af4877d4ef9701379195153
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-17 (Mon, 17 Nov 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/theme.py

  Log Message:
  -----------
  Fixes a bunch of division operators


  Commit: 285d1f9490037548d19bd6004873767d1233ca03
      https://github.com/VisTrails/VisTrails/commit/285d1f9490037548d19bd6004873767d1233ca03
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-18 (Tue, 18 Nov 2014)

  Changed paths:
    M vistrails/core/vistrail/job.py
    M vistrails/packages/RemoteQ/init.py

  Log Message:
  -----------
  Removed JobMixin.job_id


  Commit: a8f404660da9a0bf44a993bbda92a502c7bf2fc0
      https://github.com/VisTrails/VisTrails/commit/a8f404660da9a0bf44a993bbda92a502c7bf2fc0
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-20 (Thu, 20 Nov 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/vistrail/job.py
    M vistrails/gui/job_monitor.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py

  Log Message:
  -----------
  Merge pull request #27 from VisTrails/job-fixes

Fixes to the job monitoring system.


  Commit: 75ae1a4634b49b4c25ba26c0f211719a6a77c6a4
      https://github.com/VisTrails/VisTrails/commit/75ae1a4634b49b4c25ba26c0f211719a6a77c6a4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-21 (Fri, 21 Nov 2014)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Removes Serializable interface

Docstring says "mixin" but it really isn't... It is only used by Module,
and no Module subclass seems to implement it, either.


  Commit: 411ced1cf7508d336272247c8cf4c2c1f2b8142a
      https://github.com/VisTrails/VisTrails/commit/411ced1cf7508d336272247c8cf4c2c1f2b8142a
  Author: David Koop <dakoop at nyu.edu>
  Date:   2014-11-24 (Mon, 24 Nov 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/webview/webview.py

  Log Message:
  -----------
  Turn qtwebkit's developer extras flag on

Enables the Inspect contextual menu item which will bring up a
QWebInspector window.


  Commit: b45090ed9d273b3e1bd0eaf53a8c97f2ca9ea519
      https://github.com/VisTrails/VisTrails/commit/b45090ed9d273b3e1bd0eaf53a8c97f2ca9ea519
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-11-25 (Tue, 25 Nov 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/widgets/webview/webview.py

  Log Message:
  -----------
  Merge branch 'webcell-enable-dev' into 'master'


  Commit: 5c37afb97fa7503569dbb9d3a4c95e390d7587d8
      https://github.com/VisTrails/VisTrails/commit/5c37afb97fa7503569dbb9d3a4c95e390d7587d8
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-11-27 (Thu, 27 Nov 2014)

  Changed paths:
    M vistrails/gui/vistrails_window.py

  Log Message:
  -----------
  Warn when mashup is not found


  Commit: ec7bcc270a422ea388851f18dcb859883632b3d4
      https://github.com/VisTrails/VisTrails/commit/ec7bcc270a422ea388851f18dcb859883632b3d4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-04 (Thu, 04 Dec 2014)

  Changed paths:
    M scripts/dist/conda/conda.sh

  Log Message:
  -----------
  Minor fixes to conda.sh script

Let's use 'set -e' and make sure absolutepathname calls don't fail.


  Commit: 8b64d5df72804e0cea83bcc1f7898b37da7f8efd
      https://github.com/VisTrails/VisTrails/commit/8b64d5df72804e0cea83bcc1f7898b37da7f8efd
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-05 (Fri, 05 Dec 2014)

  Changed paths:
    M scripts/dist/conda/conda.sh

  Log Message:
  -----------
  Fixes failing mkdir call in conda.sh


  Commit: 18bae97d89afb7ac942b95e92c9033673d6a6d7d
      https://github.com/VisTrails/VisTrails/commit/18bae97d89afb7ac942b95e92c9033673d6a6d7d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-09 (Tue, 09 Dec 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Makes String accept unicode again

402c6d2d made String.translate_to_python() only accept 'str' objects,
raising on 'unicode'. This fixes it, although only ascii is safe at this
time.


  Commit: 6e3baddbcb1cd1b75f48c408a7db10ca6513cd33
      https://github.com/VisTrails/VisTrails/commit/6e3baddbcb1cd1b75f48c408a7db10ca6513cd33
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py

  Log Message:
  -----------
  Fixes import lines in spreadsheet


  Commit: 68beea0e6351952d4140b034c0ccd78c8530b599
      https://github.com/VisTrails/VisTrails/commit/68beea0e6351952d4140b034c0ccd78c8530b599
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py

  Log Message:
  -----------
  Whitespace


  Commit: 8ab2b32068dbb0ec578548b16e4bbcc6e75166c4
      https://github.com/VisTrails/VisTrails/commit/8ab2b32068dbb0ec578548b16e4bbcc6e75166c4
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Removes import cycle


  Commit: 528385c28c4d2a86f527be4b116a2d4a88e74831
      https://github.com/VisTrails/VisTrails/commit/528385c28c4d2a86f527be4b116a2d4a88e74831
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/parallelflow/map.py

  Log Message:
  -----------
  Fixes imports in parallelflow/map.py


  Commit: 0335a98028452795ebc83d6d12124682f09f5b41
      https://github.com/VisTrails/VisTrails/commit/0335a98028452795ebc83d6d12124682f09f5b41
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/parallelflow/map.py

  Log Message:
  -----------
  parallelflow: Fixes formatting of an error message


  Commit: 9c5ebe81a809656756e3acf26a21c02faacef9eb
      https://github.com/VisTrails/VisTrails/commit/9c5ebe81a809656756e3acf26a21c02faacef9eb
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/core/resources/spawned_startup_xml

  Log Message:
  -----------
  Removes 'nologger=True' from spawned_startup.xml

Removed because it breaks ParallelFlow.


  Commit: 3b36a6b14676b5f95035c9d3df67b810291c3e70
      https://github.com/VisTrails/VisTrails/commit/3b36a6b14676b5f95035c9d3df67b810291c3e70
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M scripts/dist/conda/conda.sh
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/resources/spawned_startup_xml
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py

  Log Message:
  -----------
  Merge branch 'master' into 'remove-serialize-interface'


  Commit: e23e8e3b42be4d08ef4b9b5b1fea7ccaca32df12
      https://github.com/VisTrails/VisTrails/commit/e23e8e3b42be4d08ef4b9b5b1fea7ccaca32df12
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Removes serialize/deserialize from Constant


  Commit: 4ae4fd15d7fe1340741fa37332a7fbcf2c07ac43
      https://github.com/VisTrails/VisTrails/commit/4ae4fd15d7fe1340741fa37332a7fbcf2c07ac43
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-10 (Wed, 10 Dec 2014)

  Changed paths:
    M vistrails/packages/parallelflow/map.py

  Log Message:
  -----------
  Removes serialize() calls from ParallelFlow


  Commit: 6501c06436eec1c60d1f45cace88edcacffa8e01
      https://github.com/VisTrails/VisTrails/commit/6501c06436eec1c60d1f45cace88edcacffa8e01
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Removes debug output


  Commit: 1a68f107cbf8292a2c9b95fd17eeb278ee9958dc
      https://github.com/VisTrails/VisTrails/commit/1a68f107cbf8292a2c9b95fd17eeb278ee9958dc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Fixes '!= None' in CodeRunnerMixin


  Commit: 8a1043b0046a9a47dda33031f37d1a436b852134
      https://github.com/VisTrails/VisTrails/commit/8a1043b0046a9a47dda33031f37d1a436b852134
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/core/system/unix.py

  Log Message:
  -----------
  Fixes horrible busy-loop


  Commit: 3468998b24367fd3b0ad559d264fa40a0e15f5ea
      https://github.com/VisTrails/VisTrails/commit/3468998b24367fd3b0ad559d264fa40a0e15f5ea
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Go back to ignoring PythonSource locals if None


  Commit: 2285c38553931daf21ddbd5a35ac08d6bab42a44
      https://github.com/VisTrails/VisTrails/commit/2285c38553931daf21ddbd5a35ac08d6bab42a44
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/core/analogy/eigen.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/db/locator.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/thumbnails.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/location.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/pe_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/version_view.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Fixes '!= None' elsewhere


  Commit: 43950f8b4eaa285e6b3ec77e6f106ffed8e56524
      https://github.com/VisTrails/VisTrails/commit/43950f8b4eaa285e6b3ec77e6f106ffed8e56524
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/prov.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Fixes '== None' everywhere


  Commit: 4f0df89e824e25eaf5a9ffd8388a4bda2ce5bd92
      https://github.com/VisTrails/VisTrails/commit/4f0df89e824e25eaf5a9ffd8388a4bda2ce5bd92
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-15 (Mon, 15 Dec 2014)

  Changed paths:
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Adds "Namespace:" line to module info panel


  Commit: 5d19f0b735c224be5aa0bf01414be5634b77afac
      https://github.com/VisTrails/VisTrails/commit/5d19f0b735c224be5aa0bf01414be5634b77afac
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  remove print statements in polygon port drawing.


  Commit: f48dc111763eca3434295cda91056eb8a214c39d
      https://github.com/VisTrails/VisTrails/commit/f48dc111763eca3434295cda91056eb8a214c39d
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/pipeline_view.py

  Log Message:
  -----------
  Merge pull request #979 from amueller/remove_polygon_drawing_prints

Remove print statements from QGraphicsPortPolygonItem.


  Commit: c08d4d58ab1fd5c9f67c3425567aceb50b414231
      https://github.com/VisTrails/VisTrails/commit/c08d4d58ab1fd5c9f67c3425567aceb50b414231
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    A examples/scikit-learn.vt
    A vistrails/packages/sklearn/__init__.py
    A vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Add proof of concept sklearn estimators.


  Commit: 66f609aa4b7658c7a8e791def4493dac6b393585
      https://github.com/VisTrails/VisTrails/commit/66f609aa4b7658c7a8e791def4493dac6b393585
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/scikit-learn.vt
    M vistrails/packages/sklearn/__init__.py
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Minor fixes as suggested by @remram44


  Commit: c608e75c2902f0af8324a07c72536ab1413c989f
      https://github.com/VisTrails/VisTrails/commit/c608e75c2902f0af8324a07c72536ab1413c989f
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Removes empty initialize()


  Commit: ce8b16ccdf8c7e89702f0a85c3a33e8004cc6aae
      https://github.com/VisTrails/VisTrails/commit/ce8b16ccdf8c7e89702f0a85c3a33e8004cc6aae
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Makes SklearnClassifiers abstract


  Commit: 13af748cbd04c2247da791d94f1d4779a83ad387
      https://github.com/VisTrails/VisTrails/commit/13af748cbd04c2247da791d94f1d4779a83ad387
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/__init__.py

  Log Message:
  -----------
  Removes empty package_dependencies()


  Commit: f72f0a2f9d16519db5076b7af75d1df390a3d676
      https://github.com/VisTrails/VisTrails/commit/f72f0a2f9d16519db5076b7af75d1df390a3d676
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Removes unused classes


  Commit: cd32a86663b13a63ea308305e198840247a31284
      https://github.com/VisTrails/VisTrails/commit/cd32a86663b13a63ea308305e198840247a31284
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Renames Classifier


  Commit: 694d8f960776a8c648879a838bde1d6f00f9683a
      https://github.com/VisTrails/VisTrails/commit/694d8f960776a8c648879a838bde1d6f00f9683a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Renames Predict


  Commit: b908f687557ea331eec6a9eac779e1678f9ea8fe
      https://github.com/VisTrails/VisTrails/commit/b908f687557ea331eec6a9eac779e1678f9ea8fe
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Moves stuff around


  Commit: 0945c9b7a47290a52b91c3568c009020f8c2a4e0
      https://github.com/VisTrails/VisTrails/commit/0945c9b7a47290a52b91c3568c009020f8c2a4e0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Adds example datasets


  Commit: a0892053e967e0e217fc0402315e0e8831b2ddd0
      https://github.com/VisTrails/VisTrails/commit/a0892053e967e0e217fc0402315e0e8831b2ddd0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    A examples/sklearn.vt

  Log Message:
  -----------
  Adds example workflow


  Commit: 55bb23992888d0bc1c3bc836852b1b7bb0555d1d
      https://github.com/VisTrails/VisTrails/commit/55bb23992888d0bc1c3bc836852b1b7bb0555d1d
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn.vt
    A examples/sklearn_scoring.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Add train_test_split and scorers


  Commit: 4bd3472aac8f08e83acdc7ecafdcef298acd1dea
      https://github.com/VisTrails/VisTrails/commit/4bd3472aac8f08e83acdc7ecafdcef298acd1dea
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    A examples/sklearn_roc_curve.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  add roc curve plotting + example


  Commit: 11d6cee65030506098b0a299f96fa648f48f9953
      https://github.com/VisTrails/VisTrails/commit/11d6cee65030506098b0a299f96fa648f48f9953
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn.vt
    A examples/sklearn_cross_val_score.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  make input data in classifier optional. if not present, return untrained model.


  Commit: e17516387a36231ee414d722bce866119f94713c
      https://github.com/VisTrails/VisTrails/commit/e17516387a36231ee414d722bce866119f94713c
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn.vt
    M examples/sklearn_cross_val_score.vt
    A examples/sklearn_grid_search.vt
    M examples/sklearn_roc_curve.vt
    A examples/sklearn_svc.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  add namespaces and very basic GridSearchCV


  Commit: 1dae89b49e739ed00f8e426adc27cd1063b01266
      https://github.com/VisTrails/VisTrails/commit/1dae89b49e739ed00f8e426adc27cd1063b01266
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_svc.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Add StandardScaler, Transform for transformer testing


  Commit: 4344289a13d23526125d9beeb19b0c1182c0924e
      https://github.com/VisTrails/VisTrails/commit/4344289a13d23526125d9beeb19b0c1182c0924e
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_scoring.vt

  Log Message:
  -----------
  update example for new namespaces


  Commit: 822c97c0b93dd780674cea37710947e55457c50f
      https://github.com/VisTrails/VisTrails/commit/822c97c0b93dd780674cea37710947e55457c50f
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn.vt
    M examples/sklearn_cross_val_score.vt
    M examples/sklearn_grid_search.vt
    M examples/sklearn_roc_curve.vt
    M examples/sklearn_scoring.vt
    M examples/sklearn_svc.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  single base class for all sklearn estimators


  Commit: 40af0b5336eaee9a6c1ae69763b1117126b0827c
      https://github.com/VisTrails/VisTrails/commit/40af0b5336eaee9a6c1ae69763b1117126b0827c
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    A examples/sklearn_pipeline.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  add pipeline example


  Commit: af711d68de81bf85a95f5ebd0febb99bb70ee71b
      https://github.com/VisTrails/VisTrails/commit/af711d68de81bf85a95f5ebd0febb99bb70ee71b
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_pipeline.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  make estimator nodes diamonds :)


  Commit: 727fa40a6e5d26e4761e575992ee0c513ac30fa2
      https://github.com/VisTrails/VisTrails/commit/727fa40a6e5d26e4761e575992ee0c513ac30fa2
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  A slight refactoring to simplify classifier definition, and a programmatic definition of all classifiers.
Unfortunately this does not respect the parameter types yet.


  Commit: f1e2b78d3352bb99e550377f729e35c34e1f79e1
      https://github.com/VisTrails/VisTrails/commit/f1e2b78d3352bb99e550377f729e35c34e1f79e1
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn.vt
    M examples/sklearn_cross_val_score.vt
    M examples/sklearn_grid_search.vt
    M examples/sklearn_pipeline.vt
    M examples/sklearn_roc_curve.vt
    M examples/sklearn_scoring.vt
    M examples/sklearn_svc.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  make ports sorted the correct way, make data ports round.


  Commit: 1fbf9ec902608a1f87e1fde1196fb6e0475e3e49
      https://github.com/VisTrails/VisTrails/commit/1fbf9ec902608a1f87e1fde1196fb6e0475e3e49
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_pipeline.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  fix sort keys in pipeline


  Commit: 02aee0d88e1c9d16e56a39dd71ea45b91a20a274
      https://github.com/VisTrails/VisTrails/commit/02aee0d88e1c9d16e56a39dd71ea45b91a20a274
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_svc.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  remove explicit classifier classes, convert string inputs to float / int. add documentation


  Commit: 8cd111c9334eed0f4abde8431d6e4597e4685194
      https://github.com/VisTrails/VisTrails/commit/8cd111c9334eed0f4abde8431d6e4597e4685194
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M examples/sklearn_pipeline.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  refactor, add clustering


  Commit: 6691b27233ed548c4975130a448da2306ba8363d
      https://github.com/VisTrails/VisTrails/commit/6691b27233ed548c4975130a448da2306ba8363d
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  add all unsupervised transformers


  Commit: a2daac8341421646c61e0e0aca6db05e4fba6329
      https://github.com/VisTrails/VisTrails/commit/a2daac8341421646c61e0e0aca6db05e4fba6329
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  add feature_selection


  Commit: e0f9ed491b6401c3b76319b781e7c2b1dddbea74
      https://github.com/VisTrails/VisTrails/commit/e0f9ed491b6401c3b76319b781e7c2b1dddbea74
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Fixes exception selecting module without namespace


  Commit: a5974f3f0d2f1e0573edd19ba387bd308aa205f0
      https://github.com/VisTrails/VisTrails/commit/a5974f3f0d2f1e0573edd19ba387bd308aa205f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Removes weakrefs from module_palette.py


  Commit: 4c970fbe0c1c1528e55509611f0588043fba04da
      https://github.com/VisTrails/VisTrails/commit/4c970fbe0c1c1528e55509611f0588043fba04da
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Catches KeyError in deletedPackage()


  Commit: c17f90ba318f8711204f6a6cb73325f9f332da2c
      https://github.com/VisTrails/VisTrails/commit/c17f90ba318f8711204f6a6cb73325f9f332da2c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Removes commented-out code from module_palette.py


  Commit: 24796ec50910d7b536f9e0521e09c376366c93dc
      https://github.com/VisTrails/VisTrails/commit/24796ec50910d7b536f9e0521e09c376366c93dc
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Removes whitespace errors from module_palette.py


  Commit: dd9f3ced3796ce7b3065725cf74f2cd1f43fb066
      https://github.com/VisTrails/VisTrails/commit/dd9f3ced3796ce7b3065725cf74f2cd1f43fb066
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Fixes other nonsense


  Commit: c27f2b0194180768139eb778925b1156a51c2480
      https://github.com/VisTrails/VisTrails/commit/c27f2b0194180768139eb778925b1156a51c2480
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2014-12-17 (Wed, 17 Dec 2014)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Removes inefficient package identifier retrieval


  Commit: 323485eb5f548b0180caa2c6de004ef21d5747cf
      https://github.com/VisTrails/VisTrails/commit/323485eb5f548b0180caa2c6de004ef21d5747cf
  Author: Andreas Mueller <amueller at nyu.edu>
  Date:   2014-12-18 (Thu, 18 Dec 2014)

  Changed paths:
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  fix don't use weird estimators which are not filtered out in all_estimators until 0.15.2


  Commit: 7f17aa4c1dbfcf2011218cba134000fd88f18c0d
      https://github.com/VisTrails/VisTrails/commit/7f17aa4c1dbfcf2011218cba134000fd88f18c0d
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2014-12-29 (Mon, 29 Dec 2014)

  Changed paths:
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/view-refresh.png
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Adds action for re-executing a cell in the spreadsheet

This is useful for workflows accessing changing data such as status information.
Also useful for returning to an un-modified cell.


  Commit: 7745cfc12821df0a97828cfea3c01bc5a4fa3bfb
      https://github.com/VisTrails/VisTrails/commit/7745cfc12821df0a97828cfea3c01bc5a4fa3bfb
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2015-01-02 (Fri, 02 Jan 2015)

  Changed paths:
    M vistrails/gui/module_info.py

  Log Message:
  -----------
  Show version properties when switching from version view with no module selected.

gui/module_info.py:
 - ModuleInfo.set_visible: *new
   Override and show version properties when enabled, no module is selected, and everything is docked.


  Commit: 0970e07f5fca6cd6cd8831ab027d168acd1b220f
      https://github.com/VisTrails/VisTrails/commit/0970e07f5fca6cd6cd8831ab027d168acd1b220f
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2015-01-02 (Fri, 02 Jan 2015)

  Changed paths:
    M vistrails/gui/job_monitor.py

  Log Message:
  -----------
  Fixed search view triggering locator error in job view

gui/job_monitor.py:
  - set_controller:
    Check if controller is an existing view before adding.


  Commit: e0c0e66753a2f5350b3c124592167485cc529e3a
      https://github.com/VisTrails/VisTrails/commit/e0c0e66753a2f5350b3c124592167485cc529e3a
  Author: Thomas A Caswell <tcaswell at gmail.com>
  Date:   2015-01-04 (Sun, 04 Jan 2015)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  PEP8 : strip trailing whitespace


  Commit: 3d6ac0894481e1da6bb81c5a4c06824056148cfb
      https://github.com/VisTrails/VisTrails/commit/3d6ac0894481e1da6bb81c5a4c06824056148cfb
  Author: Thomas A Caswell <tcaswell at gmail.com>
  Date:   2015-01-04 (Sun, 04 Jan 2015)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  MNT : do not shadow dict


  Commit: 3efcb910540569f34204aae296a6a596526e03b0
      https://github.com/VisTrails/VisTrails/commit/3efcb910540569f34204aae296a6a596526e03b0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-06 (Tue, 06 Jan 2015)

  Changed paths:
    M vistrails/core/application.py

  Log Message:
  -----------
  Fixes DB exception not being described


  Commit: 6acad01c39a8461a5c93469942ecd793470a34ef
      https://github.com/VisTrails/VisTrails/commit/6acad01c39a8461a5c93469942ecd793470a34ef
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/packages/spreadsheet/celltoolbar_rc.py

  Log Message:
  -----------
  Restores b"" prefixes in rc file


  Commit: b410010299d79a0fb88cbeed12db222a37bb669c
      https://github.com/VisTrails/VisTrails/commit/b410010299d79a0fb88cbeed12db222a37bb669c
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/view-refresh.png
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Merge pull request #983 from VisTrails/re-execute_cell

Adds action for re-executing a cell in the spreadsheet


  Commit: fb57151c37ed3eacb89974f0b13a5fbb23065632
      https://github.com/VisTrails/VisTrails/commit/fb57151c37ed3eacb89974f0b13a5fbb23065632
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py

  Log Message:
  -----------
  Merge branch 'spreadsheet-imports' into 'master'


  Commit: ddb75f97a7d4208e57b1e4f28e3378a199b02e08
      https://github.com/VisTrails/VisTrails/commit/ddb75f97a7d4208e57b1e4f28e3378a199b02e08
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/core/analogy/eigen.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/thumbnails.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/location.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/prov.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/pe_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/version_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrails_window.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Merge branch 'fix-none-comparisons' into 'master'


  Commit: ce4fa868c2314f388850db031e91204915b277db
      https://github.com/VisTrails/VisTrails/commit/ce4fa868c2314f388850db031e91204915b277db
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/packages/spreadsheet/spreadsheet_cell.py

  Log Message:
  -----------
  Fixes formatting error from 7f17aa4c


  Commit: 45c0610cc392624cab27315dec9a459cc4bcfc4b
      https://github.com/VisTrails/VisTrails/commit/45c0610cc392624cab27315dec9a459cc4bcfc4b
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/core/modules/vistrails_module.py

  Log Message:
  -----------
  Merge pull request #985 from tacaswell/arg_name

Don't shadow dict.


  Commit: 320073bdb8c92db533c11ae7bdc8c648aa7eb94e
      https://github.com/VisTrails/VisTrails/commit/320073bdb8c92db533c11ae7bdc8c648aa7eb94e
  Author: David Koop <dkoop at umassd.edu>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Include unset keys in config obj keys

Also add test to check unset fields


  Commit: 34aff8aed34ff19e5a39088571a20bbc086ea2a8
      https://github.com/VisTrails/VisTrails/commit/34aff8aed34ff19e5a39088571a20bbc086ea2a8
  Author: David Koop <dkoop at umassd.edu>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Change config obj __eq__ to disregard unset fields

Allows serialize test to work, but unsure if this is ok


  Commit: e92eec82ef1163c3199e9c28b51a7f4d2d57cd78
      https://github.com/VisTrails/VisTrails/commit/e92eec82ef1163c3199e9c28b51a7f4d2d57cd78
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Fixes traceback when resetting package conf


  Commit: 99946904c9281f4aaab08644edc511362953c9f0
      https://github.com/VisTrails/VisTrails/commit/99946904c9281f4aaab08644edc511362953c9f0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-07 (Wed, 07 Jan 2015)

  Changed paths:
    M vistrails/core/modules/package.py

  Log Message:
  -----------
  Fixes typo in Package#reset_configuration()


  Commit: 2bcdbf00f25e47e1b54f9e8af05f26b11a1f6ecb
      https://github.com/VisTrails/VisTrails/commit/2bcdbf00f25e47e1b54f9e8af05f26b11a1f6ecb
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2015-01-09 (Fri, 09 Jan 2015)

  Changed paths:
    M vistrails/gui/module_palette.py

  Log Message:
  -----------
  Merge pull request #981 from VisTrails/bugfix-palette

Bugfix palette


  Commit: 4b2ffeb56e86d893a7aedea920ba0617fb0aadbc
      https://github.com/VisTrails/VisTrails/commit/4b2ffeb56e86d893a7aedea920ba0617fb0aadbc
  Author: Tommy Ellqvist <tommy.ellqvist at nyu.edu>
  Date:   2015-01-09 (Fri, 09 Jan 2015)

  Changed paths:
    M vistrails/core/modules/package.py
    M vistrails/gui/preferences.py

  Log Message:
  -----------
  Merge pull request #987 from VisTrails/fix-reset-conf-traceback

Fixes traceback when resetting package conf


  Commit: 105b2979e56eb0ef83d45fdf3184d245d64fdeaa
      https://github.com/VisTrails/VisTrails/commit/105b2979e56eb0ef83d45fdf3184d245d64fdeaa
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/gui/modules/list_configuration.py

  Log Message:
  -----------
  Fixes List module item ports: Module->Variant


  Commit: 6b8c2ded32a9efd626a3455e9f7d4add1d687952
      https://github.com/VisTrails/VisTrails/commit/6b8c2ded32a9efd626a3455e9f7d4add1d687952
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M examples/sklearn_grid_search.vt

  Log Message:
  -----------
  added result plot to gridsearch example


  Commit: db9aec1bb15d36879fec5a8d5fb921a076e83bdf
      https://github.com/VisTrails/VisTrails/commit/db9aec1bb15d36879fec5a8d5fb921a076e83bdf
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    R examples/scikit-learn.vt
    A examples/sklearn/cross_val_score.vt
    A examples/sklearn/grid_search.vt
    A examples/sklearn/pipeline.vt
    A examples/sklearn/roc_curve.vt
    A examples/sklearn/scoring.vt
    A examples/sklearn/support_vector_machine.vt
    R examples/sklearn_cross_val_score.vt
    R examples/sklearn_grid_search.vt
    R examples/sklearn_pipeline.vt
    R examples/sklearn_roc_curve.vt
    R examples/sklearn_scoring.vt
    R examples/sklearn_svc.vt

  Log Message:
  -----------
  move sklearn examples into separate folder


  Commit: 09049990a15c2ec2e8b52bcb25f9aa066a811127
      https://github.com/VisTrails/VisTrails/commit/09049990a15c2ec2e8b52bcb25f9aa066a811127
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M .travis.yml

  Log Message:
  -----------
  Adds more distrib packages to Travis configuration


  Commit: 524b27b69973b921201c7d2ff2ab2339d2837582
      https://github.com/VisTrails/VisTrails/commit/524b27b69973b921201c7d2ff2ab2339d2837582
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M .travis.yml

  Log Message:
  -----------
  Travis currently won't install python-zmq

travis-ci/travis-ci#3106


  Commit: ed43c612d51f2e4a729afc8d9a29300c53eeb3b9
      https://github.com/VisTrails/VisTrails/commit/ed43c612d51f2e4a729afc8d9a29300c53eeb3b9
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    A examples/sklearn/dimensionality_reduction.vt
    M vistrails/packages/sklearn/init.py

  Log Message:
  -----------
  Add manifold learning with example


  Commit: 30ab8cafa7b2f5ca52fce2c75665be101398ad2e
      https://github.com/VisTrails/VisTrails/commit/30ab8cafa7b2f5ca52fce2c75665be101398ad2e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M .gitignore
    M .travis.yml
    A CHANGELOG
    M LICENSE
    R doc/dist/instructions.txt
    M doc/dist/setup_build_system_windows.txt
    M doc/usersguide/conf.py
    M scripts/build_usersguide.py
    M scripts/create_release_wiki_table.py
    A scripts/dist/README.md
    A scripts/dist/common/prepare_release.py
    A scripts/dist/common/set_version.py
    M scripts/dist/common/splash/splash.svg
    M scripts/dist/conda/README.md
    A scripts/dist/conda/conda.sh
    M scripts/dist/conda/vistrails/meta.yaml
    R scripts/dist/mac/Input/README
    M scripts/dist/mac/make_app
    R scripts/dist/mac/make_app_itk
    M scripts/dist/mac/setup.py
    A scripts/dist/pypi.sh
    A scripts/dist/source/make-vistrails-src-build.py
    R scripts/dist/source/make-vistrails-src-nightly.py
    R scripts/dist/source/make-vistrails-src-release.py
    R scripts/dist/ubuntu/_debian/control
    R scripts/dist/ubuntu/_debian/copyright
    R scripts/dist/ubuntu/create_debian_pkg.sh
    R scripts/dist/windows/Input/download_usersguide.py
    R scripts/dist/windows/Input/license.txt
    R scripts/dist/windows/Input/releaseNotes.txt
    M scripts/dist/windows/common1.iss
    A scripts/dist/windows/update_alps.py
    M scripts/dist/windows/vistrails-gdal.iss
    M scripts/dist/windows/vistrails.iss
    M scripts/dist/windows/vistrailsx64-gdal.iss
    M scripts/dist/windows/vistrailsx64.iss
    A scripts/get_usersguide.py
    R scripts/update_hash.py
    M setup.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/application.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/resources/spawned_startup_xml
    M vistrails/core/system/__init__.py
    M vistrails/core/system/unix.py
    M vistrails/core/thumbnails.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/job.py
    M vistrails/core/vistrail/location.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/prov.py
    M vistrails/db/versions/__init__.py
    M vistrails/gui/application.py
    M vistrails/gui/collection/explorer.py
    M vistrails/gui/collection/workspace.py
    M vistrails/gui/job_monitor.py
    M vistrails/gui/mashups/mashup_app.py
    M vistrails/gui/mashups/mashup_view.py
    M vistrails/gui/module_info.py
    M vistrails/gui/module_palette.py
    M vistrails/gui/modules/list_configuration.py
    M vistrails/gui/modules/paramexplore.py
    M vistrails/gui/open_db_window.py
    M vistrails/gui/paramexplore/pe_view.py
    M vistrails/gui/pipeline_view.py
    M vistrails/gui/preferences.py
    M vistrails/gui/resources/images/vistrails_splash.png
    M vistrails/gui/version_view.py
    M vistrails/gui/vistrail_controller.py
    M vistrails/gui/vistrail_view.py
    M vistrails/gui/vistrails_window.py
    R vistrails/packages/CLTools/README
    A vistrails/packages/CLTools/README.md
    M vistrails/packages/CLTools/init.py
    M vistrails/packages/CLTools/wizard.py
    M vistrails/packages/RemoteQ/base.py
    M vistrails/packages/RemoteQ/hdfs.py
    M vistrails/packages/RemoteQ/init.py
    M vistrails/packages/RemoteQ/streaming.py
    M vistrails/packages/matplotlib/parse.py
    M vistrails/packages/parallelflow/map.py
    M vistrails/packages/spreadsheet/__init__.py
    M vistrails/packages/spreadsheet/analogy_api.py
    M vistrails/packages/spreadsheet/basic_widgets.py
    M vistrails/packages/spreadsheet/celltoolbar.qrc
    M vistrails/packages/spreadsheet/celltoolbar_rc.py
    A vistrails/packages/spreadsheet/images/view-refresh.png
    M vistrails/packages/spreadsheet/init.py
    M vistrails/packages/spreadsheet/spreadsheet_base.py
    M vistrails/packages/spreadsheet/spreadsheet_cell.py
    M vistrails/packages/spreadsheet/spreadsheet_config.py
    M vistrails/packages/spreadsheet/spreadsheet_controller.py
    M vistrails/packages/spreadsheet/spreadsheet_event.py
    M vistrails/packages/spreadsheet/spreadsheet_execute.py
    M vistrails/packages/spreadsheet/spreadsheet_helpers.py
    M vistrails/packages/spreadsheet/spreadsheet_registry.py
    M vistrails/packages/spreadsheet/spreadsheet_sheet.py
    M vistrails/packages/spreadsheet/spreadsheet_tab.py
    M vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
    M vistrails/packages/spreadsheet/spreadsheet_window.py
    M vistrails/packages/spreadsheet/widgets/webview/webview.py
    M vistrails/packages/vtk/base_module.py
    M vistrails/packages/vtk/init.py
    M vistrails/packages/vtk/vtkcell.py
    M vistrails/packages/webServices/init.py

  Log Message:
  -----------
  Merge branch 'master' into 'future_imports'

Conflicts:
	vistrails/packages/spreadsheet/analogy_api.py
	vistrails/packages/spreadsheet/basic_widgets.py
	vistrails/packages/spreadsheet/init.py
	vistrails/packages/spreadsheet/spreadsheet_base.py
	vistrails/packages/spreadsheet/spreadsheet_cell.py
	vistrails/packages/spreadsheet/spreadsheet_config.py
	vistrails/packages/spreadsheet/spreadsheet_controller.py
	vistrails/packages/spreadsheet/spreadsheet_event.py
	vistrails/packages/spreadsheet/spreadsheet_execute.py
	vistrails/packages/spreadsheet/spreadsheet_helpers.py
	vistrails/packages/spreadsheet/spreadsheet_sheet.py
	vistrails/packages/spreadsheet/spreadsheet_tab.py
	vistrails/packages/spreadsheet/spreadsheet_tabcontroller.py
	vistrails/packages/spreadsheet/spreadsheet_window.py


  Commit: 05bead32a76d1e6980a18f82b06aed4af54beede
      https://github.com/VisTrails/VisTrails/commit/05bead32a76d1e6980a18f82b06aed4af54beede
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    A examples/sklearn/svm_decision_function.vt

  Log Message:
  -----------
  decision function visualization example


  Commit: 6b3e5e099a5f631a51cf030bb2953addbd22a255
      https://github.com/VisTrails/VisTrails/commit/6b3e5e099a5f631a51cf030bb2953addbd22a255
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/core/interpreter/noncached.py

  Log Message:
  -----------
  Adds missing import


  Commit: daa6dcfae94fa07d19753df8dac86cbf0b702224
      https://github.com/VisTrails/VisTrails/commit/daa6dcfae94fa07d19753df8dac86cbf0b702224
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/core/interpreter/noncached.py
    A vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  start on testing.


  Commit: 0f65fe0c03755676effe7ee0f10b570a8ded7f21
      https://github.com/VisTrails/VisTrails/commit/0f65fe0c03755676effe7ee0f10b570a8ded7f21
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/init.py
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  allow non-strings as parameters for try_convert.


  Commit: db8b3dd7c5e6dbd29425a3b17807fd959759fe79
      https://github.com/VisTrails/VisTrails/commit/db8b3dd7c5e6dbd29425a3b17807fd959759fe79
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/init.py
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  more testing, some more consistent naming (which will wreak havoc with the examples)


  Commit: 60b46d931a977e2d96b3f773a7159e86ceaedb6f
      https://github.com/VisTrails/VisTrails/commit/60b46d931a977e2d96b3f773a7159e86ceaedb6f
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  improve scorer testing.


  Commit: dae8d812db6b69de666b3a5226631f45f81c1680
      https://github.com/VisTrails/VisTrails/commit/dae8d812db6b69de666b3a5226631f45f81c1680
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  test transformers and manifold module, add function to get generated class instances for intercept_results


  Commit: 860831a026b399fa95ba167159a1403a8e4fd3de
      https://github.com/VisTrails/VisTrails/commit/860831a026b399fa95ba167159a1403a8e4fd3de
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/init.py
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  add test for gridsearch, pipline, cross validation.


  Commit: 43954bed0bbb87f39df9bb50b91c10e73a9fb350
      https://github.com/VisTrails/VisTrails/commit/43954bed0bbb87f39df9bb50b91c10e73a9fb350
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M examples/sklearn/cross_val_score.vt
    M examples/sklearn/dimensionality_reduction.vt
    M examples/sklearn/grid_search.vt
    M examples/sklearn/pipeline.vt
    M examples/sklearn/support_vector_machine.vt
    M examples/sklearn/svm_decision_function.vt

  Log Message:
  -----------
  Fix all examples for unified variable names.


  Commit: 76f5a15b40f843e1ba5a134e913b922bc3d73811
      https://github.com/VisTrails/VisTrails/commit/76f5a15b40f843e1ba5a134e913b922bc3d73811
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/core/modules/basic_modules.py

  Log Message:
  -----------
  Simplifies ConcatenateString

Removes TODO comment, since we have StringFormat.


  Commit: b0844a3b5a1f3d58ac8bc105d7dbba91a5b4ff2a
      https://github.com/VisTrails/VisTrails/commit/b0844a3b5a1f3d58ac8bc105d7dbba91a5b4ff2a
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M requirements.txt

  Log Message:
  -----------
  add scikit-learn to requirements.txt


  Commit: 6daa4e0c2dbad381aaf7d102b8f4ebdab9fd1f43
      https://github.com/VisTrails/VisTrails/commit/6daa4e0c2dbad381aaf7d102b8f4ebdab9fd1f43
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M requirements.txt

  Log Message:
  -----------
  also add nose :-/


  Commit: 41f7e4d39281ee0f444706504e7743a33e338b4a
      https://github.com/VisTrails/VisTrails/commit/41f7e4d39281ee0f444706504e7743a33e338b4a
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M doc/usersguide/developer.rst
    M doc/usersguide/example.rst

  Log Message:
  -----------
  Moves ITK docs from developer's to user's guide


  Commit: 243a07ec08f60537e6ccd5e48f279a7b4948287b
      https://github.com/VisTrails/VisTrails/commit/243a07ec08f60537e6ccd5e48f279a7b4948287b
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    A doc/usersguide/example_scikit_learn.rst

  Log Message:
  -----------
  Add userguide on sklearn package. Images forthcomming.


  Commit: c3a012ac4925d1d853f4758e9eafea3b6d4f4660
      https://github.com/VisTrails/VisTrails/commit/c3a012ac4925d1d853f4758e9eafea3b6d4f4660
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M examples/sklearn/dimensionality_reduction.vt
    M examples/sklearn/grid_search.vt
    M examples/sklearn/pipeline.vt
    M examples/sklearn/roc_curve.vt
    M examples/sklearn/scoring.vt
    M examples/sklearn/svm_decision_function.vt

  Log Message:
  -----------
  Rename all python source boxes in the examples


  Commit: 10f831d9dae0b7da3a80bd54a09c99fd749b73d6
      https://github.com/VisTrails/VisTrails/commit/10f831d9dae0b7da3a80bd54a09c99fd749b73d6
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M doc/usersguide/example.rst
    M doc/usersguide/example_scikit_learn.rst

  Log Message:
  -----------
  Add sklearn docs to user guide, rearrange a bit.


  Commit: 61f5edb6bd7e518ea3cbd29761e238c1d074c71e
      https://github.com/VisTrails/VisTrails/commit/61f5edb6bd7e518ea3cbd29761e238c1d074c71e
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M .gitignore

  Log Message:
  -----------
  add sphinx build to the .gitignore.


  Commit: c56a21aa05e58bfe7b429ced1b9a2439adfcbe9e
      https://github.com/VisTrails/VisTrails/commit/c56a21aa05e58bfe7b429ced1b9a2439adfcbe9e
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M doc/usersguide/example_scikit_learn.rst
    A doc/usersguide/figures/example_scikit_learn/cross_val_score.png
    A doc/usersguide/figures/example_scikit_learn/grid_search.png
    A doc/usersguide/figures/example_scikit_learn/manifold.png
    A doc/usersguide/figures/example_scikit_learn/nested_cross_validation.png
    A doc/usersguide/figures/example_scikit_learn/pipeline.png
    A doc/usersguide/figures/example_scikit_learn/pipeline_gridsearch.png
    A doc/usersguide/figures/example_scikit_learn/score.png
    A doc/usersguide/figures/example_scikit_learn/train_test_split.png
    A doc/usersguide/figures/example_scikit_learn/transform.png

  Log Message:
  -----------
  Add images to userguide.


  Commit: 225401adf47075b2ffa0050cf1c3f3acb88112a6
      https://github.com/VisTrails/VisTrails/commit/225401adf47075b2ffa0050cf1c3f3acb88112a6
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M doc/usersguide/example_scikit_learn.rst

  Log Message:
  -----------
  minor polish for the sklearn user guide


  Commit: f49b4eaf6c2025417d0d36def4a570ef1f582beb
      https://github.com/VisTrails/VisTrails/commit/f49b4eaf6c2025417d0d36def4a570ef1f582beb
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M doc/usersguide/example_scikit_learn.rst

  Log Message:
  -----------
  Added missing image.


  Commit: 1eb8262e35827826ab9a559df67e87562c24f802
      https://github.com/VisTrails/VisTrails/commit/1eb8262e35827826ab9a559df67e87562c24f802
  Author: Andreas Mueller <amueller at ais.uni-bonn.de>
  Date:   2015-01-12 (Mon, 12 Jan 2015)

  Changed paths:
    M vistrails/packages/sklearn/tests.py

  Log Message:
  -----------
  don't expect too much from arbitrary splits.


  Commit: e2b31b4f4aa21e889f78caf07d0b1df342d7a191
      https://github.com/VisTrails/VisTrails/commit/e2b31b4f4aa21e889f78caf07d0b1df342d7a191
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-14 (Wed, 14 Jan 2015)

  Changed paths:
    M vistrails/core/configuration.py

  Log Message:
  -----------
  Merge pull request #990 from VisTrails/fix-config-unset-field

Fixes unset fields being missing from configuration objects


  Commit: bbfd69879dba33e03aa31daf82ed35deef988ff0
      https://github.com/VisTrails/VisTrails/commit/bbfd69879dba33e03aa31daf82ed35deef988ff0
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-14 (Wed, 14 Jan 2015)

  Changed paths:
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/packages/parallelflow/map.py

  Log Message:
  -----------
  Merge pull request #966 from VisTrails/remove-serialize-interface

Removes Serializable interface


  Commit: 56cdf89b78b9d8722330b0786283b19f4523b63e
      https://github.com/VisTrails/VisTrails/commit/56cdf89b78b9d8722330b0786283b19f4523b63e
  Author: Remi Rampin <remirampin at gmail.com>
  Date:   2015-01-15 (Thu, 15 Jan 2015)

  Changed paths:
    A scripts/add_future_import.py
    M vistrails/core/__init__.py
    M vistrails/core/analogy/__init__.py
    M vistrails/core/analogy/eigen.py
    M vistrails/core/analogy/pipeline_utils.py
    M vistrails/core/api.py
    M vistrails/core/application.py
    M vistrails/core/bundles/__init__.py
    M vistrails/core/bundles/installbundle.py
    M vistrails/core/bundles/pyimport.py
    M vistrails/core/cache/__init__.py
    M vistrails/core/cache/hasher.py
    M vistrails/core/cache/utils.py
    M vistrails/core/collection/__init__.py
    M vistrails/core/collection/entity.py
    M vistrails/core/collection/mashup.py
    M vistrails/core/collection/parameter_exploration.py
    M vistrails/core/collection/search.py
    M vistrails/core/collection/thumbnail.py
    M vistrails/core/collection/vistrail.py
    M vistrails/core/collection/workflow.py
    M vistrails/core/collection/workflow_exec.py
    M vistrails/core/common.py
    M vistrails/core/configuration.py
    M vistrails/core/console_mode.py
    M vistrails/core/data_structures/__init__.py
    M vistrails/core/data_structures/bijectivedict.py
    M vistrails/core/data_structures/graph.py
    M vistrails/core/data_structures/point.py
    M vistrails/core/data_structures/queue.py
    M vistrails/core/data_structures/rect.py
    M vistrails/core/data_structures/stack.py
    M vistrails/core/db/__init__.py
    M vistrails/core/db/action.py
    M vistrails/core/db/io.py
    M vistrails/core/db/locator.py
    M vistrails/core/debug.py
    M vistrails/core/external_connection.py
    M vistrails/core/inspector.py
    M vistrails/core/interpreter/__init__.py
    M vistrails/core/interpreter/base.py
    M vistrails/core/interpreter/cached.py
    M vistrails/core/interpreter/default.py
    M vistrails/core/interpreter/noncached.py
    M vistrails/core/keychain.py
    M vistrails/core/layout/__init__.py
    M vistrails/core/layout/tree_layout.py
    M vistrails/core/layout/version_tree_layout.py
    M vistrails/core/layout/workflow_layout.py
    M vistrails/core/log/__init__.py
    M vistrails/core/log/controller.py
    M vistrails/core/log/group_exec.py
    M vistrails/core/log/log.py
    M vistrails/core/log/loop_exec.py
    M vistrails/core/log/machine.py
    M vistrails/core/log/module_exec.py
    M vistrails/core/log/opm_graph.py
    M vistrails/core/log/prov_document.py
    M vistrails/core/log/workflow_exec.py
    M vistrails/core/mashup/__init__.py
    M vistrails/core/mashup/action.py
    M vistrails/core/mashup/action_annotation.py
    M vistrails/core/mashup/alias.py
    M vistrails/core/mashup/component.py
    M vistrails/core/mashup/controller.py
    M vistrails/core/mashup/mashup.py
    M vistrails/core/mashup/mashup_trail.py
    M vistrails/core/modules/__init__.py
    M vistrails/core/modules/abstraction.py
    M vistrails/core/modules/basic_modules.py
    M vistrails/core/modules/config.py
    M vistrails/core/modules/constant_configuration.py
    M vistrails/core/modules/module_configure.py
    M vistrails/core/modules/module_descriptor.py
    M vistrails/core/modules/module_registry.py
    M vistrails/core/modules/module_utils.py
    M vistrails/core/modules/output_modules.py
    M vistrails/core/modules/package.py
    M vistrails/core/modules/paramexplore.py
    M vistrails/core/modules/python_source_configure.py
    M vistrails/core/modules/query_configuration.py
    M vistrails/core/modules/source_configure.py
    M vistrails/core/modules/sub_module.py
    M vistrails/core/modules/tuple_configuration.py
    M vistrails/core/modules/utils.py
    M vistrails/core/modules/vistrails_module.py
    M vistrails/core/packagemanager.py
    M vistrails/core/packagerepository.py
    M vistrails/core/param_explore.py
    M vistrails/core/paramexplore/__init__.py
    M vistrails/core/paramexplore/function.py
    M vistrails/core/paramexplore/param.py
    M vistrails/core/paramexplore/paramexplore.py
    M vistrails/core/publishing/__init__.py
    M vistrails/core/publishing/parse_latex.py
    M vistrails/core/query/__init__.py
    M vistrails/core/query/combined.py
    M vistrails/core/query/multiple.py
    M vistrails/core/query/version.py
    M vistrails/core/query/visual.py
    M vistrails/core/recent_vistrails.py
    M vistrails/core/repository/__init__.py
    M vistrails/core/repository/poster/__init__.py
    M vistrails/core/repository/poster/encode.py
    M vistrails/core/repository/poster/streaminghttp.py
    M vistrails/core/requirements.py
    M vistrails/core/startup.py
    M vistrails/core/system/__init__.py
    M vistrails/core/system/common.py
    M vistrails/core/system/linux.py
    M vistrails/core/system/mac_site.py
    M vistrails/core/system/osx.py
    M vistrails/core/system/unix.py
    M vistrails/core/system/windows.py
    M vistrails/core/theme.py
    M vistrails/core/thumbnails.py
    M vistrails/core/upgradeworkflow.py
    M vistrails/core/utils/__init__.py
    M vistrails/core/utils/color.py
    M vistrails/core/utils/enum.py
    M vistrails/core/utils/expression.py
    M vistrails/core/utils/gcutils.py
    M vistrails/core/utils/timemethod.py
    M vistrails/core/utils/tracemethod.py
    M vistrails/core/utils/uxml.py
    M vistrails/core/vistrail/__init__.py
    M vistrails/core/vistrail/abstraction.py
    M vistrails/core/vistrail/action.py
    M vistrails/core/vistrail/action_annotation.py
    M vistrails/core/vistrail/annotation.py
    M vistrails/core/vistrail/connection.py
    M vistrails/core/vistrail/controller.py
    M vistrails/core/vistrail/group.py
    M vistrails/core/vistrail/job.py
    M vistrails/core/vistrail/location.py
    M vistrails/core/vistrail/module.py
    M vistrails/core/vistrail/module_control_param.py
    M vistrails/core/vistrail/module_function.py
    M vistrails/core/vistrail/module_param.py
    M vistrails/core/vistrail/operation.py
    M vistrails/core/vistrail/pipeline.py
    M vistrails/core/vistrail/plugin_data.py
    M vistrails/core/vistrail/port.py
    M vistrails/core/vistrail/port_spec.py
    M vistrails/core/vistrail/port_spec_item.py
    M vistrails/core/vistrail/tag.py
    M vistrails/core/vistrail/vistrail.py
    M vistrails/core/vistrail/vistrailvariable.py
    M vistrails/db/__init__.py
    M vistrails/db/bin/__init__.py
    M vistrails/db/bin/auto_gen_objects.py
    M vistrails/db/bin/generate.py
    M vistrails/db/bin/parser.py
    M vistrails/db/bin/sql_gen_objects.py
    M vistrails/db/bin/xml_gen_objects.py
    M vistrails/db/domain/__init__.py
    M vistrails/db/persistence/__init__.py
    M vistrails/db/services/__init__.py
    M vistrails/db/services/abstraction.py
    M vistrails/db/services/action.py
    M vistrails/db/services/action_chain.py
    M vistrails/db/services/io.py
    M vistrails/db/services/locator.py
    M vistrails/db/services/log.py
    M vistrails/db/services/opm.py
    M vistrails/db/services/prov.py
    M vistrails/db/services/query.py
    M vistrails/db/services/registry.py
    M vistrails/db/services/vistrail.py
    M vistrails/db/services/workflow.py
    M vistrails/db/tests/__init__.py
    M vistrails/db/tests/setup_db_tables.py
    M vistrails/db/tests/sql_to_xml.py
    M vistrails/db/tests/xml_to_sql.py
    M vistrails/db/versions/__init__.py
    M vistrails/db/versions/v0_3_0/__init__.py
    M vistrails/db/versions/v0_3_0/domain/__init__.py
    M vistrails/db/versions/v0_3_0/domain/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_3_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_3_0/persistence/xml/io.py
    M vistrails/db/versions/v0_3_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_3_1/__init__.py
    M vistrails/db/versions/v0_3_1/domain/__init__.py
    M vistrails/db/versions/v0_3_1/persistence/__init__.py
    M vistrails/db/versions/v0_3_1/translate/__init__.py
    M vistrails/db/versions/v0_3_1/translate/v0_3_0.py
    M vistrails/db/versions/v0_5_0/__init__.py
    M vistrails/db/versions/v0_5_0/domain/__init__.py
    M vistrails/db/versions/v0_5_0/domain/auto_gen.py
    M vistrails/db/versions/v0_5_0/domain/id_scope.py
    M vistrails/db/versions/v0_5_0/domain/vistrail.py
    M vistrails/db/versions/v0_5_0/domain/workflow.py
    M vistrails/db/versions/v0_5_0/persistence/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_5_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_5_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_5_0/persistence/xml/io.py
    M vistrails/db/versions/v0_5_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_5_0/translate/__init__.py
    M vistrails/db/versions/v0_5_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/__init__.py
    M vistrails/db/versions/v0_6_0/domain/__init__.py
    M vistrails/db/versions/v0_6_0/domain/auto_gen.py
    M vistrails/db/versions/v0_6_0/domain/id_scope.py
    M vistrails/db/versions/v0_6_0/domain/vistrail.py
    M vistrails/db/versions/v0_6_0/domain/workflow.py
    M vistrails/db/versions/v0_6_0/persistence/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_6_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_6_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_6_0/persistence/xml/io.py
    M vistrails/db/versions/v0_6_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_6_0/translate/__init__.py
    M vistrails/db/versions/v0_6_0/translate/v0_3_1.py
    M vistrails/db/versions/v0_6_0/translate/v0_5_0.py
    M vistrails/db/versions/v0_7_0/__init__.py
    M vistrails/db/versions/v0_7_0/domain/__init__.py
    M vistrails/db/versions/v0_7_0/domain/abstraction.py
    M vistrails/db/versions/v0_7_0/domain/auto_gen.py
    M vistrails/db/versions/v0_7_0/domain/id_scope.py
    M vistrails/db/versions/v0_7_0/domain/vistrail.py
    M vistrails/db/versions/v0_7_0/domain/workflow.py
    M vistrails/db/versions/v0_7_0/persistence/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_7_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_7_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_7_0/persistence/xml/io.py
    M vistrails/db/versions/v0_7_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_7_0/translate/__init__.py
    M vistrails/db/versions/v0_7_0/translate/v0_6_0.py
    M vistrails/db/versions/v0_8_0/__init__.py
    M vistrails/db/versions/v0_8_0/domain/__init__.py
    M vistrails/db/versions/v0_8_0/domain/abstraction.py
    M vistrails/db/versions/v0_8_0/domain/auto_gen.py
    M vistrails/db/versions/v0_8_0/domain/id_scope.py
    M vistrails/db/versions/v0_8_0/domain/vistrail.py
    M vistrails/db/versions/v0_8_0/domain/workflow.py
    M vistrails/db/versions/v0_8_0/persistence/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_8_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_8_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_8_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_8_0/translate/__init__.py
    M vistrails/db/versions/v0_8_0/translate/v0_7_0.py
    M vistrails/db/versions/v0_8_1/__init__.py
    M vistrails/db/versions/v0_8_1/domain/__init__.py
    M vistrails/db/versions/v0_8_1/persistence/__init__.py
    M vistrails/db/versions/v0_8_1/translate/__init__.py
    M vistrails/db/versions/v0_8_1/translate/v0_8_0.py
    M vistrails/db/versions/v0_9_0/__init__.py
    M vistrails/db/versions/v0_9_0/domain/__init__.py
    M vistrails/db/versions/v0_9_0/domain/abstraction.py
    M vistrails/db/versions/v0_9_0/domain/auto_gen.py
    M vistrails/db/versions/v0_9_0/domain/id_scope.py
    M vistrails/db/versions/v0_9_0/domain/log.py
    M vistrails/db/versions/v0_9_0/domain/vistrail.py
    M vistrails/db/versions/v0_9_0/domain/workflow.py
    M vistrails/db/versions/v0_9_0/persistence/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/sql/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/sql/sql_dao.py
    M vistrails/db/versions/v0_9_0/persistence/xml/__init__.py
    M vistrails/db/versions/v0_9_0/persistence/xml/auto_gen.py
    M vistrails/db/versions/v0_9_0/persistence/xml/xml_dao.py
    M vistrails/db/versions/v0_9_0/translate/__init__.py
    M vistrails/db/versions/v0_9_0/translate/v0_8_1.py
    M vistrails/db/versions/v0_9_1/__init__.py
    M vistrails/db/versions/v0_9_1/domain/__init__.py
    M vistrails/db/versions/v0_9_1/domain/abstraction.py
    M vistrails/db/versions/v0_9_1/domain/auto_gen.py
    M vistrails/db/versions/v0_9_1/domain/id_scope.py
    M vistrails/db/versions/v0_9_1/domain/log.py
    M vistrails/db/versions/v0_9_1/domain/vistrail.py
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