[galaxy-commits] [galaxyproject/galaxy] a078ee: Move form augmentation to form handler

18 Aug 2017


      Branch: refs/heads/dev
  Home:   https://github.com/galaxyproject/galaxy
  Commit: a078ee025f02732e108cf2d790e18cc826829ac5
      https://github.com/galaxyproject/galaxy/commit/a078ee025f02732e108cf2d790e18...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-15 (Tue, 15 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Move form augmentation to form handler


  Commit: abe8117b650bb9ab6575294d2892d33daeb32e4b
      https://github.com/galaxyproject/galaxy/commit/abe8117b650bb9ab6575294d2892d...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-15 (Tue, 15 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/scripts/mvc/workflow/workflow-forms.js

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

Fix


  Commit: 338abee984c6915a3f32f60ff1c448245c030376
      https://github.com/galaxyproject/galaxy/commit/338abee984c6915a3f32f60ff1c44...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Separate input augmentation helpers from form views, augment inputs for regular form


  Commit: 7af41d472f360c02d41e9113307385141e85ade6
      https://github.com/galaxyproject/galaxy/commit/7af41d472f360c02d41e911330738...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Simplify form wrapper calling


  Commit: 73d6bd09d30859ca3dfd14debc8f20ed750598a9
      https://github.com/galaxyproject/galaxy/commit/73d6bd09d30859ca3dfd14debc8f2...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Restore build model bypass

Pack


  Commit: 1fc4bb1a62d493412f9b28a30c806d10c56474cf
      https://github.com/galaxyproject/galaxy/commit/1fc4bb1a62d493412f9b28a30c806...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/apps/admin.js
    M client/galaxy/scripts/apps/panels/admin-panel.js
    M client/galaxy/scripts/galaxy.pages.js
    M client/galaxy/scripts/mvc/collection/list-collection-creator.js
    M client/galaxy/scripts/mvc/dataset/data.js
    M client/galaxy/scripts/mvc/grid/grid-template.js
    M client/galaxy/scripts/mvc/grid/grid-view.js
    M client/galaxy/scripts/mvc/job/job-params.js
    M client/galaxy/scripts/mvc/library/library-dataset-view.js
    M client/galaxy/scripts/mvc/library/library-folder-view.js
    M client/galaxy/scripts/mvc/library/library-folderlist-view.js
    M client/galaxy/scripts/mvc/library/library-folderrow-view.js
    M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
    M client/galaxy/scripts/mvc/library/library-library-view.js
    M client/galaxy/scripts/mvc/library/library-libraryrow-view.js
    M client/galaxy/scripts/mvc/library/library-model.js
    M client/galaxy/scripts/mvc/tool/tool-form-composite.js
    M client/galaxy/scripts/mvc/toolshed/categories-view.js
    M client/galaxy/scripts/mvc/toolshed/repo-status-view.js
    M client/galaxy/scripts/mvc/toolshed/repositories-view.js
    M client/galaxy/scripts/mvc/toolshed/repository-queue-view.js
    M client/galaxy/scripts/mvc/toolshed/repository-view.js
    M client/galaxy/scripts/mvc/toolshed/util.js
    M client/galaxy/scripts/mvc/toolshed/workflows-view.js
    M client/galaxy/scripts/mvc/ui/ui-drilldown.js
    M client/galaxy/scripts/mvc/ui/ui-popover.js
    M client/galaxy/scripts/mvc/ui/ui-select-default.js
    M client/galaxy/scripts/mvc/upload/upload-ftp.js
    M client/galaxy/scripts/mvc/upload/upload-view.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M client/galaxy/scripts/mvc/workflow/workflow-manager.js
    M client/galaxy/scripts/mvc/workflow/workflow-node.js
    M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M client/galaxy/scripts/reports_webapp/run_stats.js
    M client/galaxy/scripts/ui/scroll-panel.js
    M client/galaxy/scripts/utils/graph.js
    M client/galaxy/scripts/utils/uploadbox.js
    M client/galaxy/scripts/viz/circster.js
    M client/galaxy/scripts/viz/phyloviz.js
    M client/galaxy/scripts/viz/trackster/painters.js
    M client/galaxy/scripts/viz/trackster/tracks.js
    M client/toolshed/scripts/mvc/groups/group-list-view.js
    M config/plugins/interactive_environments/rstudio/static/js/crypto/base64.js
    M config/plugins/interactive_environments/rstudio/static/js/crypto/rstudio.big.js
    M config/plugins/interactive_environments/rstudio/static/js/crypto/rstudio/base64.js
    M config/plugins/interactive_environments/rstudio/static/js/crypto/wu/base64.js
    M config/plugins/visualizations/charts/static/client/components/screenshot.js
    M config/plugins/visualizations/charts/static/repository/plugins/biojs/drawrnajs/views/optspanel.js
    M config/plugins/visualizations/charts/static/repository/plugins/biojs/drawrnajs/views/vispanel.js
    M config/plugins/visualizations/charts/static/repository/visualizations/utilities/tabular-form.js
    M config/plugins/visualizations/charts/static/repository/visualizations/utilities/tabular-utilities.js
    M config/plugins/visualizations/graphviz/static/js/toolPanelFunctions.js
    M config/plugins/webhooks/demo/search/static/script.js
    M lib/galaxy/security/__init__.py
    M lib/galaxy/tools/__init__.py
    M lib/galaxy/web/proxy/js/lib/proxy.js
    M lib/galaxy/webapps/galaxy/buildapp.py
    M lib/galaxy/webapps/galaxy/controllers/admin.py
    M lib/tool_shed/util/admin_util.py
    M scripts/communication/template/communication.js
    M static/maps/galaxy.pages.js.map
    M static/maps/mvc/collection/list-collection-creator.js.map
    M static/maps/mvc/dataset/data.js.map
    M static/maps/mvc/grid/grid-template.js.map
    M static/maps/mvc/grid/grid-view.js.map
    M static/maps/mvc/library/library-dataset-view.js.map
    M static/maps/mvc/library/library-folder-view.js.map
    M static/maps/mvc/library/library-folderlist-view.js.map
    M static/maps/mvc/library/library-folderrow-view.js.map
    M static/maps/mvc/library/library-foldertoolbar-view.js.map
    M static/maps/mvc/library/library-library-view.js.map
    M static/maps/mvc/library/library-libraryrow-view.js.map
    M static/maps/mvc/library/library-model.js.map
    M static/maps/mvc/tool/tool-form-composite.js.map
    M static/maps/mvc/toolshed/categories-view.js.map
    M static/maps/mvc/toolshed/repo-status-view.js.map
    M static/maps/mvc/toolshed/repositories-view.js.map
    M static/maps/mvc/toolshed/repository-queue-view.js.map
    M static/maps/mvc/toolshed/repository-view.js.map
    M static/maps/mvc/toolshed/util.js.map
    M static/maps/mvc/toolshed/workflows-view.js.map
    M static/maps/mvc/ui/ui-drilldown.js.map
    M static/maps/mvc/ui/ui-popover.js.map
    M static/maps/mvc/ui/ui-select-default.js.map
    M static/maps/mvc/upload/upload-ftp.js.map
    M static/maps/mvc/upload/upload-view.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-manager.js.map
    M static/maps/mvc/workflow/workflow-node.js.map
    M static/maps/mvc/workflow/workflow-terminals.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/maps/reports_webapp/run_stats.js.map
    M static/maps/ui/scroll-panel.js.map
    M static/maps/utils/graph.js.map
    M static/maps/utils/uploadbox.js.map
    M static/maps/viz/circster.js.map
    M static/maps/viz/phyloviz.js.map
    M static/maps/viz/trackster/painters.js.map
    M static/maps/viz/trackster/tracks.js.map
    M static/scripts/bundled/admin.bundled.js
    M static/scripts/bundled/admin.bundled.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/galaxy.pages.js
    M static/scripts/mvc/collection/list-collection-creator.js
    M static/scripts/mvc/dataset/data.js
    M static/scripts/mvc/grid/grid-template.js
    M static/scripts/mvc/grid/grid-view.js
    M static/scripts/mvc/library/library-dataset-view.js
    M static/scripts/mvc/library/library-folder-view.js
    M static/scripts/mvc/library/library-folderlist-view.js
    M static/scripts/mvc/library/library-folderrow-view.js
    M static/scripts/mvc/library/library-foldertoolbar-view.js
    M static/scripts/mvc/library/library-library-view.js
    M static/scripts/mvc/library/library-libraryrow-view.js
    M static/scripts/mvc/library/library-model.js
    M static/scripts/mvc/tool/tool-form-composite.js
    M static/scripts/mvc/toolshed/categories-view.js
    M static/scripts/mvc/toolshed/repo-status-view.js
    M static/scripts/mvc/toolshed/repositories-view.js
    M static/scripts/mvc/toolshed/repository-queue-view.js
    M static/scripts/mvc/toolshed/repository-view.js
    M static/scripts/mvc/toolshed/util.js
    M static/scripts/mvc/toolshed/workflows-view.js
    M static/scripts/mvc/ui/ui-drilldown.js
    M static/scripts/mvc/ui/ui-popover.js
    M static/scripts/mvc/ui/ui-select-default.js
    M static/scripts/mvc/upload/upload-ftp.js
    M static/scripts/mvc/upload/upload-view.js
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-manager.js
    M static/scripts/mvc/workflow/workflow-node.js
    M static/scripts/mvc/workflow/workflow-terminals.js
    M static/scripts/mvc/workflow/workflow-view.js
    M static/scripts/reports_webapp/run_stats.js
    M static/scripts/ui/scroll-panel.js
    M static/scripts/utils/graph.js
    M static/scripts/utils/uploadbox.js
    M static/scripts/viz/circster.js
    M static/scripts/viz/phyloviz.js
    M static/scripts/viz/trackster/painters.js
    M static/scripts/viz/trackster/tracks.js
    R templates/admin/dataset_security/group/group.mako
    R templates/admin/dataset_security/group/group_create.mako
    R templates/admin/dataset_security/group/group_rename.mako
    A templates/webapps/tool_shed/admin/dataset_security/group/group.mako
    A templates/webapps/tool_shed/admin/dataset_security/group/group_create.mako
    A templates/webapps/tool_shed/admin/dataset_security/group/group_rename.mako
    M test/unit/tools/test_actions.py
    M test/unit/tools/test_collect_primary_datasets.py
    M test/unit/tools/test_execution.py
    M test/unit/tools/test_parameter_parsing.py
    M test/unit/tools/test_toolbox.py
    M test/unit/tools_support.py
    M test/unit/unittest_utils/galaxy_mock.py

  Log Message:
  -----------
  Merge branch 'dev' into improve_form_modules


  Commit: a0217cb2372bfd83bee833299b3ea956a4d9b5b1
      https://github.com/galaxyproject/galaxy/commit/a0217cb2372bfd83bee833299b3ea...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/tool/tool-form.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/tool/tool-form.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/tool/tool-form.js
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Attempt to customize build model


  Commit: 5b64e6d0032f515093a2e2d589839da451081546
      https://github.com/galaxyproject/galaxy/commit/5b64e6d0032f515093a2e2d589839...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/form/form-view.js
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/tool/tool-form.js
    M static/maps/mvc/form/form-view.js.map
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/tool/tool-form.js.map
    M static/scripts/bundled/admin.bundled.js
    M static/scripts/bundled/admin.bundled.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/bundled/login.bundled.js
    M static/scripts/bundled/login.bundled.js.map
    M static/scripts/mvc/form/form-view.js
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/tool/tool-form.js

  Log Message:
  -----------
  Decouple model building


  Commit: 3c4e8927e398e8468b232c2d6a5e49b3206c19b9
      https://github.com/galaxyproject/galaxy/commit/3c4e8927e398e8468b232c2d6a5e4...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js

  Log Message:
  -----------
  Hide initial tool version message


  Commit: 8b43348b676161d7d1aa799dd6988040767c7f6f
      https://github.com/galaxyproject/galaxy/commit/8b43348b676161d7d1aa799dd6988...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/tool/tool-form-composite.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/tool/tool-form-composite.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/scripts/bundled/admin.bundled.js
    M static/scripts/bundled/admin.bundled.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/bundled/login.bundled.js
    M static/scripts/bundled/login.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/tool/tool-form-composite.js
    M static/scripts/mvc/workflow/workflow-forms.js

  Log Message:
  -----------
  Move workflow tool form model rebuilding to workflow forms


  Commit: 192c4b1141a5a58b45d42afad93f1565579b31e0
      https://github.com/galaxyproject/galaxy/commit/192c4b1141a5a58b45d42afad93f1...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/scripts/mvc/workflow/workflow-forms.js

  Log Message:
  -----------
  Properly update workflow tool module


  Commit: 6d87448b45074b52298c71dfbca562d8c1950343
      https://github.com/galaxyproject/galaxy/commit/6d87448b45074b52298c71dfbca56...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/workflow/workflow-forms.js

  Log Message:
  -----------
  Add optional initial model caller

Pack


  Commit: 409867230cac37572779199d5210210a37663145
      https://github.com/galaxyproject/galaxy/commit/409867230cac37572779199d52102...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/workflow/workflow-manager.js
    M client/galaxy/scripts/mvc/workflow/workflow-node.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M static/maps/mvc/workflow/workflow-manager.js.map
    M static/maps/mvc/workflow/workflow-node.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/mvc/workflow/workflow-manager.js
    M static/scripts/mvc/workflow/workflow-node.js
    M static/scripts/mvc/workflow/workflow-view.js

  Log Message:
  -----------
  Remove form dom removal through workflow manager


  Commit: 0092600cf384df8888fcb982aadfe1964b4d7a37
      https://github.com/galaxyproject/galaxy/commit/0092600cf384df8888fcb982aadfe...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/apps/admin.js
    M client/galaxy/scripts/apps/panels/admin-panel.js
    M client/galaxy/scripts/mvc/form/form-parameters.js
    M client/galaxy/scripts/mvc/form/form-wrapper.js
    M client/galaxy/scripts/mvc/ui/ui-select-content.js
    M client/galaxy/scripts/mvc/ui/ui-select-default.js
    M lib/galaxy/actions/admin.py
    M lib/galaxy/webapps/galaxy/buildapp.py
    M lib/galaxy/webapps/galaxy/controllers/admin.py
    M static/maps/mvc/form/form-parameters.js.map
    M static/maps/mvc/form/form-wrapper.js.map
    M static/maps/mvc/ui/ui-select-content.js.map
    M static/maps/mvc/ui/ui-select-default.js.map
    M static/scripts/bundled/admin.bundled.js
    M static/scripts/bundled/admin.bundled.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/form/form-parameters.js
    M static/scripts/mvc/form/form-wrapper.js
    M static/scripts/mvc/ui/ui-select-content.js
    M static/scripts/mvc/ui/ui-select-default.js
    R templates/admin/quota/quota.mako
    R templates/admin/quota/quota_create.mako
    R templates/admin/quota/quota_edit.mako
    R templates/admin/quota/quota_rename.mako
    R templates/admin/quota/quota_set_default.mako

  Log Message:
  -----------
  Merge branch 'dev' into improve_form_modules


  Commit: d8925d73c5ba7b4e0bcbb36c98d45e45bb3b9e78
      https://github.com/galaxyproject/galaxy/commit/d8925d73c5ba7b4e0bcbb36c98d45...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-16 (Wed, 16 Aug 2017)

  Changed paths:
    M client/galaxy/style/less/ui.less
    M static/style/blue/base.css

  Log Message:
  -----------
  Fix message style


  Commit: 56c1f25bf385fa3610e447ddc6fad0f063cc2de1
      https://github.com/galaxyproject/galaxy/commit/56c1f25bf385fa3610e447ddc6fad...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-17 (Thu, 17 Aug 2017)

  Changed paths:
    M client/galaxy/style/less/ui.less
    M static/style/blue/base.css

  Log Message:
  -----------
  Fix help text style


  Commit: 5a913700221c3734364d70546abfa1b9342d8c1b
      https://github.com/galaxyproject/galaxy/commit/5a913700221c3734364d70546abfa...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-17 (Thu, 17 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/tool/tool-form-composite.js
    M static/maps/mvc/tool/tool-form-composite.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/tool/tool-form-composite.js

  Log Message:
  -----------
  Fix title


  Commit: 25960121310455e2d5b84933fb76cda8daacc1f7
      https://github.com/galaxyproject/galaxy/commit/25960121310455e2d5b84933fb76c...
  Author: guerler <aysam.guerler@gmail.com>
  Date:   2017-08-17 (Thu, 17 Aug 2017)

  Changed paths:
    A .ci/autopep8.sh
    M client/galaxy/scripts/mvc/grid/grid-model.js
    M client/galaxy/scripts/mvc/grid/grid-view.js
    M client/galaxy/style/source_material/circle.py
    M config/datatypes_conf.xml.sample
    M contrib/nagios/check_galaxy.py
    M cron/build_chrom_db.py
    M lib/galaxy/__init__.py
    M lib/galaxy/actions/admin.py
    M lib/galaxy/app.py
    M lib/galaxy/auth/__init__.py
    M lib/galaxy/config.py
    M lib/galaxy/dataset_collections/builder.py
    M lib/galaxy/dataset_collections/matching.py
    M lib/galaxy/dataset_collections/registry.py
    M lib/galaxy/dataset_collections/structure.py
    M lib/galaxy/dataset_collections/subcollections.py
    M lib/galaxy/dataset_collections/type_description.py
    M lib/galaxy/dataset_collections/types/__init__.py
    M lib/galaxy/dataset_collections/types/list.py
    M lib/galaxy/dataset_collections/types/paired.py
    M lib/galaxy/datatypes/assembly.py
    M lib/galaxy/datatypes/binary.py
    M lib/galaxy/datatypes/chrominfo.py
    M lib/galaxy/datatypes/converters/bed_to_gff_converter.py
    M lib/galaxy/datatypes/converters/bedgraph_to_array_tree_converter.py
    M lib/galaxy/datatypes/converters/bgzip.py
    M lib/galaxy/datatypes/converters/fasta_to_len.py
    M lib/galaxy/datatypes/converters/fastqsolexa_to_fasta_converter.py
    M lib/galaxy/datatypes/converters/fastqsolexa_to_qual_converter.py
    M lib/galaxy/datatypes/converters/gff_to_bed_converter.py
    M lib/galaxy/datatypes/converters/gff_to_interval_index_converter.py
    M lib/galaxy/datatypes/converters/interval_to_bed_converter.py
    M lib/galaxy/datatypes/converters/interval_to_bedstrict_converter.py
    M lib/galaxy/datatypes/converters/interval_to_coverage.py
    M lib/galaxy/datatypes/converters/interval_to_fli.py
    M lib/galaxy/datatypes/converters/interval_to_interval_index_converter.py
    M lib/galaxy/datatypes/converters/interval_to_tabix_converter.py
    M lib/galaxy/datatypes/converters/lped_to_fped_converter.py
    M lib/galaxy/datatypes/converters/lped_to_pbed_converter.py
    M lib/galaxy/datatypes/converters/maf_to_fasta_converter.py
    M lib/galaxy/datatypes/converters/maf_to_interval_converter.py
    M lib/galaxy/datatypes/converters/pbed_ldreduced_converter.py
    M lib/galaxy/datatypes/converters/pbed_to_lped_converter.py
    M lib/galaxy/datatypes/converters/picard_interval_list_to_bed6_converter.py
    M lib/galaxy/datatypes/converters/pileup_to_interval_index_converter.py
    M lib/galaxy/datatypes/converters/sam_to_bam.py
    M lib/galaxy/datatypes/converters/tabular_to_dbnsfp.py
    M lib/galaxy/datatypes/converters/vcf_to_interval_index_converter.py
    M lib/galaxy/datatypes/converters/wiggle_to_array_tree_converter.py
    M lib/galaxy/datatypes/converters/wiggle_to_simple_converter.py
    M lib/galaxy/datatypes/coverage.py
    M lib/galaxy/datatypes/data.py
    M lib/galaxy/datatypes/dataproviders/base.py
    M lib/galaxy/datatypes/dataproviders/chunk.py
    M lib/galaxy/datatypes/dataproviders/column.py
    M lib/galaxy/datatypes/dataproviders/dataset.py
    M lib/galaxy/datatypes/dataproviders/decorators.py
    M lib/galaxy/datatypes/dataproviders/exceptions.py
    M lib/galaxy/datatypes/dataproviders/external.py
    M lib/galaxy/datatypes/dataproviders/hierarchy.py
    M lib/galaxy/datatypes/dataproviders/line.py
    M lib/galaxy/datatypes/display_applications/application.py
    M lib/galaxy/datatypes/display_applications/parameters.py
    M lib/galaxy/datatypes/display_applications/util.py
    M lib/galaxy/datatypes/genetics.py
    M lib/galaxy/datatypes/graph.py
    M lib/galaxy/datatypes/images.py
    M lib/galaxy/datatypes/interval.py
    M lib/galaxy/datatypes/molecules.py
    M lib/galaxy/datatypes/mothur.py
    M lib/galaxy/datatypes/msa.py
    M lib/galaxy/datatypes/neo4j.py
    M lib/galaxy/datatypes/ngsindex.py
    M lib/galaxy/datatypes/proteomics.py
    M lib/galaxy/datatypes/qualityscore.py
    M lib/galaxy/datatypes/registry.py
    M lib/galaxy/datatypes/sequence.py
    M lib/galaxy/datatypes/sniff.py
    M lib/galaxy/datatypes/tabular.py
    A lib/galaxy/datatypes/test/1.memepsp
    M lib/galaxy/datatypes/text.py
    M lib/galaxy/datatypes/tracks.py
    M lib/galaxy/datatypes/triples.py
    M lib/galaxy/datatypes/util/generic_util.py
    M lib/galaxy/datatypes/util/gff_util.py
    M lib/galaxy/datatypes/xml.py
    M lib/galaxy/dependencies/__init__.py
    M lib/galaxy/exceptions/__init__.py
    M lib/galaxy/external_services/actions.py
    M lib/galaxy/external_services/parameters.py
    M lib/galaxy/external_services/result_handlers/basic.py
    M lib/galaxy/external_services/service.py
    M lib/galaxy/forms/forms.py
    M lib/galaxy/jobs/__init__.py
    M lib/galaxy/jobs/actions/post.py
    M lib/galaxy/jobs/command_factory.py
    M lib/galaxy/jobs/datasets.py
    M lib/galaxy/jobs/deferred/__init__.py
    M lib/galaxy/jobs/deferred/data_transfer.py
    M lib/galaxy/jobs/deferred/manual_data_transfer.py
    M lib/galaxy/jobs/deferred/pacific_biosciences_smrt_portal.py
    M lib/galaxy/jobs/dynamic_tool_destination.py
    M lib/galaxy/jobs/error_level.py
    M lib/galaxy/jobs/handler.py
    M lib/galaxy/jobs/manager.py
    M lib/galaxy/jobs/mapper.py
    M lib/galaxy/jobs/metrics/__init__.py
    M lib/galaxy/jobs/metrics/collectl/cli.py
    M lib/galaxy/jobs/metrics/collectl/processes.py
    M lib/galaxy/jobs/metrics/collectl/stats.py
    M lib/galaxy/jobs/metrics/collectl/subsystems.py
    M lib/galaxy/jobs/metrics/instrumenters/__init__.py
    M lib/galaxy/jobs/metrics/instrumenters/collectl.py
    M lib/galaxy/jobs/metrics/instrumenters/core.py
    M lib/galaxy/jobs/metrics/instrumenters/cpuinfo.py
    M lib/galaxy/jobs/metrics/instrumenters/env.py
    M lib/galaxy/jobs/metrics/instrumenters/meminfo.py
    M lib/galaxy/jobs/metrics/instrumenters/uname.py
    M lib/galaxy/jobs/output_checker.py
    M lib/galaxy/jobs/rule_helper.py
    M lib/galaxy/jobs/runners/__init__.py
    M lib/galaxy/jobs/runners/cli.py
    M lib/galaxy/jobs/runners/condor.py
    M lib/galaxy/jobs/runners/drmaa.py
    M lib/galaxy/jobs/runners/godocker.py
    M lib/galaxy/jobs/runners/local.py
    M lib/galaxy/jobs/runners/pbs.py
    M lib/galaxy/jobs/runners/pulsar.py
    M lib/galaxy/jobs/runners/slurm.py
    M lib/galaxy/jobs/runners/state_handlers/_safe_eval.py
    M lib/galaxy/jobs/runners/state_handlers/resubmit.py
    M lib/galaxy/jobs/runners/tasks.py
    M lib/galaxy/jobs/runners/util/drmaa/__init__.py
    M lib/galaxy/jobs/splitters/basic.py
    M lib/galaxy/jobs/splitters/multi.py
    M lib/galaxy/jobs/stock_rules.py
    M lib/galaxy/jobs/transfer_manager.py
    M lib/galaxy/managers/annotatable.py
    M lib/galaxy/managers/api_keys.py
    M lib/galaxy/managers/base.py
    M lib/galaxy/managers/citations.py
    M lib/galaxy/managers/collections.py
    M lib/galaxy/managers/collections_util.py
    M lib/galaxy/managers/configuration.py
    M lib/galaxy/managers/containers.py
    M lib/galaxy/managers/context.py
    M lib/galaxy/managers/datasets.py
    M lib/galaxy/managers/deletable.py
    M lib/galaxy/managers/folders.py
    M lib/galaxy/managers/hdas.py
    M lib/galaxy/managers/hdcas.py
    M lib/galaxy/managers/histories.py
    M lib/galaxy/managers/history_contents.py
    M lib/galaxy/managers/lddas.py
    M lib/galaxy/managers/libraries.py
    M lib/galaxy/managers/pages.py
    M lib/galaxy/managers/ratable.py
    M lib/galaxy/managers/rbac_secured.py
    M lib/galaxy/managers/roles.py
    M lib/galaxy/managers/secured.py
    M lib/galaxy/managers/sharable.py
    M lib/galaxy/managers/taggable.py
    M lib/galaxy/managers/tags.py
    M lib/galaxy/managers/users.py
    M lib/galaxy/managers/visualizations.py
    M lib/galaxy/managers/workflows.py
    M lib/galaxy/model/__init__.py
    M lib/galaxy/model/base.py
    M lib/galaxy/model/custom_types.py
    M lib/galaxy/model/item_attrs.py
    M lib/galaxy/model/mapping.py
    M lib/galaxy/model/metadata.py
    M lib/galaxy/model/migrate/check.py
    M lib/galaxy/model/migrate/versions/0001_initial_tables.py
    M lib/galaxy/model/migrate/versions/0002_metadata_file_table.py
    M lib/galaxy/model/migrate/versions/0003_security_and_libraries.py
    M lib/galaxy/model/migrate/versions/0004_indexes_and_defaults.py
    M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py
    M lib/galaxy/model/migrate/versions/0006_change_qual_datatype.py
    M lib/galaxy/model/migrate/versions/0007_sharing_histories.py
    M lib/galaxy/model/migrate/versions/0008_galaxy_forms.py
    M lib/galaxy/model/migrate/versions/0009_request_table.py
    M lib/galaxy/model/migrate/versions/0010_hda_display_at_authz_table.py
    M lib/galaxy/model/migrate/versions/0011_v0010_mysql_index_fix.py
    M lib/galaxy/model/migrate/versions/0012_user_address.py
    M lib/galaxy/model/migrate/versions/0013_change_lib_item_templates_to_forms.py
    M lib/galaxy/model/migrate/versions/0014_pages.py
    M lib/galaxy/model/migrate/versions/0015_tagging.py
    M lib/galaxy/model/migrate/versions/0016_v0015_mysql_index_fix.py
    M lib/galaxy/model/migrate/versions/0017_library_item_indexes.py
    M lib/galaxy/model/migrate/versions/0018_ordered_tags_and_page_tags.py
    M lib/galaxy/model/migrate/versions/0019_request_library_folder.py
    M lib/galaxy/model/migrate/versions/0020_library_upload_job.py
    M lib/galaxy/model/migrate/versions/0021_user_prefs.py
    M lib/galaxy/model/migrate/versions/0022_visualization_tables.py
    M lib/galaxy/model/migrate/versions/0023_page_published_and_deleted_columns.py
    M lib/galaxy/model/migrate/versions/0024_page_slug_unique_constraint.py
    M lib/galaxy/model/migrate/versions/0025_user_info.py
    M lib/galaxy/model/migrate/versions/0026_cloud_tables.py
    M lib/galaxy/model/migrate/versions/0027_request_events.py
    M lib/galaxy/model/migrate/versions/0028_external_metadata_file_override.py
    M lib/galaxy/model/migrate/versions/0029_user_actions.py
    M lib/galaxy/model/migrate/versions/0030_history_slug_column.py
    M lib/galaxy/model/migrate/versions/0031_community_and_workflow_tags.py
    M lib/galaxy/model/migrate/versions/0032_stored_workflow_slug_column.py
    M lib/galaxy/model/migrate/versions/0033_published_cols_for_histories_and_workflows.py
    M lib/galaxy/model/migrate/versions/0034_page_user_share_association.py
    M lib/galaxy/model/migrate/versions/0035_item_annotations_and_workflow_step_tags.py
    M lib/galaxy/model/migrate/versions/0036_add_deleted_column_to_library_template_assoc_tables.py
    M lib/galaxy/model/migrate/versions/0037_samples_library.py
    M lib/galaxy/model/migrate/versions/0038_add_inheritable_column_to_library_template_assoc_tables.py
    M lib/galaxy/model/migrate/versions/0039_add_synopsis_column_to_library_table.py
    M lib/galaxy/model/migrate/versions/0040_page_annotations.py
    M lib/galaxy/model/migrate/versions/0041_workflow_invocation.py
    M lib/galaxy/model/migrate/versions/0042_workflow_invocation_fix.py
    M lib/galaxy/model/migrate/versions/0043_visualization_sharing_tagging_annotating.py
    M lib/galaxy/model/migrate/versions/0044_add_notify_column_to_request_table.py
    M lib/galaxy/model/migrate/versions/0045_request_type_permissions_table.py
    M lib/galaxy/model/migrate/versions/0046_post_job_actions.py
    M lib/galaxy/model/migrate/versions/0047_job_table_user_id_column.py
    M lib/galaxy/model/migrate/versions/0048_dataset_instance_state_column.py
    M lib/galaxy/model/migrate/versions/0049_api_keys_table.py
    M lib/galaxy/model/migrate/versions/0050_drop_cloud_tables.py
    M lib/galaxy/model/migrate/versions/0051_imported_col_for_jobs_table.py
    M lib/galaxy/model/migrate/versions/0052_sample_dataset_table.py
    M lib/galaxy/model/migrate/versions/0053_item_ratings.py
    M lib/galaxy/model/migrate/versions/0054_visualization_dbkey.py
    M lib/galaxy/model/migrate/versions/0055_add_pja_assoc_for_jobs.py
    M lib/galaxy/model/migrate/versions/0056_workflow_outputs.py
    M lib/galaxy/model/migrate/versions/0057_request_notify.py
    M lib/galaxy/model/migrate/versions/0058_history_import_export.py
    M lib/galaxy/model/migrate/versions/0059_sample_dataset_file_path.py
    M lib/galaxy/model/migrate/versions/0060_history_archive_import.py
    M lib/galaxy/model/migrate/versions/0061_tasks.py
    M lib/galaxy/model/migrate/versions/0062_user_openid_table.py
    M lib/galaxy/model/migrate/versions/0063_sequencer_table.py
    M lib/galaxy/model/migrate/versions/0064_add_run_and_sample_run_association_tables.py
    M lib/galaxy/model/migrate/versions/0065_add_name_to_form_fields_and_values.py
    M lib/galaxy/model/migrate/versions/0066_deferred_job_and_transfer_job_tables.py
    M lib/galaxy/model/migrate/versions/0067_populate_sequencer_table.py
    M lib/galaxy/model/migrate/versions/0068_rename_sequencer_to_external_services.py
    M lib/galaxy/model/migrate/versions/0069_rename_sequencer_form_type.py
    M lib/galaxy/model/migrate/versions/0070_add_info_column_to_deferred_job_table.py
    M lib/galaxy/model/migrate/versions/0071_add_history_and_workflow_to_sample.py
    M lib/galaxy/model/migrate/versions/0072_add_pid_and_socket_columns_to_transfer_job_table.py
    M lib/galaxy/model/migrate/versions/0073_add_ldda_to_implicit_conversion_table.py
    M lib/galaxy/model/migrate/versions/0074_add_purged_column_to_library_dataset_table.py
    M lib/galaxy/model/migrate/versions/0075_add_subindex_column_to_run_table.py
    M lib/galaxy/model/migrate/versions/0076_fix_form_values_data_corruption.py
    M lib/galaxy/model/migrate/versions/0077_create_tool_tag_association_table.py
    M lib/galaxy/model/migrate/versions/0078_add_columns_for_disk_usage_accounting.py
    M lib/galaxy/model/migrate/versions/0079_input_library_to_job_table.py
    M lib/galaxy/model/migrate/versions/0080_quota_tables.py
    M lib/galaxy/model/migrate/versions/0081_add_tool_version_to_hda_ldda.py
    M lib/galaxy/model/migrate/versions/0082_add_tool_shed_repository_table.py
    M lib/galaxy/model/migrate/versions/0083_add_prepare_files_to_task.py
    M lib/galaxy/model/migrate/versions/0084_add_ldda_id_to_implicit_conversion_table.py
    M lib/galaxy/model/migrate/versions/0085_add_task_info.py
    M lib/galaxy/model/migrate/versions/0086_add_tool_shed_repository_table_columns.py
    M lib/galaxy/model/migrate/versions/0087_tool_id_guid_map_table.py
    M lib/galaxy/model/migrate/versions/0088_add_installed_changeset_revison_column.py
    M lib/galaxy/model/migrate/versions/0089_add_object_store_id_columns.py
    M lib/galaxy/model/migrate/versions/0090_add_tool_shed_repository_table_columns.py
    M lib/galaxy/model/migrate/versions/0091_add_tool_version_tables.py
    M lib/galaxy/model/migrate/versions/0092_add_migrate_tools_table.py
    M lib/galaxy/model/migrate/versions/0093_add_job_params_col.py
    M lib/galaxy/model/migrate/versions/0094_add_job_handler_col.py
    M lib/galaxy/model/migrate/versions/0095_hda_subsets.py
    M lib/galaxy/model/migrate/versions/0096_openid_provider.py
    M lib/galaxy/model/migrate/versions/0097_add_ctx_rev_column.py
    M lib/galaxy/model/migrate/versions/0098_genome_index_tool_data_table.py
    M lib/galaxy/model/migrate/versions/0099_add_tool_dependency_table.py
    M lib/galaxy/model/migrate/versions/0100_alter_tool_dependency_table_version_column.py
    M lib/galaxy/model/migrate/versions/0101_drop_installed_changeset_revision_column.py
    M lib/galaxy/model/migrate/versions/0102_add_tool_dependency_status_columns.py
    M lib/galaxy/model/migrate/versions/0103_add_tool_shed_repository_status_columns.py
    M lib/galaxy/model/migrate/versions/0104_update_genome_downloader_job_parameters.py
    M lib/galaxy/model/migrate/versions/0105_add_cleanup_event_table.py
    M lib/galaxy/model/migrate/versions/0106_add_missing_indexes.py
    M lib/galaxy/model/migrate/versions/0107_add_exit_code_to_job_and_task.py
    M lib/galaxy/model/migrate/versions/0108_add_extended_metadata.py
    M lib/galaxy/model/migrate/versions/0109_add_repository_dependency_tables.py
    M lib/galaxy/model/migrate/versions/0110_add_dataset_uuid.py
    M lib/galaxy/model/migrate/versions/0111_add_job_destinations.py
    M lib/galaxy/model/migrate/versions/0112_add_data_manager_history_association_and_data_manager_job_association_tables.py
    M lib/galaxy/model/migrate/versions/0113_update_migrate_tools_table.py
    M lib/galaxy/model/migrate/versions/0114_update_migrate_tools_table_again.py
    M lib/galaxy/model/migrate/versions/0115_longer_user_password_field.py
    M lib/galaxy/model/migrate/versions/0116_drop_update_available_col_add_tool_shed_status_col.py
    M lib/galaxy/model/migrate/versions/0117_add_user_activation.py
    M lib/galaxy/model/migrate/versions/0118_add_hda_extended_metadata.py
    M lib/galaxy/model/migrate/versions/0119_job_metrics.py
    M lib/galaxy/model/migrate/versions/0120_dataset_collections.py
    M lib/galaxy/model/migrate/versions/0121_workflow_uuids.py
    M lib/galaxy/model/migrate/versions/0122_grow_mysql_blobs.py
    M lib/galaxy/model/migrate/versions/0123_add_workflow_request_tables.py
    M lib/galaxy/model/migrate/versions/0124_job_state_history.py
    M lib/galaxy/model/migrate/versions/0125_workflow_step_tracking.py
    M lib/galaxy/model/migrate/versions/0126_password_reset.py
    M lib/galaxy/model/migrate/versions/0127_output_collection_adjustments.py
    M lib/galaxy/model/migrate/versions/0128_session_timeout.py
    M lib/galaxy/model/migrate/versions/0129_job_external_output_metadata_validity.py
    M lib/galaxy/model/migrate/versions/0130_change_pref_datatype.py
    M lib/galaxy/model/migrate/versions/0131_subworkflow_and_input_parameter_modules.py
    M lib/galaxy/model/migrate/versions/0133_add_dependency_column_to_job.py
    M lib/galaxy/model/migrate/versions/0134_hda_set_deleted_if_purged.py
    M lib/galaxy/model/migrate/versions/0135_add_library_tags.py
    M lib/galaxy/model/orm/engine_factory.py
    M lib/galaxy/model/orm/logging_connection_proxy.py
    M lib/galaxy/model/orm/scripts.py
    M lib/galaxy/model/search.py
    M lib/galaxy/model/tool_shed_install/__init__.py
    M lib/galaxy/model/tool_shed_install/mapping.py
    M lib/galaxy/model/tool_shed_install/migrate/check.py
    M lib/galaxy/model/util.py
    M lib/galaxy/objectstore/__init__.py
    M lib/galaxy/objectstore/azure_blob.py
    M lib/galaxy/objectstore/pithos.py
    M lib/galaxy/objectstore/rods.py
    M lib/galaxy/objectstore/s3.py
    M lib/galaxy/openid/providers.py
    M lib/galaxy/queue_worker.py
    M lib/galaxy/quota/__init__.py
    M lib/galaxy/sample_tracking/data_transfer.py
    M lib/galaxy/sample_tracking/external_service_types.py
    M lib/galaxy/sample_tracking/request_types.py
    M lib/galaxy/sample_tracking/sample.py
    M lib/galaxy/security/__init__.py
    M lib/galaxy/security/passwords.py
    M lib/galaxy/security/validate_user_input.py
    M lib/galaxy/tools/__init__.py
    M lib/galaxy/tools/actions/__init__.py
    M lib/galaxy/tools/actions/data_manager.py
    M lib/galaxy/tools/actions/data_source.py
    M lib/galaxy/tools/actions/history_imp_exp.py
    M lib/galaxy/tools/actions/metadata.py
    M lib/galaxy/tools/actions/model_operations.py
    M lib/galaxy/tools/actions/upload.py
    M lib/galaxy/tools/actions/upload_common.py
    M lib/galaxy/tools/cache.py
    M lib/galaxy/tools/cwl/parser.py
    M lib/galaxy/tools/cwl/representation.py
    M lib/galaxy/tools/data/__init__.py
    M lib/galaxy/tools/data_manager/manager.py
    M lib/galaxy/tools/deps/__init__.py
    M lib/galaxy/tools/deps/brew_exts.py
    M lib/galaxy/tools/deps/containers.py
    M lib/galaxy/tools/deps/mulled/mulled_build.py
    M lib/galaxy/tools/deps/mulled/mulled_search.py
    M lib/galaxy/tools/deps/requirements.py
    M lib/galaxy/tools/deps/resolvers/__init__.py
    M lib/galaxy/tools/deps/resolvers/conda.py
    M lib/galaxy/tools/deps/resolvers/galaxy_packages.py
    M lib/galaxy/tools/deps/resolvers/homebrew.py
    M lib/galaxy/tools/deps/resolvers/modules.py
    M lib/galaxy/tools/deps/resolvers/resolver_mixins.py
    M lib/galaxy/tools/deps/resolvers/tool_shed_packages.py
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    M lib/galaxy/tools/error_reports/plugins/biostars.py
    M lib/galaxy/tools/error_reports/plugins/email.py
    M lib/galaxy/tools/error_reports/plugins/json.py
    M lib/galaxy/tools/error_reports/plugins/sentry.py
    M lib/galaxy/tools/errors.py
    M lib/galaxy/tools/evaluation.py
    M lib/galaxy/tools/execute.py
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    M lib/galaxy/tools/imp_exp/export_history.py
    M lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py
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    M lib/galaxy/tools/parameters/dynamic_options.py
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    M lib/galaxy/tools/toolbox/filters/__init__.py
    M lib/galaxy/tools/toolbox/integrated_panel.py
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    M lib/galaxy/tools/util/galaxyops/__init__.py
    M lib/galaxy/tools/util/maf_utilities.py
    M lib/galaxy/tools/verify/__init__.py
    M lib/galaxy/tools/verify/asserts/__init__.py
    M lib/galaxy/tools/wrappers.py
    M lib/galaxy/tours/__init__.py
    M lib/galaxy/util/__init__.py
    M lib/galaxy/util/aliaspickler.py
    M lib/galaxy/util/biostar.py
    M lib/galaxy/util/bunch.py
    M lib/galaxy/util/checkers.py
    M lib/galaxy/util/dbkeys.py
    M lib/galaxy/util/dictifiable.py
    M lib/galaxy/util/expressions.py
    M lib/galaxy/util/handlers.py
    M lib/galaxy/util/hash_util.py
    M lib/galaxy/util/heartbeat.py
    M lib/galaxy/util/image_util.py
    M lib/galaxy/util/inflection.py
    M lib/galaxy/util/json.py
    M lib/galaxy/util/lazy_process.py
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    M lib/galaxy/util/log/fluent_log.py
    M lib/galaxy/util/multi_byte.py
    M lib/galaxy/util/none_like.py
    M lib/galaxy/util/object_wrapper.py
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    M lib/galaxy/util/properties.py
    M lib/galaxy/util/sanitize_html.py
    M lib/galaxy/util/simplegraph.py
    M lib/galaxy/util/sleeper.py
    M lib/galaxy/util/sockets.py
    M lib/galaxy/util/specs.py
    M lib/galaxy/util/streamball.py
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    M lib/galaxy/visualization/data_providers/cigar.py
    M lib/galaxy/visualization/data_providers/genome.py
    M lib/galaxy/visualization/data_providers/phyloviz/__init__.py
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    M lib/galaxy/web/base/pluginframework.py
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    M lib/galaxy/web/framework/middleware/remoteuser.py
    M lib/galaxy/web/framework/middleware/request_id.py
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    M lib/galaxy/web/framework/middleware/static.py
    M lib/galaxy/web/framework/middleware/statsd.py
    M lib/galaxy/web/framework/middleware/translogger.py
    M lib/galaxy/web/framework/middleware/xforwardedhost.py
    M lib/galaxy/web/framework/openid_manager.py
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    M lib/galaxy/web/params.py
    M lib/galaxy/web/proxy/__init__.py
    M lib/galaxy/web/security/__init__.py
    M lib/galaxy/web/stack/__init__.py
    M lib/galaxy/webapps/__init__.py
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    M lib/galaxy/webapps/galaxy/api/folder_contents.py
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    M lib/galaxy/webapps/galaxy/api/pages.py
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    M test/api/test_datasets.py
    M test/api/test_datatypes.py
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    M test/api/test_history_contents_provenance.py
    M test/api/test_jobs.py
    M test/api/test_libraries.py
    M test/api/test_page_revisions.py
    M test/api/test_pages.py
    M test/api/test_search.py
    M test/api/test_tool_data.py
    M test/api/test_tools.py
    M test/api/test_tours.py
    M test/api/test_users.py
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    M test/api/test_workflow_extraction.py
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    M test/base/tool_shed_util.py
    M test/base/twilltestcase.py
    M test/casperjs/casperjs_runner.py
    M test/casperjs/server_env.py
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    M test/functional/test_library_templates.py
    M test/functional/test_toolbox.py
    M test/functional/tools/code_file.py
    M test/galaxy_selenium/driver_factory.py
    M test/integration/test_maximum_worklfow_invocation_duration.py
    M test/integration/test_resolvers.py
    M test/integration/test_upload_configuration_options.py
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    M test/shed_functional/base/twilltestcase.py
    M test/shed_functional/functional/test_0000_basic_repository_features.py
    M test/shed_functional/functional/test_0010_repository_with_tool_dependencies.py
    M test/shed_functional/functional/test_0020_basic_repository_dependencies.py
    M test/shed_functional/functional/test_0030_repository_dependency_revisions.py
    M test/shed_functional/functional/test_0040_repository_circular_dependencies.py
    M test/shed_functional/functional/test_0050_circular_dependencies_4_levels.py
    M test/shed_functional/functional/test_0060_workflows.py
    M test/shed_functional/functional/test_0070_invalid_tool.py
    M test/shed_functional/functional/test_0080_advanced_circular_dependencies.py
    M test/shed_functional/functional/test_0090_tool_search.py
    M test/shed_functional/functional/test_0100_complex_repository_dependencies.py
    M test/shed_functional/functional/test_0110_invalid_simple_repository_dependencies.py
    M test/shed_functional/functional/test_0120_simple_repository_dependency_multiple_owners.py
    M test/shed_functional/functional/test_0130_datatype_converters.py
    M test/shed_functional/functional/test_0140_tool_help_images.py
    M test/shed_functional/functional/test_0150_prior_installation_required.py
    M test/shed_functional/functional/test_0160_circular_prior_installation_required.py
    M test/shed_functional/functional/test_0170_complex_prior_installation_required.py
    M test/shed_functional/functional/test_0300_reset_all_metadata.py
    M test/shed_functional/functional/test_0310_hg_api_features.py
    M test/shed_functional/functional/test_0400_repository_component_reviews.py
    M test/shed_functional/functional/test_0410_repository_component_review_access_control.py
    M test/shed_functional/functional/test_0420_citable_urls_for_repositories.py
    M test/shed_functional/functional/test_0430_browse_utilities.py
    M test/shed_functional/functional/test_0440_deleting_dependency_definitions.py
    M test/shed_functional/functional/test_0460_upload_to_repository.py
    M test/shed_functional/functional/test_0470_tool_dependency_repository_type.py
    M test/shed_functional/functional/test_0480_tool_dependency_xml_verification.py
    M test/shed_functional/functional/test_0490_export_import_repositories.py
    M test/shed_functional/functional/test_0500_export_repository_simple_dependency.py
    M test/shed_functional/functional/test_0510_export_import_repository_complex_dependencies.py
    M test/shed_functional/functional/test_0520_import_export_circular_dependencies.py
    M test/shed_functional/functional/test_0530_repository_admin_feature.py
    M test/shed_functional/functional/test_0540_get_all_metadata_from_api.py
    M test/shed_functional/functional/test_0550_metadata_updated_dependencies.py
    M test/shed_functional/functional/test_1000_install_basic_repository.py
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    M test/shed_functional/functional/test_1020_install_repository_with_repository_dependencies.py
    M test/shed_functional/functional/test_1030_install_repository_with_dependency_revisions.py
    M test/shed_functional/functional/test_1040_install_repository_basic_circular_dependencies.py
    M test/shed_functional/functional/test_1050_circular_dependencies_4_levels.py
    M test/shed_functional/functional/test_1060_install_repository_with_workflow.py
    M test/shed_functional/functional/test_1070_invalid_tool.py
    M test/shed_functional/functional/test_1080_advanced_circular_dependency_installation.py
    M test/shed_functional/functional/test_1090_repository_dependency_handling.py
    M test/shed_functional/functional/test_1100_install_updated_repository_dependencies.py
    M test/shed_functional/functional/test_1110_install_tool_from_tool_search.py
    M test/shed_functional/functional/test_1120_install_repository_with_complex_dependencies.py
    M test/shed_functional/functional/test_1130_install_repository_with_invalid_repository_dependency.py
    M test/shed_functional/functional/test_1140_simple_repository_dependency_multiple_owners.py
    M test/shed_functional/functional/test_1150_datatype_converters.py
    M test/shed_functional/functional/test_1160_tool_help_images.py
    M test/shed_functional/functional/test_1170_prior_installation_required.py
    M test/shed_functional/functional/test_1180_circular_prior_installation_required.py
    M test/shed_functional/functional/test_1190_complex_prior_installation_required.py
    M test/shed_functional/functional/test_1200_uninstall_and_reinstall_basic_repository.py
    M test/shed_functional/functional/test_1210_uninstall_reinstall_repository_with_tool_dependencies.py
    M test/shed_functional/functional/test_1220_uninstall_reinstall_repository_with_repository_dependencies.py
    M test/shed_functional/functional/test_1230_uninstall_reinstall_repository_with_dependency_revisions.py
    M test/shed_functional/functional/test_1300_reset_all_metadata.py
    M test/shed_functional/functional/test_1400_review_migration_stages.py
    M test/shed_functional/functional/test_1410_update_manager.py
    M test/shed_functional/functional/test_1420_tool_dependency_environment_inheritance.py
    M test/shed_functional/functional/test_1430_repair_installed_repository.py
    M test/shed_functional/functional/test_1440_missing_env_sh_files.py
    M test/shed_functional/functional/test_1450_installing_datatypes_sniffers.py
    M test/shed_functional/functional/test_1460_data_managers.py
    M test/shed_functional/functional/test_1470_updating_installed_repositories.py
    M test/shed_functional/functional_tests.py
    M test/unit/dataset_collections/test_matching.py
    M test/unit/datatypes/dataproviders/test_base_dataproviders.py
    M test/unit/datatypes/dataproviders/test_line_dataproviders.py
    M test/unit/datatypes/test_data.py
    M test/unit/jobs/dynamic_tool_destination/mockGalaxy.py
    M test/unit/jobs/dynamic_tool_destination/test_dynamic_tool_destination.py
    M test/unit/jobs/test_command_factory.py
    M test/unit/jobs/test_datasets.py
    M test/unit/jobs/test_job_configuration.py
    M test/unit/jobs/test_job_output_checker.py
    M test/unit/jobs/test_job_wrapper.py
    M test/unit/jobs/test_mapper.py
    M test/unit/jobs/test_rule_helper.py
    M test/unit/jobs/test_rules/10_site.py
    M test/unit/jobs/test_runner_local.py
    M test/unit/jobs/test_runner_params.py
    M test/unit/managers/base.py
    M test/unit/managers/test_CollectionManager.py
    M test/unit/managers/test_DatasetManager.py
    M test/unit/managers/test_HDAManager.py
    M test/unit/managers/test_HDCAManager.py
    M test/unit/managers/test_HistoryContentsManager.py
    M test/unit/managers/test_HistoryManager.py
    M test/unit/managers/test_UserManager.py
    M test/unit/shed_unit/test_fabric_util.py
    M test/unit/shed_unit/test_td_common_util.py
    M test/unit/shed_unit/test_tool_panel_manager.py
    M test/unit/test_galaxy_mapping.py
    M test/unit/test_galaxy_transactions.py
    M test/unit/test_routes.py
    M test/unit/test_security_helper.py
    M test/unit/test_sqlite_utils.py
    M test/unit/test_topsort.py
    M test/unit/tools/filter_modules/filtermod.py
    M test/unit/tools/test_actions.py
    M test/unit/tools/test_citations.py
    M test/unit/tools/test_collect_primary_datasets.py
    M test/unit/tools/test_column_parameters.py
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    M test/unit/tools/test_dataset_matcher.py
    M test/unit/tools/test_evaluation.py
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    M test/unit/tools/test_history_imp_exp.py
    M test/unit/tools/test_parameter_parsing.py
    M test/unit/tools/test_select_parameters.py
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    M test/unit/tools/test_toolbox_filters.py
    M test/unit/tools/test_watcher.py
    M test/unit/tools/test_wrappers.py
    M test/unit/tools_support.py
    M test/unit/unittest_utils/galaxy_mock.py
    M test/unit/unittest_utils/tempfilecache.py
    M test/unit/unittest_utils/utility.py
    M test/unit/visualizations/plugins/test_VisualizationPlugin.py
    M test/unit/visualizations/plugins/test_VisualizationsRegistry.py
    M test/unit/web/base/test_HookPluginManager.py
    M test/unit/web/base/test_PageServingPluginManager.py
    M test/unit/web/base/test_PluginManager.py
    M test/unit/web/framework/test_webapp.py
    M test/unit/workflows/test_extract_summary.py
    M test/unit/workflows/test_modules.py
    M test/unit/workflows/test_run_parameters.py
    M test/unit/workflows/test_workflow_progress.py
    M test/unit/workflows/workflow_support.py
    M tool_list.py
    M tools/data_source/data_source.py
    M tools/data_source/fetch.py
    M tools/data_source/genbank.py
    M tools/data_source/hbvar_filter.py
    M tools/data_source/import.py
    M tools/data_source/microbial_import.py
    M tools/data_source/microbial_import_code.py
    M tools/data_source/upload.py
    M tools/evolution/add_scores.py
    M tools/evolution/codingSnps_filter.py
    M tools/extract/extract_genomic_dna.py
    M tools/extract/liftOver_wrapper.py
    M tools/filters/axt_to_lav.py
    M tools/filters/axt_to_lav_code.py
    M tools/filters/bed_to_gff_converter.py
    M tools/filters/gff/extract_GFF_Features.py
    M tools/filters/gff/gff_filter_by_attribute.py
    M tools/filters/gff/gff_filter_by_feature_count.py
    M tools/filters/gff/gtf_filter_by_attribute_values_list.py
    M tools/filters/gff_to_bed_converter.py
    M tools/filters/grep.py
    M tools/filters/gtf_to_bedgraph_converter.py
    M tools/filters/join.py
    M tools/filters/joinWrapper.py
    M tools/filters/lav_to_bed.py
    M tools/filters/lav_to_bed_code.py
    M tools/filters/mergeCols.py
    M tools/filters/random_lines_two_pass.py
    M tools/filters/randomlines.py
    M tools/filters/secure_hash_message_digest.py
    M tools/filters/sorter.py
    M tools/filters/trimmer.py
    M tools/filters/ucsc_gene_bed_to_exon_bed.py
    M tools/filters/ucsc_gene_bed_to_intron_bed.py
    M tools/filters/ucsc_gene_table_to_intervals.py
    M tools/filters/wiggle_to_simple.py
    M tools/genomespace/genomespace_exporter.py
    M tools/genomespace/genomespace_file_browser.py
    M tools/genomespace/genomespace_importer.py
    M tools/maf/interval2maf.py
    M tools/maf/interval_maf_to_merged_fasta.py
    M tools/maf/maf_by_block_number.py
    M tools/maf/maf_filter.py
    M tools/maf/maf_limit_size.py
    M tools/maf/maf_limit_to_species.py
    M tools/maf/maf_reverse_complement.py
    M tools/maf/maf_split_by_species.py
    M tools/maf/maf_stats.py
    M tools/maf/maf_thread_for_species.py
    M tools/maf/maf_to_bed.py
    M tools/maf/maf_to_bed_code.py
    M tools/maf/maf_to_fasta_concat.py
    M tools/maf/maf_to_fasta_multiple_sets.py
    M tools/maf/maf_to_interval.py
    M tools/maf/vcf_to_maf_customtrack.py
    M tools/meme/fimo_wrapper.py
    M tools/metag_tools/blat_wrapper.py
    M tools/metag_tools/shrimp_color_wrapper.py
    M tools/metag_tools/shrimp_wrapper.py
    M tools/next_gen_conversion/fastq_conversions.py
    M tools/next_gen_conversion/fastq_gen_conv.py
    M tools/next_gen_conversion/solid2fastq.py
    M tools/next_gen_conversion/solid_to_fastq.py
    M tools/ngs_simulation/ngs_simulation.py
    M tools/plotting/bar_chart.py
    M tools/solid_tools/maq_cs_wrapper.py
    M tools/solid_tools/solid_qual_stats.py
    M tools/sr_assembly/velvetg_wrapper.py
    M tools/sr_assembly/velveth_wrapper.py
    M tools/sr_mapping/bfast_wrapper.py
    M tools/sr_mapping/srma_wrapper.py
    M tools/stats/aggregate_scores_in_intervals.py
    M tools/stats/filtering.py
    M tools/stats/grouping.py
    M tools/stats/gsummary.py
    M tools/visualization/LAJ.py
    M tools/visualization/LAJ_code.py

  Log Message:
  -----------
  Merge branch 'dev' into improve_form_modules


  Commit: 7f50a8a29f53c7fa86e5b0c7a57d2d898c6c4650
      https://github.com/galaxyproject/galaxy/commit/7f50a8a29f53c7fa86e5b0c7a57d2...
  Author: Dannon Baker <dannon.baker@gmail.com>
  Date:   2017-08-18 (Fri, 18 Aug 2017)

  Changed paths:
    M client/galaxy/scripts/mvc/form/form-view.js
    M client/galaxy/scripts/mvc/tool/tool-form-base.js
    M client/galaxy/scripts/mvc/tool/tool-form-composite.js
    M client/galaxy/scripts/mvc/tool/tool-form.js
    M client/galaxy/scripts/mvc/workflow/workflow-forms.js
    M client/galaxy/scripts/mvc/workflow/workflow-manager.js
    M client/galaxy/scripts/mvc/workflow/workflow-node.js
    M client/galaxy/scripts/mvc/workflow/workflow-view.js
    M client/galaxy/style/less/ui.less
    M static/maps/mvc/form/form-view.js.map
    M static/maps/mvc/tool/tool-form-base.js.map
    M static/maps/mvc/tool/tool-form-composite.js.map
    M static/maps/mvc/tool/tool-form.js.map
    M static/maps/mvc/workflow/workflow-forms.js.map
    M static/maps/mvc/workflow/workflow-manager.js.map
    M static/maps/mvc/workflow/workflow-node.js.map
    M static/maps/mvc/workflow/workflow-view.js.map
    M static/scripts/bundled/admin.bundled.js
    M static/scripts/bundled/admin.bundled.js.map
    M static/scripts/bundled/analysis.bundled.js
    M static/scripts/bundled/analysis.bundled.js.map
    M static/scripts/bundled/libs.bundled.js.map
    M static/scripts/mvc/form/form-view.js
    M static/scripts/mvc/tool/tool-form-base.js
    M static/scripts/mvc/tool/tool-form-composite.js
    M static/scripts/mvc/tool/tool-form.js
    M static/scripts/mvc/workflow/workflow-forms.js
    M static/scripts/mvc/workflow/workflow-manager.js
    M static/scripts/mvc/workflow/workflow-node.js
    M static/scripts/mvc/workflow/workflow-view.js
    M static/style/blue/base.css

  Log Message:
  -----------
  Merge pull request #4438 from guerler/improve_form_modules

Augment form module separation


Compare: https://github.com/galaxyproject/galaxy/compare/cd22de114c20...7f50a8a29f53

[galaxy-commits] [galaxyproject/galaxy] a078ee: Move form augmentation to form handler

GitHub