[vistrails-dev] [GIT] VisTrails: Updates persistent_archive for current master

git-noreply at vistrails.org git-noreply at vistrails.org
Wed Jan 22 18:39:54 EST 2014


The project "VisTrails":

The branch, persistent_archive has been updated
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- Log -----------------------------------------------------------------
commit 8eb53f77d456c56191f65e5b375cc001f4fa18b9
Author: Remi Rampin <remirampin at gmail.com>
Date:   Wed Jan 22 18:25:54 2014 -0500

Updates persistent_archive for current master

commit c396c89a284854cd61114e297b8a4932f238b6fd
Merge: 1e0c878 818eab5
Author: Remi Rampin <remirampin at gmail.com>
Date:   Wed Jan 22 17:48:20 2014 -0500

Merge branch 'master' into 'persistent_archive'

-----------------------------------------------------------------------

Summary of changes:
 contrib/NumSciPy/ArrayAccess.py                    |  104 +-
 contrib/NumSciPy/ArrayConvert.py                   |   40 +-
 contrib/NumSciPy/ArrayIO.py                        |   62 +-
 contrib/NumSciPy/ArrayInterpolate.py               |   38 +-
 contrib/NumSciPy/ArrayOperations.py                |  208 +-
 contrib/NumSciPy/ArrayPlot.py                      |  144 +-
 contrib/NumSciPy/ArrayUtilities.py                 |   48 +-
 contrib/NumSciPy/DSP.py                            |   62 +-
 contrib/NumSciPy/EnsembleOrdering.py               |   36 +-
 contrib/NumSciPy/Filters.py                        |   56 +-
 contrib/NumSciPy/Imaging.py                        |   52 +-
 contrib/NumSciPy/Matrix.py                         |   14 +-
 contrib/NumSciPy/MatrixUtilities.py                |   20 +-
 contrib/NumSciPy/Stockwell.py                      |  126 +-
 contrib/ParaView/PVBase.py                         |    6 +-
 contrib/ParaView/init.py                           |   10 +-
 contrib/ParaView/pvcell.py                         |    2 +-
 contrib/SCIRun/__init__.py                         | 6734 ++++++++++----------
 contrib/SCIRun/cm2viewcell.py                      |    2 +-
 contrib/SCIRun/viewercell.py                       |    2 +-
 contrib/SciPy/DSP.py                               |   42 +-
 contrib/SciPy/Filters.py                           |   56 +-
 contrib/SciPy/MatlabReader.py                      |    8 +-
 contrib/SciPy/MatrixConvert.py                     |   24 +-
 contrib/SciPy/MatrixInfo.py                        |    4 +-
 contrib/SciPy/MatrixOperations.py                  |   66 +-
 contrib/TetGenBridge/CreateTestSurf.py             |    2 +-
 contrib/TetGenBridge/__init__.py                   |   10 +-
 contrib/cdat/__init__.py                           | 6486 ++++++++++----------
 contrib/cdat/cdat_cell.py                          |   92 +-
 contrib/cdat/quickplot.py                          |   16 +-
 contrib/cdat/scripts/cdat_domain.py                |   24 +-
 contrib/cdat/scripts/gen_init.py                   |   38 +-
 contrib/cdat/scripts/old_cdat_init.py              |  234 +-
 contrib/edu_utah_sci_cscheid_macet/__init__.py     |   20 +-
 contrib/edu_utah_sci_cscheid_metro/__init__.py     |   20 +-
 contrib/edu_utah_sci_cscheid_teem/__init__.py      |  196 +-
 .../edu_utah_sci_eranders_proteindatabank/PDB.py   |   34 +-
 contrib/edu_utah_sci_vgc_afront/__init__.py        |   38 +-
 contrib/itk/FeatureExtractionFilters.py            |   66 +-
 contrib/itk/GradientFilters.py                     |   20 +-
 contrib/itk/ITK.py                                 |   40 +-
 contrib/itk/Image.py                               |    8 +-
 contrib/itk/ImageReader.py                         |   44 +-
 contrib/itk/IntensityFilters.py                    |  120 +-
 contrib/itk/NeighborhoodFilters.py                 |   64 +-
 contrib/itk/PixelType.py                           |    8 +-
 contrib/itk/SegmentationFilters.py                 |  130 +-
 contrib/itk/SelectionFilters.py                    |   84 +-
 contrib/itk/SmoothingFilters.py                    |  190 +-
 contrib/itk/ThresholdFilters.py                    |   34 +-
 contrib/itk/filter_generator.py                    |   28 +-
 contrib/meshutils.py                               |   20 +-
 contrib/mobile/__init__.py                         |   74 +-
 contrib/pc3/__init__.py                            |  178 +-
 contrib/poissonrecon.py                            |   16 +-
 contrib/provenance/__init__.py                     |   40 +-
 contrib/provenance2/__init__.py                    |   66 +-
 contrib/sahm/SahmOutputViewer.py                   |   12 +-
 contrib/sahm/SahmSpatialOutputViewer.py            |   10 +-
 contrib/sahm/init.py                               |  220 +-
 contrib/sahm/utils.py                              |    8 +-
 contrib/stem/init.py                               |  134 +-
 contrib/titan/base_module.py                       |  404 +-
 contrib/titan/init.py                              |   10 +-
 contrib/titan/inspectors.py                        |  460 +-
 contrib/titan/offscreen.py                         |  120 +-
 contrib/titan/tf_widget.py                         | 1148 ++--
 contrib/titan/vtkcell.py                           | 2186 ++++----
 contrib/titan/vtkhandler.py                        |  578 +-
 contrib/titan/vtkviewcell.py                       |    2 +-
 contrib/trimesh2.py                                |   24 +-
 contrib/vtksnl/base_module.py                      |  404 +-
 contrib/vtksnl/init.py                             |   10 +-
 contrib/vtksnl/inspectors.py                       |  460 +-
 contrib/vtksnl/offscreen.py                        |  122 +-
 contrib/vtksnl/tf_widget.py                        | 1148 ++--
 contrib/vtksnl/vtkcell.py                          | 2186 ++++----
 contrib/vtksnl/vtkhandler.py                       |  580 +-
 contrib/vtksnl/vtkviewcell.py                      |    2 +-
 dist/common/splash/splash.svg                      |    2 +-
 dist/mac/Input/LICENSE                             |    2 +-
 dist/mac/Input/README                              |   59 +-
 dist/mac/fix_itk_libraries.py                      |    2 +-
 dist/mac/fix_qtplugin_libs.py                      |    2 +-
 dist/mac/make_app                                  |    2 +-
 dist/mac/setup.py                                  |    4 +-
 dist/source/make-vistrails-src-release.py          |    4 +-
 dist/ubuntu/create_debian_pkg.sh                   |    2 +-
 dist/windows/Input/download_usersguide.py          |    2 +-
 dist/windows/Input/license.txt                     |    2 +-
 dist/windows/Input/releaseNotes.txt                |   58 +-
 dist/windows/Input/runvistrails.py                 |    2 +-
 dist/windows/Input/startup.py                      |    2 +-
 dist/windows/custom/vistrails-gdal.iss             |    4 +-
 dist/windows/custom/vistrailsx64-gdal.iss          |    4 +-
 dist/windows/vistrails.iss                         |    4 +-
 dist/windows/vistrailsx64.iss                      |    4 +-
 doc/usersguide/Makefile                            |    2 +-
 doc/usersguide/_static/mystyle.css                 |    6 +-
 doc/usersguide/analogies.rst                       |    2 +-
 doc/usersguide/api_documentation.rst               |  118 +
 doc/usersguide/batch.rst                           |    2 +-
 doc/usersguide/conf.py                             |    4 +-
 doc/usersguide/controlflow.rst                     |   69 +-
 doc/usersguide/controlflowdev.rst                  |    8 +-
 doc/usersguide/creating.rst                        |    2 +-
 doc/usersguide/developer.rst                       |    1 +
 doc/usersguide/example.rst                         |    4 +-
 doc/usersguide/example_itk.rst                     |    2 +-
 doc/usersguide/example_webservices.rst             |   27 +-
 doc/usersguide/figures/controlflow/If_Example.png  |  Bin 0 -> 31828 bytes
 .../figures/example_webservices/modules_list.png   |  Bin 51686 -> 13679 bytes
 .../figures/example_webservices/pythonsource.png   |  Bin 83521 -> 0 bytes
 .../example_webservices/version_tree_modules.png   |  Bin 30732 -> 0 bytes
 .../figures/example_webservices/ws_preferences.png |  Bin 188786 -> 0 bytes
 .../figures/packages/CustomColorShape1.png         |  Bin 24759 -> 0 bytes
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 extensions/latex/example.tex                       |    2 +-
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 extensions/latex/includevistrail.py                |    2 +-
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 scripts/gen_vtk_examples/copy_vtk_examples.py      |    2 +-
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 scripts/gen_vtk_examples/get_vtk_examples.py       |    2 +-
 scripts/gen_vtk_examples/vtk_imposter.py           |    2 +-
 scripts/gen_vtk_examples/vtk_to_vt.py              |    2 +-
 scripts/generate_pkg_doc.py                        |  145 +
 scripts/mac_update_bin.sh                          |    2 +-
 scripts/merge_vistrails.py                         |    2 +-
 scripts/module_appearance/main.py                  |    2 +-
 scripts/module_appearance/module_appearance.py     |    2 +-
 scripts/opm/opm2dot.py                             |    2 +-
 scripts/release_notes.py                           |  134 +-
 scripts/restart-vistrails-server.sh                |    2 +-
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 scripts/run_vistrails_batch_xvfb.sh                |    2 +-
 scripts/sql_delete.py                              |    2 +-
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 scripts/start_vistrails.sh                         |    2 +-
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 scripts/system_info.py                             |    2 +-
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 scripts/update_copyright_year.py                   |   10 +-
 scripts/update_db.py                               |    2 +-
 scripts/update_email_contact.py                    |    2 +-
 scripts/update_hash.py                             |   30 +
 scripts/update_to_mod_bsd_license.py               |    2 +-
 scripts/update_vistrails_command.py                |    2 +-
 scripts/watch_vistrail_servers.py                  |    2 +-
 scripts/win_update_bin.sh                          |    2 +-
 vistrails/__init__.py                              |    2 +-
 vistrails/api/__init__.py                          |   10 +-
 vistrails/core/__init__.py                         |    2 +-
 vistrails/core/analogy/__init__.py                 |    2 +-
 vistrails/core/analogy/eigen.py                    |    2 +-
 vistrails/core/analogy/pipeline_utils.py           |    2 +-
 vistrails/core/application.py                      |   41 +-
 vistrails/core/bundles/__init__.py                 |    2 +-
 vistrails/core/bundles/installbundle.py            |    2 +-
 vistrails/core/bundles/pyimport.py                 |    2 +-
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 vistrails/core/collection/__init__.py              |    5 +-
 vistrails/core/collection/entity.py                |    2 +-
 vistrails/core/collection/mashup.py                |    2 +-
 vistrails/core/collection/parameter_exploration.py |    2 +-
 vistrails/core/collection/schema.sql               |    2 +-
 vistrails/core/collection/search.py                |    2 +-
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 vistrails/core/collection/vistrail.py              |    2 +-
 vistrails/core/collection/workflow.py              |    2 +-
 vistrails/core/collection/workflow_exec.py         |    2 +-
 vistrails/core/command_line.py                     |    2 +-
 vistrails/core/common.py                           |    3 +-
 vistrails/core/configuration.py                    |   16 +-
 vistrails/core/console_mode.py                     |   37 +-
 vistrails/core/data_structures/__init__.py         |    2 +-
 vistrails/core/data_structures/bijectivedict.py    |   16 +-
 vistrails/core/data_structures/graph.py            |    2 +-
 vistrails/core/data_structures/point.py            |    2 +-
 vistrails/core/data_structures/queue.py            |    2 +-
 vistrails/core/data_structures/rect.py             |    2 +-
 vistrails/core/data_structures/stack.py            |    2 +-
 vistrails/core/db/__init__.py                      |    2 +-
 vistrails/core/db/action.py                        |    2 +-
 vistrails/core/db/io.py                            |    2 +-
 vistrails/core/db/locator.py                       |   23 +-
 vistrails/core/debug.py                            |  215 +-
 vistrails/core/external_connection.py              |   69 +-
 vistrails/core/inspector.py                        |    2 +-
 vistrails/core/interpreter/__init__.py             |    2 +-
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 vistrails/core/interpreter/cached.py               |  461 +-
 vistrails/core/interpreter/default.py              |    2 +-
 vistrails/core/interpreter/job.py                  |  633 ++
 vistrails/core/interpreter/noncached.py            |    2 +-
 vistrails/core/interpreter/utils.py                |   10 +-
 vistrails/core/keychain.py                         |    2 +-
 vistrails/core/layout/__init__.py                  |    2 +-
 vistrails/core/layout/tree_layout.py               |    2 +-
 vistrails/core/layout/version_tree_layout.py       |    2 +-
 vistrails/core/layout/workflow_layout.py           |    2 +-
 vistrails/core/log/__init__.py                     |    2 +-
 vistrails/core/log/controller.py                   |  502 +-
 vistrails/core/log/group_exec.py                   |    2 +-
 vistrails/core/log/log.py                          |   14 +-
 vistrails/core/log/loop_exec.py                    |   64 +-
 vistrails/core/log/machine.py                      |    2 +-
 vistrails/core/log/module_exec.py                  |    2 +-
 vistrails/core/log/opm_graph.py                    |    2 +-
 vistrails/core/log/prov_document.py                |    2 +-
 vistrails/core/log/workflow_exec.py                |   15 +-
 vistrails/core/mashup/__init__.py                  |    2 +-
 vistrails/core/mashup/alias.py                     |    2 +-
 vistrails/core/mashup/component.py                 |    2 +-
 vistrails/core/mashup/controller.py                |    2 +-
 vistrails/core/mashup/mashup.py                    |    2 +-
 vistrails/core/mashup/mashup_trail.py              |    2 +-
 vistrails/core/modules/__init__.py                 |    2 +-
 vistrails/core/modules/abstraction.py              |   12 +-
 vistrails/core/modules/basic_modules.py            |  696 +--
 vistrails/core/modules/config.py                   |  536 ++
 vistrails/core/modules/constant_configuration.py   |    2 +-
 vistrails/core/modules/module_configure.py         |    2 +-
 vistrails/core/modules/module_descriptor.py        |   43 +-
 vistrails/core/modules/module_registry.py          |  562 +-
 vistrails/core/modules/module_utils.py             |   42 +-
 vistrails/core/modules/package.py                  |   21 +-
 vistrails/core/modules/paramexplore.py             |    4 +-
 vistrails/core/modules/python_source_configure.py  |    2 +-
 vistrails/core/modules/query_configuration.py      |    2 +-
 vistrails/core/modules/source_configure.py         |    2 +-
 vistrails/core/modules/sub_module.py               |  254 +-
 vistrails/core/modules/tuple_configuration.py      |    2 +-
 vistrails/core/modules/utils.py                    |   19 +-
 vistrails/core/modules/vistrails_module.py         |  587 ++-
 vistrails/core/packagemanager.py                   |   37 +-
 vistrails/core/packagerepository.py                |    2 +-
 vistrails/core/param_explore.py                    |    2 +-
 vistrails/core/paramexplore/__init__.py            |    2 +-
 vistrails/core/paramexplore/function.py            |    2 +-
 vistrails/core/paramexplore/param.py               |    2 +-
 vistrails/core/paramexplore/paramexplore.py        |    2 +-
 vistrails/core/publishing/__init__.py              |    2 +-
 vistrails/core/publishing/parse_latex.py           |    2 +-
 vistrails/core/query/__init__.py                   |    2 +-
 vistrails/core/query/combined.py                   |    2 +-
 vistrails/core/query/multiple.py                   |    2 +-
 vistrails/core/query/version.py                    |    2 +-
 vistrails/core/query/visual.py                     |    2 +-
 vistrails/core/recent_vistrails.py                 |    2 +-
 vistrails/core/repository/__init__.py              |    2 +-
 vistrails/core/repository/poster/__init__.py       |    2 +-
 vistrails/core/repository/poster/encode.py         |    2 +-
 vistrails/core/repository/poster/streaminghttp.py  |    2 +-
 vistrails/core/requirements.py                     |   11 +-
 vistrails/core/startup.py                          |    8 +-
 vistrails/core/system/__init__.py                  |   13 +-
 vistrails/core/system/linux.py                     |    8 +-
 vistrails/core/system/mac_site.py                  |   15 +-
 vistrails/core/system/osx.py                       |    2 +-
 vistrails/core/system/unix.py                      |    2 +-
 vistrails/core/system/windows.py                   |    2 +-
 vistrails/core/theme.py                            |    2 +-
 vistrails/core/thumbnails.py                       |   20 +-
 vistrails/core/upgradeworkflow.py                  |    2 +-
 vistrails/core/utils/__init__.py                   |  143 +-
 vistrails/core/utils/color.py                      |    2 +-
 vistrails/core/utils/enum.py                       |    2 +-
 vistrails/core/utils/expression.py                 |    2 +-
 vistrails/core/utils/gcutils.py                    |    2 +-
 vistrails/core/utils/lockmethod.py                 |   99 -
 vistrails/core/utils/timemethod.py                 |    2 +-
 vistrails/core/utils/tracemethod.py                |    2 +-
 vistrails/core/utils/uxml.py                       |    2 +-
 vistrails/core/vistrail/__init__.py                |    2 +-
 vistrails/core/vistrail/abstraction.py             |    2 +-
 vistrails/core/vistrail/action.py                  |    2 +-
 vistrails/core/vistrail/action_annotation.py       |    2 +-
 vistrails/core/vistrail/annotation.py              |    2 +-
 vistrails/core/vistrail/connection.py              |    4 +-
 vistrails/core/vistrail/controller.py              |  178 +-
 vistrails/core/vistrail/group.py                   |    2 +-
 vistrails/core/vistrail/location.py                |    2 +-
 vistrails/core/vistrail/module.py                  |    2 +-
 vistrails/core/vistrail/module_function.py         |    2 +-
 vistrails/core/vistrail/module_param.py            |    2 +-
 vistrails/core/vistrail/operation.py               |    2 +-
 vistrails/core/vistrail/pipeline.py                |   28 +-
 vistrails/core/vistrail/plugin_data.py             |    2 +-
 vistrails/core/vistrail/port.py                    |    2 +-
 vistrails/core/vistrail/port_spec.py               |    2 +-
 vistrails/core/vistrail/port_spec_item.py          |    2 +-
 vistrails/core/vistrail/tag.py                     |    2 +-
 vistrails/core/vistrail/vistrail.py                |   10 +-
 vistrails/core/vistrail/vistrailvariable.py        |    2 +-
 vistrails/db/__init__.py                           |    2 +-
 vistrails/db/bin/__init__.py                       |    2 +-
 vistrails/db/bin/auto_gen_objects.py               |    2 +-
 vistrails/db/bin/generate.py                       |    4 +-
 vistrails/db/bin/parser.py                         |    2 +-
 vistrails/db/bin/sql_gen_objects.py                |    2 +-
 vistrails/db/bin/templates/domain.py.mako          |    2 +-
 vistrails/db/bin/templates/sql.py.mako             |    2 +-
 vistrails/db/bin/templates/sql_delete.sql.mako     |    2 +-
 vistrails/db/bin/templates/sql_schema.sql.mako     |    2 +-
 vistrails/db/bin/templates/xml.py.mako             |    2 +-
 vistrails/db/bin/templates/xml_schema.xsd.mako     |    2 +-
 vistrails/db/bin/xml_gen_objects.py                |    2 +-
 vistrails/db/domain/__init__.py                    |    3 +-
 vistrails/db/persistence/__init__.py               |    3 +-
 vistrails/db/services/__init__.py                  |    2 +-
 vistrails/db/services/abstraction.py               |    2 +-
 vistrails/db/services/action.py                    |    2 +-
 vistrails/db/services/action_chain.py              |    2 +-
 vistrails/db/services/io.py                        |   30 +-
 vistrails/db/services/locator.py                   |   12 +-
 vistrails/db/services/log.py                       |    2 +-
 vistrails/db/services/opm.py                       |    2 +-
 vistrails/db/services/prov.py                      |    2 +-
 vistrails/db/services/query.py                     |    2 +-
 vistrails/db/services/registry.py                  |    2 +-
 vistrails/db/services/vistrail.py                  |    2 +-
 vistrails/db/services/workflow.py                  |    2 +-
 vistrails/db/specs/all.xml                         |  112 +-
 vistrails/db/tests/__init__.py                     |    2 +-
 vistrails/db/tests/setup_db_tables.py              |    2 +-
 vistrails/db/tests/sql_to_xml.py                   |    2 +-
 vistrails/db/tests/xml_to_sql.py                   |    2 +-
 vistrails/db/versions/__init__.py                  |    2 +-
 vistrails/db/versions/v0_3_0/__init__.py           |    2 +-
 vistrails/db/versions/v0_3_0/domain/__init__.py    |    2 +-
 vistrails/db/versions/v0_3_0/domain/auto_gen.py    |    2 +-
 .../db/versions/v0_3_0/persistence/__init__.py     |    2 +-
 .../db/versions/v0_3_0/persistence/xml/__init__.py |    2 +-
 .../db/versions/v0_3_0/persistence/xml/auto_gen.py |    2 +-
 vistrails/db/versions/v0_3_0/persistence/xml/io.py |    2 +-
 .../db/versions/v0_3_0/persistence/xml/xml_dao.py  |    2 +-
 .../db/versions/v0_3_0/schemas/xml/vistrail.xsd    |    2 +-
 vistrails/db/versions/v0_3_0/specs/action.xml      |    2 +-
 .../db/versions/v0_3_0/specs/addConnection.xml     |    2 +-
 vistrails/db/versions/v0_3_0/specs/addModule.xml   |    2 +-
 .../db/versions/v0_3_0/specs/addModulePort.xml     |    2 +-
 .../db/versions/v0_3_0/specs/changeAnnotation.xml  |    2 +-
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 .../db/versions/v0_3_0/specs/deleteModule.xml      |    2 +-
 .../db/versions/v0_3_0/specs/deleteModulePort.xml  |    2 +-
 vistrails/db/versions/v0_3_0/specs/moveModule.xml  |    2 +-
 vistrails/db/versions/v0_3_0/specs/tag.xml         |    2 +-
 vistrails/db/versions/v0_3_0/specs/vistrail.xml    |    2 +-
 vistrails/db/versions/v0_3_1/__init__.py           |    2 +-
 vistrails/db/versions/v0_3_1/domain/__init__.py    |    2 +-
 .../db/versions/v0_3_1/persistence/__init__.py     |    2 +-
 .../db/versions/v0_3_1/schemas/xml/vistrail.xsd    |    2 +-
 vistrails/db/versions/v0_3_1/specs/action.xml      |    2 +-
 .../db/versions/v0_3_1/specs/addConnection.xml     |    2 +-
 vistrails/db/versions/v0_3_1/specs/addModule.xml   |    2 +-
 .../db/versions/v0_3_1/specs/addModulePort.xml     |    2 +-
 .../db/versions/v0_3_1/specs/changeAnnotation.xml  |    2 +-
 .../db/versions/v0_3_1/specs/changeParameter.xml   |    2 +-
 .../db/versions/v0_3_1/specs/deleteAnnotation.xml  |    2 +-
 .../db/versions/v0_3_1/specs/deleteConnection.xml  |    2 +-
 .../db/versions/v0_3_1/specs/deleteFunction.xml    |    2 +-
 .../db/versions/v0_3_1/specs/deleteModule.xml      |    2 +-
 .../db/versions/v0_3_1/specs/deleteModulePort.xml  |    2 +-
 vistrails/db/versions/v0_3_1/specs/moveModule.xml  |    2 +-
 vistrails/db/versions/v0_3_1/specs/tag.xml         |    2 +-
 vistrails/db/versions/v0_3_1/specs/vistrail.xml    |    2 +-
 vistrails/db/versions/v0_3_1/translate/__init__.py |    2 +-
 vistrails/db/versions/v0_3_1/translate/v0_3_0.py   |    2 +-
 vistrails/db/versions/v0_5_0/__init__.py           |    2 +-
 vistrails/db/versions/v0_5_0/domain/__init__.py    |    2 +-
 vistrails/db/versions/v0_5_0/domain/auto_gen.py    |    2 +-
 vistrails/db/versions/v0_5_0/domain/id_scope.py    |    2 +-
 vistrails/db/versions/v0_5_0/domain/vistrail.py    |    2 +-
 vistrails/db/versions/v0_5_0/domain/workflow.py    |    2 +-
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 .../db/versions/v0_5_0/persistence/xml/__init__.py |    2 +-
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 vistrails/db/versions/v0_5_0/persistence/xml/io.py |    2 +-
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 .../db/versions/v0_5_0/schemas/sql/vistrails.sql   |    2 +-
 .../versions/v0_5_0/schemas/sql/vistrails_drop.sql |    2 +-
 vistrails/db/versions/v0_5_0/schemas/xml/log.xsd   |    2 +-
 .../db/versions/v0_5_0/schemas/xml/vistrail.xsd    |    2 +-
 .../db/versions/v0_5_0/schemas/xml/workflow.xsd    |    2 +-
 vistrails/db/versions/v0_5_0/specs/action.xml      |    2 +-
 vistrails/db/versions/v0_5_0/specs/add.xml         |    2 +-
 vistrails/db/versions/v0_5_0/specs/annotation.xml  |    2 +-
 vistrails/db/versions/v0_5_0/specs/change.xml      |    2 +-
 vistrails/db/versions/v0_5_0/specs/connection.xml  |    2 +-
 vistrails/db/versions/v0_5_0/specs/delete.xml      |    2 +-
 vistrails/db/versions/v0_5_0/specs/execRec.xml     |    2 +-
 vistrails/db/versions/v0_5_0/specs/function.xml    |    2 +-
 vistrails/db/versions/v0_5_0/specs/location.xml    |    2 +-
 vistrails/db/versions/v0_5_0/specs/log.xml         |    2 +-
 vistrails/db/versions/v0_5_0/specs/machine.xml     |    2 +-
 vistrails/db/versions/v0_5_0/specs/macro.xml       |    2 +-
 vistrails/db/versions/v0_5_0/specs/module.xml      |    2 +-
 vistrails/db/versions/v0_5_0/specs/other.xml       |    2 +-
 vistrails/db/versions/v0_5_0/specs/parameter.xml   |    2 +-
 vistrails/db/versions/v0_5_0/specs/port.xml        |    2 +-
 vistrails/db/versions/v0_5_0/specs/portSpec.xml    |    2 +-
 vistrails/db/versions/v0_5_0/specs/session.xml     |    2 +-
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 vistrails/gui/qt.py                                |   38 +-
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 vistrails/packages/matplotlib/artists.py           | 2843 +++++----
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 vistrails/packages/matplotlib/plots.py             | 2333 ++++----
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 vistrails/packages/tabledata/__init__.py           |   11 +
 vistrails/packages/tabledata/common.py             |  101 +-
 .../packages/tabledata/convert/convert_dates.py    |   29 +-
 vistrails/packages/tabledata/identifiers.py        |    2 +-
 vistrails/packages/tabledata/init.py               |   32 +-
 vistrails/packages/tabledata/read/read_csv.py      |   83 +-
 vistrails/packages/tabledata/read/read_excel.py    |   97 +-
 vistrails/packages/tabledata/read/read_numpy.py    |   27 +-
 vistrails/packages/tabledata/viewer.py             |    2 +-
 vistrails/packages/tabledata/widgets.py            |  215 +
 vistrails/packages/tabledata/write/__init__.py     |   99 +
 vistrails/packages/tabledata/write/write_csv.py    |   59 +
 vistrails/packages/tabledata/write/write_excel.py  |   51 +
 vistrails/packages/tabledata/write/write_numpy.py  |  105 +
 vistrails/packages/vtk/__init__.py                 |    2 +-
 vistrails/packages/vtk/base_module.py              |   18 +-
 vistrails/packages/vtk/class_tree.py               |    2 +-
 vistrails/packages/vtk/fix_classes.py              |    2 +-
 vistrails/packages/vtk/hasher.py                   |    2 +-
 vistrails/packages/vtk/init.py                     |   13 +-
 vistrails/packages/vtk/inspectors.py               |   32 +-
 vistrails/packages/vtk/offscreen.py                |   10 +-
 vistrails/packages/vtk/tf_widget.py                |   20 +-
 vistrails/packages/vtk/vtk_parser.py               |    2 +-
 vistrails/packages/vtk/vtkcell.py                  |   24 +-
 vistrails/packages/vtk/vtkcell_rc.py               |    2 +-
 vistrails/packages/vtk/vtkhandler.py               |    8 +-
 vistrails/packages/vtk/vtkviewcell.py              |   14 +-
 vistrails/packages/vtlcreator/__init__.py          |    2 +-
 vistrails/packages/vtlcreator/init.py              |   28 +-
 vistrails/packages/webServices/__init__.py         |    2 +-
 .../packages/webServices/enumeration_widget.py     |    2 +-
 vistrails/packages/webServices/init.py             |   62 +-
 vistrails/run.py                                   |   18 +-
 vistrails/stop_vistrails_server.py                 |    2 +-
 vistrails/tests/__init__.py                        |    2 +-
 vistrails/tests/resources/__init__.py              |    2 +-
 vistrails/tests/resources/console_mode_test.py     |   10 +-
 vistrails/tests/resources/dummy.xml                |    2 +-
 vistrails/tests/resources/dummy_broken.xml         |    2 +-
 vistrails/tests/resources/dummy_new.xml            |    2 +-
 vistrails/tests/resources/dynamic_module_error.xml |    2 +-
 vistrails/tests/resources/empty_bookmarks.xml      |    2 +-
 vistrails/tests/resources/pythonsource.xml         |    2 +-
 vistrails/tests/resources/test_alias.xml           |    2 +-
 vistrails/tests/resources/test_ticket_73.xml       |    2 +-
 vistrails/tests/resources/vtk.xml                  |    2 +-
 vistrails/tests/runtestsuite.py                    |   14 +-
 vistrails/tests/utils.py                           |   12 +-
 vistrails/vistrails_server.py                      |    5 +-
 1136 files changed, 27286 insertions(+), 26825 deletions(-)
 create mode 100644 doc/usersguide/api_documentation.rst
 create mode 100644 doc/usersguide/figures/controlflow/If_Example.png
 delete mode 100644 doc/usersguide/figures/example_webservices/pythonsource.png
 delete mode 100644 doc/usersguide/figures/example_webservices/version_tree_modules.png
 delete mode 100644 doc/usersguide/figures/example_webservices/ws_preferences.png
 delete mode 100644 doc/usersguide/figures/packages/CustomColorShape1.png
 delete mode 100644 doc/usersguide/figures/packages/CustomColorShape2.png
 delete mode 100644 doc/usersguide/figures/packages/CustomColorShape3.png
 delete mode 100644 doc/usersguide/figures/packages/after_enabled_package.png
 create mode 100644 doc/usersguide/figures/packages/custom_documentation.png
 create mode 100644 doc/usersguide/figures/packages/fancy_module1.png
 create mode 100644 doc/usersguide/figures/packages/fancy_module2.png
 create mode 100644 doc/usersguide/figures/packages/fancy_module3.png
 create mode 100644 doc/usersguide/figures/packages/fancy_ports.png
 delete mode 100644 doc/usersguide/figures/parameter_exploration/fig6_1.png
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 delete mode 100644 doc/usersguide/figures/querying/query4.png
 delete mode 100644 doc/usersguide/figures/spreadsheet/spreadsheet_cell_control.png
 delete mode 100644 doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode.png
 delete mode 100644 doc/usersguide/figures/spreadsheet/spreadsheet_editing_mode_move.png
 create mode 100644 doc/usersguide/figures/tabledata/pipeline.png
 create mode 100644 doc/usersguide/figures/tabledata/results.png
 delete mode 100644 doc/usersguide/figures/version_tree/collapsed.png
 delete mode 100644 doc/usersguide/figures/version_tree/creating_versions.png
 delete mode 100644 doc/usersguide/figures/version_tree/expanded.png
 create mode 100644 doc/usersguide/pythoncalc_file1.rst
 create mode 100644 doc/usersguide/tabledata.rst
 create mode 100644 doc/usersguide/vtl/bikes.vtl
 create mode 100644 doc/usersguide/vtl/gcd.vtl
 create mode 100644 examples/bikes.vt
 create mode 100644 examples/gcd.vt
 delete mode 100644 examples/gcd.xml
 create mode 100644 examples/primes.vt
 delete mode 100644 examples/primes.xml
 create mode 100644 scripts/generate_pkg_doc.py
 create mode 100755 scripts/update_hash.py
 create mode 100644 vistrails/core/interpreter/job.py
 create mode 100644 vistrails/core/modules/config.py
 delete mode 100644 vistrails/core/utils/lockmethod.py
 create mode 100644 vistrails/gui/modules/utils.py
 delete mode 100644 vistrails/packages/persistence_exp/__init__.py
 delete mode 100644 vistrails/packages/persistence_exp/init.py
 create mode 100644 vistrails/packages/tabledata/widgets.py
 create mode 100644 vistrails/packages/tabledata/write/__init__.py
 create mode 100644 vistrails/packages/tabledata/write/write_csv.py
 create mode 100644 vistrails/packages/tabledata/write/write_excel.py
 create mode 100644 vistrails/packages/tabledata/write/write_numpy.py

-- 
VisTrails
git clone git at vgc.poly.edu:vistrails


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