Branch: refs/heads/dev
Home:
https://github.com/galaxyproject/galaxy
Commit: 97ec0e6ddace44a6fb16868af538c25aa4031ef7
https://github.com/galaxyproject/galaxy/commit/97ec0e6ddace44a6fb16868af5...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-09-07 (Fri, 07 Sep 2018)
Changed paths:
M client/package.json
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Swap to webpack4
Commit: 72657825b54f1dee5b38b68189eeac8756bf1dde
https://github.com/galaxyproject/galaxy/commit/72657825b54f1dee5b38b68189...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M .gitignore
M client/galaxy/scripts/galaxy.js
M client/galaxy/scripts/layout/panel.js
M client/galaxy/scripts/mvc/base-mvc.js
M client/galaxy/scripts/mvc/base/controlled-fetch-collection.js
M client/galaxy/scripts/mvc/history/history-contents.js
M client/galaxy/scripts/mvc/history/history-model.js
M client/galaxy/scripts/mvc/history/job-states-model.js
M client/galaxy/scripts/mvc/history/multi-panel.js
M client/galaxy/scripts/mvc/tours.js
M client/galaxy/scripts/mvc/user/user-model.js
M client/galaxy/scripts/onload.js
M client/galaxy/scripts/polyfills.js
M client/galaxy/scripts/utils/config.js
M client/galaxy/scripts/viz/trackster.js
M client/galaxy/scripts/viz/trackster/tracks.js
M client/webpack.config.js
M static/style/blue/base.css
M templates/js-app.mako
Log Message:
-----------
Reconfigured code-splitting in webpack, adjusted imports for backbone, underscore,
jquery, removed require.js from js-app.mako
Commit: 2c30c366596879c9a4ecdadfe8a62d6ecdf2076c
https://github.com/galaxyproject/galaxy/commit/2c30c366596879c9a4ecdadfe8...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M templates/admin/tool_shed_repository/browse_repository.mako
M templates/admin/tool_shed_repository/browse_tool_dependency.mako
M templates/admin/tool_shed_repository/manage_repository.mako
M templates/admin/tool_shed_repository/reselect_tool_panel_section.mako
M templates/admin/tool_shed_repository/select_tool_panel_section.mako
M templates/base.mako
M templates/base/base_panels.mako
M templates/js-app.mako
M templates/legacy/grid_base.mako
M templates/webapps/galaxy/galaxy.panels.mako
M templates/webapps/galaxy/visualization/gie.mako
M templates/webapps/galaxy/visualization/sweepster.mako
M templates/webapps/galaxy/workflow/editor.mako
M templates/webapps/tool_shed/repository/browse_repository.mako
M templates/webapps/tool_shed/repository/manage_repository.mako
M templates/webapps/tool_shed/repository/preview_tools_in_changeset.mako
M templates/webapps/tool_shed/repository/rate_repository.mako
M templates/webapps/tool_shed/repository/upload.mako
M templates/webapps/tool_shed/repository/view_changelog.mako
M templates/webapps/tool_shed/repository/view_changeset.mako
M templates/webapps/tool_shed/repository/view_repository.mako
M templates/webapps/tool_shed/repository_review/browse_review.mako
M templates/webapps/tool_shed/repository_review/edit_review.mako
M templates/webapps/tool_shed/repository_review/reviews_of_changeset_revision.mako
M templates/webapps/tool_shed/repository_review/reviews_of_repository.mako
M templates/webapps/tool_shed/repository_review/select_previous_review.mako
Log Message:
-----------
Removed manual calls to javascript libraries from mako templates
Commit: dd7ebb5fa0dc6a36ad10bb90a593e20d7b51722a
https://github.com/galaxyproject/galaxy/commit/dd7ebb5fa0dc6a36ad10bb90a5...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M client/webpack.config.js
M templates/base.mako
M templates/base/base_panels.mako
M templates/galaxy_client_app.mako
M templates/js-app.mako
M templates/webapps/galaxy/galaxy.panels.mako
Log Message:
-----------
Put requirejs session definitions back, corrected vue build reference in webpack config
Commit: fd3a2639ffc9245c9dedd23ff8d6c6b4d458c8a9
https://github.com/galaxyproject/galaxy/commit/fd3a2639ffc9245c9dedd23ff8...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
Switched to production vue library in webpack
Commit: 384f4717dcc1199d8015d4088ef15103eb896234
https://github.com/galaxyproject/galaxy/commit/384f4717dcc1199d8015d4088e...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-29 (Sat, 29 Sep 2018)
Changed paths:
A client/galaxy/scripts/apps/testEndpoint.js
A client/galaxy/scripts/jquery-custom.js
M client/galaxy/scripts/layout/modal.js
M client/package.json
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Replace jquery with custom build that includes plugins
Commit: 70efe90dcdc66d85cf0713b44300624ba661ef1a
https://github.com/galaxyproject/galaxy/commit/70efe90dcdc66d85cf0713b443...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-09-29 (Sat, 29 Sep 2018)
Changed paths:
M client/galaxy/scripts/jquery-custom.js
Log Message:
-----------
Added commentary, placeholder for more jquery plugins
Commit: 1d8f219362382adc1bb77510e97176d47ccd7f33
https://github.com/galaxyproject/galaxy/commit/1d8f219362382adc1bb77510e9...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-09-30 (Sun, 30 Sep 2018)
Changed paths:
M client/yarn.lock
M static/style/blue/base.css
Log Message:
-----------
rebuild, add hashes
Commit: c6e4e17aa8a4682a0eaf94eb893efbdeae1dabbd
https://github.com/galaxyproject/galaxy/commit/c6e4e17aa8a4682a0eaf94eb89...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-09-30 (Sun, 30 Sep 2018)
Changed paths:
A client/galaxy/scripts/apps/testEndpoint.js
A client/galaxy/scripts/jquery-custom.js
M client/galaxy/scripts/layout/modal.js
M client/package.json
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Merge branch 'webpack_4_minimal_flat' of github.com:dannon/galaxy into
webpack_4_minimal_flat
Commit: e94cf6884d61fa66e8bae23a1d8773044ea01099
https://github.com/galaxyproject/galaxy/commit/e94cf6884d61fa66e8bae23a1d...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-02 (Tue, 02 Oct 2018)
Changed paths:
M client/galaxy/scripts/jquery-custom.js
M client/webpack.config.js
M templates/webapps/galaxy/galaxy.panels.mako
M templates/webapps/galaxy/workflow/editor.mako
Log Message:
-----------
Added in webpack loader config for all jquery plugins, removed duplicate extended.js
script calls on editor template
Commit: 4615213167cb720025468fe2f5347caebdd4c41d
https://github.com/galaxyproject/galaxy/commit/4615213167cb720025468fe2f5...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-02 (Tue, 02 Oct 2018)
Changed paths:
M client/galaxy/scripts/polyfills.js
M templates/galaxy_client_app.mako
M templates/webapps/galaxy/galaxy.panels.mako
Log Message:
-----------
Removed stray console debugging lines
Commit: aa755b099ec09ded41be652ea971137a994ff783
https://github.com/galaxyproject/galaxy/commit/aa755b099ec09ded41be652ea9...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-02 (Tue, 02 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/admin.js
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/apps/extended.js
R client/galaxy/scripts/jquery-custom.js
M client/galaxy/scripts/layout/masthead.js
M client/galaxy/scripts/layout/menu.js
M client/galaxy/scripts/onload.js
M client/package.json
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Simplified loading jquery, referenced npm modules when present
Commit: 00d8c0a09adacab152175bfbe8f14acce391940b
https://github.com/galaxyproject/galaxy/commit/00d8c0a09adacab152175bfbe8...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-04 (Thu, 04 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/admin.js
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/apps/chart.js
M client/galaxy/scripts/apps/extended.js
M client/galaxy/scripts/apps/login.js
R client/galaxy/scripts/apps/testEndpoint.js
M client/galaxy/scripts/galaxy.js
M client/galaxy/scripts/onload.js
M client/galaxy/scripts/qunit/tests/galaxy_app_base_tests.js
M client/webpack.config.js
M templates/base.mako
M templates/base/base_panels.mako
M templates/galaxy_client_app.mako
M templates/webapps/galaxy/dataset/display.mako
M templates/webapps/galaxy/dataset/tabular_chunked.mako
M templates/webapps/galaxy/galaxy.panels.mako
Log Message:
-----------
Reworked exports on extended.js
Commit: e009533c6b9a393144ae3f61230876a7f4532a38
https://github.com/galaxyproject/galaxy/commit/e009533c6b9a393144ae3f6123...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-04 (Thu, 04 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/extended.js
Log Message:
-----------
Removed extraneous eslint comment
Commit: 8a74ee7b17e9efdde9eeded9b4e568d97a9b8234
https://github.com/galaxyproject/galaxy/commit/8a74ee7b17e9efdde9eeded9b4...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-04 (Thu, 04 Oct 2018)
Changed paths:
M client/galaxy/scripts/polyfills.js
M templates/js-app.mako
Log Message:
-----------
Logging tweaks
Commit: 3c2bf7e939623b31361c4fb90c9058d1ebf82bd5
https://github.com/galaxyproject/galaxy/commit/3c2bf7e939623b31361c4fb90c...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-05 (Fri, 05 Oct 2018)
Changed paths:
M client/galaxy/scripts/layout/panel.js
M client/galaxy/scripts/mvc/base-mvc.js
M client/galaxy/scripts/mvc/base/controlled-fetch-collection.js
M client/galaxy/scripts/mvc/history/history-contents.js
M client/galaxy/scripts/mvc/history/history-model.js
M client/galaxy/scripts/mvc/history/job-states-model.js
M client/galaxy/scripts/mvc/history/multi-panel.js
M client/galaxy/scripts/mvc/tours.js
M client/galaxy/scripts/mvc/user/user-model.js
M client/galaxy/scripts/utils/config.js
M client/galaxy/scripts/viz/trackster.js
M client/galaxy/scripts/viz/trackster/tracks.js
Log Message:
-----------
Rerun format
Commit: 80b42e8eaef57e28f371d3835bd76a50778289d9
https://github.com/galaxyproject/galaxy/commit/80b42e8eaef57e28f371d3835b...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-05 (Fri, 05 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Upgrade prettier.
Commit: 145c89ed1217842edbd844666e6a5f68f2cdfbde
https://github.com/galaxyproject/galaxy/commit/145c89ed1217842edbd844666e...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-06 (Sat, 06 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/admin.js
M client/galaxy/scripts/apps/analysis.js
Log Message:
-----------
Refactoring towards a reusable vue component display fn
Commit: 8f2222cd6440514c9136f3e84a86cfc3245d916e
https://github.com/galaxyproject/galaxy/commit/8f2222cd6440514c9136f3e84a...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-06 (Sat, 06 Oct 2018)
Changed paths:
M client/galaxy/scripts/layout/router.js
M client/webpack.config.js
Log Message:
-----------
Force babelrc for vue-loader/babel, drop redundant vue directive (which was breaking all
components...), cleanup
Commit: 8bd561362d134e3056855254af50d56a34c18a8f
https://github.com/galaxyproject/galaxy/commit/8bd561362d134e3056855254af...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-06 (Sat, 06 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
M static/style/blue/base.css
Log Message:
-----------
(safe) client package upgrades.
Commit: e4f43af36b81296940f45974cecbcc78743105e4
https://github.com/galaxyproject/galaxy/commit/e4f43af36b81296940f45974ce...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-06 (Sat, 06 Oct 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
Drop cruft from webpack.config
Commit: f8af18c08391ca584ed4c98335bab9980aac68f9
https://github.com/galaxyproject/galaxy/commit/f8af18c08391ca584ed4c98335...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-07 (Sun, 07 Oct 2018)
Changed paths:
M client/.babelrc
M client/package.json
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Swap to new mainline babel plugins, fix up build.
Commit: 3429cc3145fd0a4a4f373adb0c09da0156d208da
https://github.com/galaxyproject/galaxy/commit/3429cc3145fd0a4a4f373adb0c...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-07 (Sun, 07 Oct 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
babelrc is now a bool
Commit: 3a1658fbbb905af8fec82b7e548d2bdfad07c806
https://github.com/galaxyproject/galaxy/commit/3a1658fbbb905af8fec82b7e54...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-07 (Sun, 07 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Upgrade (major version) file-loader, css-loader, and concurrently
Commit: 13b0baf3561adc2501805f567f9a3349e628e944
https://github.com/galaxyproject/galaxy/commit/13b0baf3561adc2501805f567f...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-08 (Mon, 08 Oct 2018)
Changed paths:
M client/galaxy/scripts/mvc/history/history-view.js
Log Message:
-----------
Standardize and fix duplicate import in history-view
Commit: cbbc375e812f56b577f436d13ff4dc1fd2a5ad9f
https://github.com/galaxyproject/galaxy/commit/cbbc375e812f56b577f436d13f...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-08 (Mon, 08 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/extended.js
M client/galaxy/scripts/layout/scratchbook.js
M client/galaxy/scripts/mvc/dataset/data.js
M client/galaxy/scripts/mvc/history/history-contents.js
M client/galaxy/scripts/mvc/history/history-list.js
M client/galaxy/scripts/mvc/history/history-model.js
M client/galaxy/scripts/mvc/history/history-view-edit-current.js
M client/galaxy/scripts/mvc/history/history-view.js
M client/galaxy/scripts/mvc/history/multi-panel.js
M client/galaxy/scripts/mvc/tool/tools.js
M client/galaxy/scripts/reports/run_stats.js
M client/galaxy/scripts/viz/phyloviz.js
M client/galaxy/scripts/viz/sweepster.js
M client/galaxy/scripts/viz/trackster.js
M client/galaxy/scripts/viz/trackster/tracks.js
M client/galaxy/scripts/viz/visualization.js
M templates/webapps/galaxy/visualization/display.mako
M templates/webapps/reports/run_stats.mako
Log Message:
-----------
Untangle a lot of incorrect exports, start to standardize away from default and use
explicit exports.
Commit: 182b6661d65909976519eca3229ac5151cb09191
https://github.com/galaxyproject/galaxy/commit/182b6661d65909976519eca322...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-08 (Mon, 08 Oct 2018)
Changed paths:
M config/plugins/visualizations/common/templates/chart_entry_point.mako
Log Message:
-----------
Drop chart bundle; will be accessible through extended.
Commit: befa3da5b6a6bc7bf2dd061707f258a3cd602119
https://github.com/galaxyproject/galaxy/commit/befa3da5b6a6bc7bf2dd061707...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-08 (Mon, 08 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
M client/webpack.config.js
M templates/base.mako
M templates/base/base_panels.mako
M templates/webapps/galaxy/dataset/display.mako
M templates/webapps/galaxy/dataset/tabular_chunked.mako
M templates/webapps/galaxy/galaxy.panels.mako
Log Message:
-----------
Re-add extended bundle as an application entrypoint
Commit: b78ed0bcbfeddd4bee790682d7391b51714fcaf3
https://github.com/galaxyproject/galaxy/commit/b78ed0bcbfeddd4bee790682d7...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-08 (Mon, 08 Oct 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
Drop test path from webpack config
Commit: 63cff0d6742e11162865b61a601efe72a8874a17
https://github.com/galaxyproject/galaxy/commit/63cff0d6742e11162865b61a60...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
A client/galaxy/images/Armitagep_manhattan.png
A client/galaxy/images/Armitagep_qqplot.png
A client/galaxy/images/add_icon.png
A client/galaxy/images/add_icon_dark.png
A client/galaxy/images/aggregate_history1.png
A client/galaxy/images/aggregate_history2.png
A client/galaxy/images/bar_chart.png
A client/galaxy/images/base_bg.png
A client/galaxy/images/bed_warn.png
A client/galaxy/images/button_bar_bg_light.png
A client/galaxy/images/closebox.png
A client/galaxy/images/dat_points_table_brows_1.png
A client/galaxy/images/data_empty.png
A client/galaxy/images/data_error.png
A client/galaxy/images/data_ok.png
A client/galaxy/images/data_queued.png
A client/galaxy/images/data_running.gif
A client/galaxy/images/ddarrowsplit.png
A client/galaxy/images/delete_tag_icon_gray.png
A client/galaxy/images/delete_tag_icon_white.png
A client/galaxy/images/documents-stack-faded.png
A client/galaxy/images/documents-stack.png
A client/galaxy/images/done_message_icon.png
A client/galaxy/images/dropdownarrow.png
A client/galaxy/images/error_bg.png
A client/galaxy/images/error_large.png
A client/galaxy/images/error_message_icon.png
A client/galaxy/images/error_small.png
A client/galaxy/images/fetchTax.png
A client/galaxy/images/footer_title_bg.png
A client/galaxy/images/form_body_bg.png
A client/galaxy/images/form_title_bg.png
A client/galaxy/images/fugue.png
A client/galaxy/images/galaxyIcon_noText.png
A client/galaxy/images/gray_bg.png
A client/galaxy/images/hatch-023858.png
A client/galaxy/images/hgrad.png
A client/galaxy/images/hgrad_over.png
A client/galaxy/images/histogram.png
A client/galaxy/images/histogram2.png
A client/galaxy/images/history-buttons.png
A client/galaxy/images/history-states.png
A client/galaxy/images/info_large.png
A client/galaxy/images/info_message_icon.png
A client/galaxy/images/info_small.png
A client/galaxy/images/jstree/32px.png
A client/galaxy/images/jstree/40px.png
A client/galaxy/images/jstree/throbber.gif
A client/galaxy/images/kendall.png
A client/galaxy/images/largespinner.gif
A client/galaxy/images/layout_callout_top.png
A client/galaxy/images/mag_glass.png
A client/galaxy/images/masthead_bg.png
A client/galaxy/images/menu_bg.png
A client/galaxy/images/mutation_visualization_example.png
A client/galaxy/images/ok_bg.png
A client/galaxy/images/ok_large.png
A client/galaxy/images/ok_small.png
A client/galaxy/images/overview_arrows.png
A client/galaxy/images/panel_header_bg.png
A client/galaxy/images/pearson.png
A client/galaxy/images/popupmenu_callout_top.png
A client/galaxy/images/question-balloon.png
A client/galaxy/images/question-octagon-frame.png
A client/galaxy/images/resizable.png
A client/galaxy/images/scatter.png
A client/galaxy/images/scatterplot.png
A client/galaxy/images/select2-spinner.gif
A client/galaxy/images/select2.png
A client/galaxy/images/select2x2.png
A client/galaxy/images/silk/add.png
A client/galaxy/images/silk/book.png
A client/galaxy/images/silk/book_open.png
A client/galaxy/images/silk/chart_curve.png
A client/galaxy/images/silk/folder.png
A client/galaxy/images/silk/folder_page.png
A client/galaxy/images/silk/link.png
A client/galaxy/images/silk/link_break.png
A client/galaxy/images/silk/page_white.png
A client/galaxy/images/silk/page_white_compressed.png
A client/galaxy/images/silk/resultset_bottom.png
A client/galaxy/images/silk/resultset_next.png
A client/galaxy/images/silk/resultset_previous.png
A client/galaxy/images/solid_qual.png
A client/galaxy/images/spearman.png
A client/galaxy/images/sprite-fugue.png
A client/galaxy/images/sprite-history-buttons.png
A client/galaxy/images/sprite-history-states.png
A client/galaxy/images/thumbtack_icon.png
A client/galaxy/images/thumbtack_icon_dark.png
A client/galaxy/images/tiny_arrow_left.png
A client/galaxy/images/tiny_arrow_right.png
A client/galaxy/images/visualization/draggable_horizontal.png
A client/galaxy/images/visualization/draggable_vertical.png
A client/galaxy/images/visualization/strand_left.png
A client/galaxy/images/visualization/strand_left_inv.png
A client/galaxy/images/visualization/strand_right.png
A client/galaxy/images/visualization/strand_right_inv.png
A client/galaxy/images/wait_large.png
A client/galaxy/images/wait_small.png
A client/galaxy/images/warn_bg.png
A client/galaxy/images/warn_large.png
A client/galaxy/images/warn_message_icon.png
A client/galaxy/images/warn_small.png
A client/galaxy/images/workflow_circle_drag.png
A client/galaxy/images/workflow_circle_green.png
A client/galaxy/images/workflow_circle_open.png
M client/galaxy/scripts/onload.js
M client/galaxy/style/scss/base.scss
M client/galaxy/style/scss/iconic_stroke.scss
M client/galaxy/style/scss/jstree.scss
M client/galaxy/style/scss/select2.scss
M client/galaxy/style/scss/trackster.scss
M client/package.json
M client/webpack.config.js
M client/yarn.lock
R static/images/Armitagep_manhattan.png
R static/images/Armitagep_qqplot.png
R static/images/add_icon.png
R static/images/add_icon_dark.png
R static/images/aggregate_history1.png
R static/images/aggregate_history2.png
R static/images/bar_chart.png
R static/images/bed_warn.png
R static/images/closebox.png
R static/images/dat_points_table_brows_1.png
R static/images/ddarrowsplit.png
R static/images/delete_tag_icon_gray.png
R static/images/delete_tag_icon_white.png
R static/images/documents-stack-faded.png
R static/images/documents-stack.png
R static/images/dropdownarrow.png
R static/images/fetchTax.png
R static/images/galaxyIcon_noText.png
R static/images/hatch-023858.png
R static/images/histogram.png
R static/images/histogram2.png
R static/images/jstree/32px.png
R static/images/jstree/40px.png
R static/images/jstree/throbber.gif
R static/images/kendall.png
R static/images/mag_glass.png
R static/images/mutation_visualization_example.png
R static/images/overview_arrows.png
R static/images/pearson.png
R static/images/resizable.png
R static/images/scatter.png
R static/images/scatterplot.png
R static/images/select2-spinner.gif
R static/images/select2.png
R static/images/select2x2.png
R static/images/silk/add.png
R static/images/silk/book.png
R static/images/silk/book_open.png
R static/images/silk/chart_curve.png
R static/images/silk/folder.png
R static/images/silk/folder_page.png
R static/images/silk/link.png
R static/images/silk/link_break.png
R static/images/silk/page_white.png
R static/images/silk/page_white_compressed.png
R static/images/silk/resultset_bottom.png
R static/images/silk/resultset_next.png
R static/images/silk/resultset_previous.png
R static/images/solid_qual.png
R static/images/spearman.png
R static/images/thumbtack_icon.png
R static/images/thumbtack_icon_dark.png
R static/images/visualization/draggable_horizontal.png
R static/images/visualization/draggable_vertical.png
R static/images/visualization/strand_left.png
R static/images/visualization/strand_left_inv.png
R static/images/visualization/strand_right.png
R static/images/visualization/strand_right_inv.png
M static/style/blue/base.css
R static/style/blue/base_bg.png
R static/style/blue/button_bar_bg_light.png
R static/style/blue/data_empty.png
R static/style/blue/data_error.png
R static/style/blue/data_ok.png
R static/style/blue/data_queued.png
R static/style/blue/done_message_icon.png
R static/style/blue/error_bg.png
R static/style/blue/error_large.png
R static/style/blue/error_message_icon.png
R static/style/blue/error_small.png
R static/style/blue/footer_title_bg.png
R static/style/blue/form_body_bg.png
R static/style/blue/form_title_bg.png
R static/style/blue/fugue.png
R static/style/blue/gray_bg.png
R static/style/blue/hgrad.png
R static/style/blue/hgrad_over.png
R static/style/blue/history-buttons.png
R static/style/blue/history-states.png
R static/style/blue/info_large.png
R static/style/blue/info_message_icon.png
R static/style/blue/info_small.png
R static/style/blue/largespinner.gif
R static/style/blue/layout_callout_top.png
R static/style/blue/masthead_bg.png
R static/style/blue/menu_bg.png
R static/style/blue/ok_bg.png
R static/style/blue/ok_large.png
R static/style/blue/ok_small.png
R static/style/blue/panel_header_bg.png
R static/style/blue/popupmenu_callout_top.png
R static/style/blue/question-balloon.png
R static/style/blue/question-octagon-frame.png
R static/style/blue/tiny_arrow_left.png
R static/style/blue/tiny_arrow_right.png
M static/style/blue/trackster.css
R static/style/blue/wait_large.png
R static/style/blue/wait_small.png
R static/style/blue/warn_bg.png
R static/style/blue/warn_large.png
R static/style/blue/warn_message_icon.png
R static/style/blue/warn_small.png
R static/style/blue/workflow_circle_drag.png
R static/style/blue/workflow_circle_green.png
R static/style/blue/workflow_circle_open.png
R static/style/shared_images/data_running.gif
R static/style/shared_images/error_large.png
R static/style/shared_images/error_small.png
R static/style/shared_images/info_large.png
R static/style/shared_images/info_small.png
R static/style/shared_images/ok_large.png
R static/style/shared_images/ok_small.png
R static/style/shared_images/wait_large.png
R static/style/shared_images/wait_small.png
R static/style/shared_images/warn_large.png
R static/style/shared_images/warn_small.png
Log Message:
-----------
Style building and asset bundling, incremental.
Commit: 02623d0005a42df3d3aa56d7ec445d31b9ebc1d5
https://github.com/galaxyproject/galaxy/commit/02623d0005a42df3d3aa56d7ec...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
M client/gulpfile.js
M client/webpack.config.js
M static/style/blue/base.css
M templates/js-app.mako
Log Message:
-----------
File loader tweaking.
Commit: 6aa94a684efd90f5af775ab9f28a246c189e6fcd
https://github.com/galaxyproject/galaxy/commit/6aa94a684efd90f5af775ab9f2...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
R client/galaxy/images/galaxyIcon_noText.png
A static/images/galaxyIcon_noText.png
Log Message:
-----------
relocate default logo (again) -- need a better strategy for cleaning out dist dir
Commit: 67735bf7b28b9f675b4a1e7e41ee10285d52203d
https://github.com/galaxyproject/galaxy/commit/67735bf7b28b9f675b4a1e7e41...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-node.js
M client/webpack.config.js
M templates/base.mako
Log Message:
-----------
Test eliminating duplicate CSS
Commit: abb9be2ead59299cfba686ea3c22707f3f2f9914
https://github.com/galaxyproject/galaxy/commit/abb9be2ead59299cfba686ea3c...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
M .gitignore
A client/galaxy/style/scss/sprite-fugue.scss
A client/galaxy/style/scss/sprite-history-buttons.scss
A client/galaxy/style/scss/sprite-history-states.scss
Log Message:
-----------
Keeping prebuilt sprite sheets for now
Commit: 9b91a92400394d7e6354c6c4e4f35ff8aa9067c9
https://github.com/galaxyproject/galaxy/commit/9b91a92400394d7e6354c6c4e4...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-10 (Wed, 10 Oct 2018)
Changed paths:
M client/galaxy/style/scss/sprite-fugue.scss
Log Message:
-----------
Fix sprite path resolution
Commit: c221eaaef9ec5eca5240cb9f969f825e4f79b3f1
https://github.com/galaxyproject/galaxy/commit/c221eaaef9ec5eca5240cb9f96...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/karma.config.js
Log Message:
-----------
Karma cleanup; trying to get tests working.
Commit: 66197c055f355ed54b2669537a399ff78e4480ff
https://github.com/galaxyproject/galaxy/commit/66197c055f355ed54b2669537a...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/karma.config.js
Log Message:
-----------
Test against production bundles
Commit: 860ec172285d2ee1f06bb02f117dcb5719585498
https://github.com/galaxyproject/galaxy/commit/860ec172285d2ee1f06bb02f11...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/package.json
Log Message:
-----------
Pipe raw through concurrently (buys us colors from managed processes)
Commit: 68af39b523f4343be211f03f5a3315ecfdf64353
https://github.com/galaxyproject/galaxy/commit/68af39b523f4343be211f03f5a...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/karma.config.js
Log Message:
-----------
Better debug output when there are no tests
Commit: 43fcf0f9a9747599f9c2a5a1f72c30945ab2df16
https://github.com/galaxyproject/galaxy/commit/43fcf0f9a9747599f9c2a5a1f7...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
R client/GruntFile.js
M client/package.json
M client/yarn.lock
Log Message:
-----------
Purge grunt.
Commit: 73ea22e1ad29038c7b7a31421e41fc5e18d57e19
https://github.com/galaxyproject/galaxy/commit/73ea22e1ad29038c7b7a31421e...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M run_tests.sh
Log Message:
-----------
drop watch option from run_tests (hasnt' been valid in a long time)
Commit: f116cb8de824a3d9d03acbd698e545cf5ca5331f
https://github.com/galaxyproject/galaxy/commit/f116cb8de824a3d9d03acbd698...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M doc/source/dev/faq.rst
R static/GruntFile.js
Log Message:
-----------
Drop more grunt cruft
Commit: a8b06b0c444b4962b1129f903b33e8fc6ffb774a
https://github.com/galaxyproject/galaxy/commit/a8b06b0c444b4962b1129f903b...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/galaxy/style/scss/base.scss
A client/galaxy/style/scss/jquery.rating.css
R static/style/blue/jquery.rating.css
M templates/base/base_panels.mako
Log Message:
-----------
Incremental REBASEME
Commit: eeaf610ea04b59c8f554eb982fa24d17795cbc4d
https://github.com/galaxyproject/galaxy/commit/eeaf610ea04b59c8f554eb982f...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-11 (Thu, 11 Oct 2018)
Changed paths:
M client/gulpfile.js
M client/package.json
R static/style/blue/base.css
Log Message:
-----------
Drop gulp style; remove base.css from repo
Commit: 5e96c2daa0ee87c1fef3883043d2f0d6a8aeac15
https://github.com/galaxyproject/galaxy/commit/5e96c2daa0ee87c1fef3883043...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-12 (Fri, 12 Oct 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
Style chunk
Commit: 748ff8a7595350eed83d9eaa490246cc0f7bfe46
https://github.com/galaxyproject/galaxy/commit/748ff8a7595350eed83d9eaa49...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-12 (Fri, 12 Oct 2018)
Changed paths:
M client/package.json
M client/webpack.config.js
M client/yarn.lock
M static/style/base.css
Log Message:
-----------
Style chunk, now with mini-css-extract-plugin
Commit: b0ddea33007f415b5710c5968c8c98ecc87e55fd
https://github.com/galaxyproject/galaxy/commit/b0ddea33007f415b5710c5968c...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-12 (Fri, 12 Oct 2018)
Changed paths:
M client/package.json
M client/webpack.config.js
M client/yarn.lock
M static/style/base.css
Log Message:
-----------
Pick a different path for style entrypoint.
This reverts commit 748ff8a7595350eed83d9eaa490246cc0f7bfe46.
Commit: 0118c982e7b7ca1525bb41cafcb89ad81c1d8b99
https://github.com/galaxyproject/galaxy/commit/0118c982e7b7ca1525bb41cafc...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-12 (Fri, 12 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
A client/galaxy/scripts/style.js
M client/webpack.config.js
M templates/js-app.mako
Log Message:
-----------
Add style entrypoint
Commit: 8f8473c1905ad76e3196bc38f58d294c523446ea
https://github.com/galaxyproject/galaxy/commit/8f8473c1905ad76e3196bc38f5...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-15 (Mon, 15 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
M client/webpack.config.js
Log Message:
-----------
Drop independent style chunk; we'll use onload for this.
Commit: 7aa0f6afcc3ab37bc91f54ee7806de6a0f8a59d6
https://github.com/galaxyproject/galaxy/commit/7aa0f6afcc3ab37bc91f54ee78...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-15 (Mon, 15 Oct 2018)
Changed paths:
M client/galaxy/scripts/polyfills.js
M client/package.json
M client/yarn.lock
Log Message:
-----------
Added async function syntax support
Commit: db67cd2f56fd831251ee3b2d713e9e883c7edde1
https://github.com/galaxyproject/galaxy/commit/db67cd2f56fd831251ee3b2d71...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-15 (Mon, 15 Oct 2018)
Changed paths:
M .ci/jenkins/api-py3/run_tests.sh
M .ci/jenkins/api/run_tests.sh
M .ci/jenkins/framework-py3/run_tests.sh
M .ci/jenkins/framework/run_tests.sh
A .ci/jenkins/main-tools-py3/run_tests.sh
A .ci/jenkins/main-tools/run_tests.sh
M .ci/jenkins/selenium-py3/run_tests.sh
M .ci/jenkins/selenium/run_tests.sh
M .ci/jenkins/toolshed/run_tests.sh
M .coveragerc
M .gitignore
M client/README.md
M client/galaxy/docs/bootstrap.md
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/apps/panels/admin-panel.js
M client/galaxy/scripts/components/DisplayStructured.vue
M client/galaxy/scripts/components/PluginList.vue
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
M client/galaxy/scripts/components/Sharing.vue
M client/galaxy/scripts/components/admin/BaseGrid.vue
M client/galaxy/scripts/galaxy.pages.js
M client/galaxy/scripts/layout/scratchbook.js
M client/galaxy/scripts/mvc/dataset/dataset-edit-attributes.js
M client/galaxy/scripts/mvc/dataset/dataset-error.js
M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js
M client/galaxy/scripts/mvc/form/form-input.js
M client/galaxy/scripts/mvc/form/form-repeat.js
M client/galaxy/scripts/mvc/form/form-section.js
M client/galaxy/scripts/mvc/form/form-view.js
M client/galaxy/scripts/mvc/form/form-wrapper.js
M client/galaxy/scripts/mvc/history/history-view-edit-current.js
M client/galaxy/scripts/mvc/history/history-view.js
M client/galaxy/scripts/mvc/lazy/lazy-limited.js
M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
M client/galaxy/scripts/mvc/rules/rule-definitions.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/tool/tools.js
M client/galaxy/scripts/mvc/toolshed/repository-view.js
M client/galaxy/scripts/mvc/ui/ui-buttons.js
M client/galaxy/scripts/mvc/ui/ui-list.js
M client/galaxy/scripts/mvc/ui/ui-misc.js
M client/galaxy/scripts/mvc/ui/ui-options.js
M client/galaxy/scripts/mvc/ui/ui-popover.js
M client/galaxy/scripts/mvc/ui/ui-portlet.js
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
M client/galaxy/scripts/mvc/ui/ui-select-content.js
M client/galaxy/scripts/mvc/ui/ui-select-default.js
M client/galaxy/scripts/mvc/ui/ui-select-genomespace.js
M client/galaxy/scripts/mvc/ui/ui-select-library.js
M client/galaxy/scripts/mvc/ui/ui-slider.js
M client/galaxy/scripts/mvc/ui/ui-table.js
M client/galaxy/scripts/mvc/ui/ui-tabs.js
M client/galaxy/scripts/mvc/upload/collection/collection-row.js
M client/galaxy/scripts/mvc/upload/collection/collection-view.js
M client/galaxy/scripts/mvc/upload/composite/composite-row.js
M client/galaxy/scripts/mvc/upload/composite/composite-view.js
M client/galaxy/scripts/mvc/upload/default/default-row.js
M client/galaxy/scripts/mvc/upload/default/default-view.js
M client/galaxy/scripts/mvc/upload/upload-extension.js
M client/galaxy/scripts/mvc/upload/upload-ftp.js
M client/galaxy/scripts/mvc/upload/upload-settings.js
M client/galaxy/scripts/mvc/user/user-custom-builds.js
M client/galaxy/scripts/mvc/user/user-preferences.js
M client/galaxy/scripts/mvc/visualization/chart/views/description.js
M client/galaxy/scripts/mvc/visualization/chart/views/editor.js
M client/galaxy/scripts/mvc/visualization/chart/views/groups.js
M client/galaxy/scripts/mvc/visualization/chart/views/menu.js
M client/galaxy/scripts/mvc/visualization/chart/views/settings.js
M client/galaxy/scripts/mvc/workflow/workflow-connector.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-terminals.js
M client/galaxy/scripts/mvc/workflow/workflow-view-data.js
M client/galaxy/scripts/mvc/workflow/workflow-view-terminals.js
M client/galaxy/scripts/mvc/workflow/workflow-view.js
M client/galaxy/scripts/qunit/test.js
M client/galaxy/scripts/qunit/tests/form_tests.js
R client/galaxy/scripts/qunit/tests/popover_tests.js
M client/galaxy/scripts/qunit/tests/ui_tests.js
M client/galaxy/scripts/qunit/tests/upload_dialog_tests.js
M client/galaxy/scripts/ui/fa-icon-button.js
M client/galaxy/style/scss/base.scss
M client/galaxy/style/scss/charts.scss
M client/galaxy/style/scss/frame.scss
R client/galaxy/style/scss/galaxy_bootstrap/overrides.scss
R client/galaxy/style/scss/galaxy_bootstrap/variables.scss
R client/galaxy/style/scss/galaxy_variables.scss
M client/galaxy/style/scss/history.scss
M client/galaxy/style/scss/library.scss
M client/galaxy/style/scss/list-item.scss
A client/galaxy/style/scss/overrides.scss
M client/galaxy/style/scss/theme/blue.scss
R client/galaxy/style/scss/theme/plain.scss
M client/galaxy/style/scss/ui.scss
M client/galaxy/style/scss/upload.scss
A client/galaxy/style/source_material/error_icon.svg
M client/galaxy/style/source_material/galaxy_icons.svg
A client/galaxy/style/source_material/info_icon.svg
A client/galaxy/style/source_material/ok_icon.svg
A client/galaxy/style/source_material/wait_icon.svg
A client/galaxy/style/source_material/warn_icon.svg
M client/gulpfile.js
M client/package.json
M client/yarn.lock
A config/container_resolvers_conf.xml.sample
M config/containers_conf.yml.sample
M config/datatypes_conf.xml.sample
M config/galaxy.yml.sample
M config/job_conf.xml.sample_advanced
M config/oidc_backends_config.xml.sample
M config/plugins/interactive_environments/bam_iobio/templates/bam_iobio.mako
M config/plugins/interactive_environments/hicbrowser/templates/hicbrowser.mako
M config/plugins/interactive_environments/neo/templates/neo.mako
M config/plugins/tours/core.galaxy_ui.yaml
M config/plugins/visualizations/graphviz/config/graphviz.xml
M config/plugins/webhooks/demo/tour_generator/__init__.py
M config/reports.yml.sample
M config/tool_shed.yml.sample
M contrib/nagios/check_galaxy.py
M doc/source/admin/conda_faq.rst
M doc/source/admin/dependency_resolvers.rst
M doc/source/admin/framework_dependencies.rst
M doc/source/admin/galaxy_options.rst
M doc/source/admin/jobs.md
M doc/source/admin/special_topics/interactive_environments.rst
M doc/source/dev/index.rst
M doc/source/dev/interactive_environments.rst
A doc/source/releases/18.09.rst
A doc/source/releases/18.09_announce.rst
A doc/source/releases/19.01_announce.rst
M lib/galaxy/actions/library.py
M lib/galaxy/authnz/managers.py
M lib/galaxy/authnz/psa_authnz.py
M lib/galaxy/config.py
M lib/galaxy/dataset_collections/matching.py
M lib/galaxy/datatypes/binary.py
A lib/galaxy/datatypes/test/test.loom
M lib/galaxy/datatypes/util/gff_util.py
M lib/galaxy/dependencies/conda-file.sh
M lib/galaxy/dependencies/conditional-requirements.txt
M lib/galaxy/dependencies/pipfiles/default/Pipfile
M lib/galaxy/dependencies/pipfiles/default/pinned-dev-requirements.txt
M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
M lib/galaxy/dependencies/pipfiles/update.sh
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/exceptions/__init__.py
M lib/galaxy/exceptions/error_codes.json
M lib/galaxy/jobs/__init__.py
M lib/galaxy/jobs/handler.py
M lib/galaxy/jobs/runners/condor.py
M lib/galaxy/jobs/runners/slurm.py
A lib/galaxy/jobs/runners/util/cli/job/lsf.py
M lib/galaxy/jobs/runners/util/cli/shell/local.py
M lib/galaxy/jobs/runners/util/cli/shell/rsh.py
M lib/galaxy/jobs/runners/util/kill.py
M lib/galaxy/managers/base.py
M lib/galaxy/managers/cloud.py
A lib/galaxy/managers/cloudauthzs.py
M lib/galaxy/managers/context.py
M lib/galaxy/managers/datasets.py
M lib/galaxy/managers/folders.py
M lib/galaxy/managers/jobs.py
M lib/galaxy/managers/libraries.py
M lib/galaxy/managers/library_datasets.py
M lib/galaxy/managers/rbac_secured.py
M lib/galaxy/managers/users.py
M lib/galaxy/managers/workflows.py
M lib/galaxy/model/__init__.py
M lib/galaxy/model/mapping.py
M lib/galaxy/model/metadata.py
A lib/galaxy/model/migrate/versions/0143_add_cloudauthz_tables.py
M lib/galaxy/objectstore/__init__.py
M lib/galaxy/objectstore/cloud.py
M lib/galaxy/security/__init__.py
M lib/galaxy/tools/__init__.py
M lib/galaxy/tools/actions/__init__.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/cwltool_deps.py
M lib/galaxy/tools/cwl/parser.py
M lib/galaxy/tools/cwl/schema.py
M lib/galaxy/tools/cwl/util.py
M lib/galaxy/tools/deps/conda_util.py
M lib/galaxy/tools/deps/docker_util.py
M lib/galaxy/tools/deps/mulled/mulled_build.py
M lib/galaxy/tools/deps/mulled/mulled_build_channel.py
M lib/galaxy/tools/deps/resolvers/conda.py
M lib/galaxy/tools/evaluation.py
M lib/galaxy/tools/execute.py
M lib/galaxy/tools/extract_dataset.xml
M lib/galaxy/tools/lint.py
M lib/galaxy/tools/linters/stdio.py
M lib/galaxy/tools/linters/tests.py
M lib/galaxy/tools/parameters/basic.py
M lib/galaxy/tools/parameters/grouping.py
M lib/galaxy/tools/parameters/wrapped.py
M lib/galaxy/tools/parser/cwl.py
M lib/galaxy/tools/search/__init__.py
M lib/galaxy/tools/tag_collection_from_file.xml
M lib/galaxy/tools/toolbox/base.py
M lib/galaxy/tools/toolbox/filters/examples.py.sample
M lib/galaxy/tools/util/maf_utilities.py
M lib/galaxy/tools/verify/interactor.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/tools/xsd/galaxy.xsd
M lib/galaxy/util/__init__.py
M lib/galaxy/util/compression_utils.py
M lib/galaxy/util/create_history_template.py
M lib/galaxy/util/monitors.py
M lib/galaxy/util/rules_dsl.py
M lib/galaxy/util/streamball.py
M lib/galaxy/util/ucsc.py
M lib/galaxy/util/xml_macros.py
M lib/galaxy/version.py
M lib/galaxy/web/base/controller.py
M lib/galaxy/web/form_builder.py
M lib/galaxy/web/framework/base.py
M lib/galaxy/web/framework/decorators.py
M lib/galaxy/web/framework/helpers/__init__.py
M lib/galaxy/webapps/config_manage.py
M lib/galaxy/webapps/galaxy/api/cloud.py
A lib/galaxy/webapps/galaxy/api/cloudauthz.py
M lib/galaxy/webapps/galaxy/api/configuration.py
M lib/galaxy/webapps/galaxy/api/folder_contents.py
M lib/galaxy/webapps/galaxy/api/folders.py
M lib/galaxy/webapps/galaxy/api/forms.py
M lib/galaxy/webapps/galaxy/api/groups.py
M lib/galaxy/webapps/galaxy/api/history_contents.py
M lib/galaxy/webapps/galaxy/api/jobs.py
M lib/galaxy/webapps/galaxy/api/libraries.py
M lib/galaxy/webapps/galaxy/api/library_contents.py
M lib/galaxy/webapps/galaxy/api/library_datasets.py
M lib/galaxy/webapps/galaxy/api/pages.py
M lib/galaxy/webapps/galaxy/api/roles.py
M lib/galaxy/webapps/galaxy/api/search.py
M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/users.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M lib/galaxy/webapps/galaxy/buildapp.py
M lib/galaxy/webapps/galaxy/config_schema.yml
M lib/galaxy/webapps/galaxy/controllers/admin.py
M lib/galaxy/webapps/galaxy/controllers/data_manager.py
M lib/galaxy/webapps/galaxy/controllers/dataset.py
M lib/galaxy/webapps/galaxy/controllers/history.py
M lib/galaxy/webapps/galaxy/controllers/page.py
M lib/galaxy/webapps/galaxy/controllers/root.py
M lib/galaxy/webapps/galaxy/controllers/tool_runner.py
M lib/galaxy/webapps/galaxy/controllers/user.py
M lib/galaxy/webapps/galaxy/controllers/workflow.py
M lib/galaxy/webapps/tool_shed/api/categories.py
M lib/galaxy/webapps/tool_shed/api/groups.py
M lib/galaxy/webapps/tool_shed/api/repositories.py
M lib/galaxy/webapps/tool_shed/controllers/repository.py
M lib/galaxy/webapps/tool_shed/controllers/repository_review.py
M lib/galaxy/webapps/tool_shed/controllers/user.py
M lib/galaxy/workflow/modules.py
M lib/galaxy/workflow/resources/example.py.sample
M lib/galaxy/workflow/run.py
M lib/galaxy/workflow/run_request.py
M lib/tool_shed/managers/groups.py
M lib/tool_shed/util/repository_util.py
M pytest.ini
M run_tests.sh
M scripts/api/library_upload_dir.py
M scripts/apply_tags.py
M scripts/bootstrap_history.py
M scripts/check_galaxy.py
M scripts/cleanup_datasets/pgcleanup.py
M scripts/common_startup.sh
M scripts/common_startup_functions.sh
M scripts/galaxy-main
M scripts/get_uwsgi_args.py
M scripts/grt/export.py
M scripts/loc_files/create_all_fasta_loc.py
M scripts/microbes/util.py
A scripts/pages_identifier_conversion.py
M scripts/plugin_staging.py
A static/style/blue/base.css
M static/style/blue/library.css
M templates/display_base.mako
M templates/galaxy_client_app.mako
M templates/ind_share_base.mako
M templates/show_params.mako
M templates/user/info.mako
M templates/user/register.mako
M templates/webapps/galaxy/galaxy.masthead.mako
M templates/webapps/galaxy/history/display.mako
M templates/webapps/galaxy/history/share.mako
M templates/webapps/galaxy/page/editor.mako
M templates/webapps/galaxy/visualization/display.mako
M templates/webapps/galaxy/visualization/display_in_frame.mako
M templates/webapps/galaxy/workflow/display.mako
M templates/webapps/galaxy/workflow/editor.mako
M templates/webapps/tool_shed/common/repository_actions_menu.mako
M templates/webapps/tool_shed/common/reset_metadata_on_selected_repositories.mako
M templates/webapps/tool_shed/repository/manage_repository.mako
M templates/webapps/tool_shed/repository/tool_form.mako
M templates/webapps/tool_shed/repository/view_repository.mako
M templates/webapps/tool_shed/role/role.mako
M templates/webapps/tool_shed/user/username.mako
A test-data/safetar_with_symlink.tar
A test-data/testdir.tar
A test-data/unsafe.tar
A test-data/unsafe.zip
A test-data/unsafe_relative_symlink.tar
M test/api/test_api_batch.py
M test/api/test_dataset_collections.py
M test/api/test_histories.py
M test/api/test_jobs.py
M test/api/test_pages.py
M test/api/test_tools.py
M test/api/test_tools_upload.py
M test/api/test_workflows.py
M test/api/test_workflows_from_yaml.py
M test/base/api.py
M test/base/populators.py
A test/base/ssh_util.py
M test/base/workflow_fixtures.py
R test/base/workflows_format_2/README.txt
R test/base/workflows_format_2/__init__.py
R test/base/workflows_format_2/converter.py
R test/base/workflows_format_2/interface.py
R test/base/workflows_format_2/main.py
A test/functional/known_broken_tools.txt
M test/functional/test_toolbox_pytest.py
M test/functional/tools/disambiguate_cond.xml
A test/functional/tools/for_workflows/mapper_two.xml
A test/functional/tools/identifier_in_conditional.xml
M test/functional/tools/job_environment_default.xml
M test/functional/tools/job_environment_default_legacy.xml
M test/functional/tools/job_environment_explicit_shared_home.xml
M test/functional/tools/samples_tool_conf.xml
M test/galaxy_selenium/has_driver.py
M test/galaxy_selenium/navigates_galaxy.py
M test/galaxy_selenium/navigation.yml
M test/galaxy_selenium/smart_components.py
A test/integration/test_cli_runners.py
M test/integration/test_job_environments.py
M test/integration/test_scripts.py
M test/manual/workflows_scaling.py
M test/selenium_tests/framework.py
M test/selenium_tests/test_collection_builders.py
M test/selenium_tests/test_stock_tours.py
M test/selenium_tests/test_workflow_run.py
M test/unit/jobs/dynamic_tool_destination/test_dynamic_tool_destination.py
M test/unit/jobs/test_job_wrapper.py
A test/unit/test_compression_util.py
M test/unit/test_galaxy_mapping.py
M test/unit/test_remote_shell.py
A test/unit/test_utils.py
M test/unit/tools/test_actions.py
M test/unit/tools/test_collect_primary_datasets.py
M test/unit/tools/test_data_parameters.py
M test/unit/tools/test_evaluation.py
M test/unit/tools/test_toolbox.py
M test/unit/tools/test_toolbox_filters.py
M test/unit/workflows/test_extract_summary.py
M test/unit/workflows/test_modules.py
M test/unit/workflows/test_workflow_progress.py
M tools/filters/bed_to_bigbed.xml
M tools/filters/join.py
M tools/filters/joinWrapper.py
M tools/filters/secure_hash_message_digest.py
M tools/filters/sff_extract.py
M tools/filters/sff_extractor.xml
M tools/filters/tailWrapper.xml
M tools/filters/uniq.xml
M tools/filters/wc_gnu.xml
M tools/filters/wig_to_bigwig.xml
M tools/genomespace/genomespace_importer.py
M tools/maf/maf_limit_to_species.py
M tools/maf/maf_split_by_species.xml
M tools/maf/maf_to_bed.py
M tools/maf/maf_to_bed.xml
M tools/maf/maf_to_fasta_multiple_sets.py
M tools/maf/maf_to_interval.py
M tools/maf/maf_to_interval.xml
M tools/next_gen_conversion/solid2fastq.xml
M tools/phenotype_association/ldtools.xml
M tools/phenotype_association/ldtools_wrapper.sh
M tools/phenotype_association/linkToGProfile.pl
M tools/phenotype_association/linkToGProfile.xml
M tools/phenotype_association/senatag.py
M tools/plotting/boxplot.xml
M tools/solid_tools/solid_qual_stats.py
M tools/solid_tools/solid_qual_stats.xml
M tools/stats/aggregate_binned_scores_in_intervals.xml
M tools/stats/aggregate_scores_in_intervals.py
M tools/stats/grouping.py
M tools/stats/gsummary.xml
M tox.ini
Log Message:
-----------
Merge remote-tracking branch 'upstream/dev' into webpack_4_minimal_flat
Commit: 0108a2e6932d631e030b33363ea7564207edc90d
https://github.com/galaxyproject/galaxy/commit/0108a2e6932d631e030b33363e...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-15 (Mon, 15 Oct 2018)
Changed paths:
A client/galaxy/images/circle.py
A client/galaxy/images/error_icon.svg
A client/galaxy/images/galaxy_icons.svg
A client/galaxy/images/galaxy_spinner.fla
A client/galaxy/images/info_icon.svg
A client/galaxy/images/ok_icon.svg
A client/galaxy/images/wait_icon.svg
A client/galaxy/images/warn_icon.svg
M client/galaxy/style/scss/base.scss
R client/galaxy/style/source_material/circle.py
R client/galaxy/style/source_material/error_icon.svg
R client/galaxy/style/source_material/galaxy_icons.svg
R client/galaxy/style/source_material/galaxy_spinner.fla
R client/galaxy/style/source_material/info_icon.svg
R client/galaxy/style/source_material/ok_icon.svg
R client/galaxy/style/source_material/wait_icon.svg
R client/galaxy/style/source_material/warn_icon.svg
Log Message:
-----------
Relocate various source materials.
Commit: b13caf14d5529fd44c0debd1da349f7fc8f554c8
https://github.com/galaxyproject/galaxy/commit/b13caf14d5529fd44c0debd1da...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-16 (Tue, 16 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Swap to karma-webpack@next (for 4.0 compat -- it actually works!)
Commit: e09b43af0191df4574989c19ec135c51c2934ee3
https://github.com/galaxyproject/galaxy/commit/e09b43af0191df4574989c19ec...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/package.json
M client/webpack.config.js
M client/yarn.lock
M templates/js-app.mako
Log Message:
-----------
Added OptimizeCssAssetsPlugin fix for sourcemaps + minicss plugin
Commit: 443683b80187bf202912e328621573747795316c
https://github.com/galaxyproject/galaxy/commit/443683b80187bf202912e32862...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/gulpfile.js
M client/package.json
M client/yarn.lock
Log Message:
-----------
Drop a ton of unused gulp cruft.
Commit: 8ab6dee071756fb13fd841afa23f4aa4e8a643b2
https://github.com/galaxyproject/galaxy/commit/8ab6dee071756fb13fd841afa2...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Still uglify for shipped libs.
Commit: c18e99505f5038b633670eca66a16565ac981232
https://github.com/galaxyproject/galaxy/commit/c18e99505f5038b633670eca66...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/webpack.config.js
R static/style/base.css
M templates/js-app.mako
Log Message:
-----------
exported styles to single file instead of one per entrypoint
Commit: ea12d73df12a4a26a423e0c987d27c6ed96e9765
https://github.com/galaxyproject/galaxy/commit/ea12d73df12a4a26a423e0c987...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/package.json
M client/webpack.config.js
M client/yarn.lock
R static/style/base.css
M templates/js-app.mako
Log Message:
-----------
Merge remote-tracking branch 'Nerdinacan/webpack_4_mapfix' into
unified_webpack4
Commit: ee4908bf57efe03cb85f2ffb846cb05357adc4c5
https://github.com/galaxyproject/galaxy/commit/ee4908bf57efe03cb85f2ffb84...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
A static/style/base.css
R static/style/blue/base.css
Log Message:
-----------
Drop style artifact, recreate link to output bundle for backwards
compat.
Commit: e273a549db844c3e27645c6dc568cd5f49f389af
https://github.com/galaxyproject/galaxy/commit/e273a549db844c3e27645c6dc5...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Webpack -> .21
Commit: 658dce066b91ad03379f27f7311bf4e74631be87
https://github.com/galaxyproject/galaxy/commit/658dce066b91ad03379f27f731...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/galaxy/scripts/qunit/assets/base.css
Log Message:
-----------
Fix link to base.css
Commit: 6c77d715a82bf6b1d461ec0f67744fe76d593cbc
https://github.com/galaxyproject/galaxy/commit/6c77d715a82bf6b1d461ec0f67...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M templates/base.mako
Log Message:
-----------
Fix goofed bundle inclusion refactoring
Commit: f98c79ea9568ae7ff4fc1c18b2b598180e5c0285
https://github.com/galaxyproject/galaxy/commit/f98c79ea9568ae7ff4fc1c18b2...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M templates/base.mako
Log Message:
-----------
include base.css in base mako
Commit: 1b4aa3e47e676ea5d10df74d09f954aad9a22c51
https://github.com/galaxyproject/galaxy/commit/1b4aa3e47e676ea5d10df74d09...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/galaxy/style/scss/base.scss
M templates/js-app.mako
Log Message:
-----------
Fix style inclusion for js-app, after poking at merging jquery styles (todo for the
future, not worth dealing with now).
Commit: 21898296a676f39502fb13f2b425a49d978a4c86
https://github.com/galaxyproject/galaxy/commit/21898296a676f39502fb13f2b4...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
A client/galaxy/style/jquery.rating.css
R client/galaxy/style/scss/jquery.rating.css
A static/style/blue/jquery.rating.css
Log Message:
-----------
Fix jquery.rating.css (until it's bundled)
Commit: 55bd9ede5b7b08597725f8f630867f09acca7f7d
https://github.com/galaxyproject/galaxy/commit/55bd9ede5b7b08597725f8f630...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/karma.config.js
M client/webpack.config.js
Log Message:
-----------
Fix js unit tests to work with bundled css (TODO: Make this more robust,
this is very brittle right now and will potentially break the tests
(obviously) when anyone reorders plugins, for example)
Commit: f1ed67cf3f8325f3f22eb0624d7b9403524a9eaf
https://github.com/galaxyproject/galaxy/commit/f1ed67cf3f8325f3f22eb0624d...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/karma.config.js
Log Message:
-----------
Cleanup, document TODO for loader replacement
Commit: 84ae932e8b7fbb0086dc12a7c44945f37f9e05ed
https://github.com/galaxyproject/galaxy/commit/84ae932e8b7fbb0086dc12a7c4...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
A static/style/blue/base.css
M test/base/driver_util.py
Log Message:
-----------
Add back extra link to base.css for selenium testing (and assumedly other deployments
which have custom mappings?). We need to drop all these extra handles eventually, to
consolidate the interface to single endpoints with chunked bundles.
Commit: 6775befc6a67a85ff02be4eebdb12a11db2a30ed
https://github.com/galaxyproject/galaxy/commit/6775befc6a67a85ff02be4eebd...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/extended.js
Log Message:
-----------
Fix import/export in extended bundle
Commit: 99bb15c1215011dc2d44170e4db2f4f75d74bcbf
https://github.com/galaxyproject/galaxy/commit/99bb15c1215011dc2d44170e4d...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M templates/base/base_panels.mako
Log Message:
-----------
Continue importing base.css in base_panels.mako
Commit: 03b44a84a66e07d720a34764c21241067faec199
https://github.com/galaxyproject/galaxy/commit/03b44a84a66e07d720a34764c2...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M client/README.md
A client/galaxy/docs/README.md
M client/galaxy/docs/bootstrap.md
M client/galaxy/docs/galaxy-buttons.md
M client/galaxy/docs/galaxy-forms.md
M client/galaxy/docs/galaxy-masthead.md
M client/galaxy/docs/galaxy-menus.md
M client/galaxy/docs/galaxy-messages.md
M client/galaxy/docs/galaxy-panels.md
M client/galaxy/docs/galaxy-tables.md
M client/galaxy/docs/galaxy-tabs.md
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
M client/galaxy/scripts/mvc/ui/ui-slider.js
M client/galaxy/scripts/ui/editable-text.js
M client/galaxy/style/scss/jstree.scss
M client/galaxy/style/scss/ui.scss
M lib/galaxy/datatypes/binary.py
M lib/galaxy/datatypes/upload_util.py
M lib/galaxy/managers/cloud.py
M lib/galaxy/web/base/controller.py
M lib/galaxy/webapps/galaxy/api/cloudauthz.py
M lib/galaxy/webapps/galaxy/buildapp.py
M lib/galaxy/webapps/galaxy/controllers/history.py
M lib/tool_shed/util/hg_util.py
A static/style/blue/info_icon.svg
M templates/admin/jobs.mako
M templates/admin/review_tool_migration_stages.mako
M templates/admin/tool_shed_repository/browse_repository.mako
M templates/admin/tool_shed_repository/browse_tool_dependency.mako
M templates/admin/tool_shed_repository/deactivate_or_uninstall_repository.mako
M templates/admin/tool_shed_repository/install_tool_dependencies_with_update.mako
M templates/admin/tool_shed_repository/manage_repository.mako
M templates/admin/tool_shed_repository/manage_repository_tool_dependencies.mako
M templates/admin/tool_shed_repository/monitor_repository_installation.mako
M templates/admin/tool_shed_repository/purge_repository_confirmation.mako
M templates/admin/tool_shed_repository/reselect_tool_panel_section.mako
M templates/admin/tool_shed_repository/reset_metadata_on_selected_repositories.mako
M templates/admin/tool_shed_repository/select_tool_panel_section.mako
M templates/admin/tool_shed_repository/uninstall_tool_dependencies.mako
M templates/admin/tool_shed_repository/view_tool_metadata.mako
M templates/admin/tool_shed_repository/view_workflow.mako
M templates/message.mako
M templates/user/info.mako
M templates/user/register.mako
M templates/webapps/galaxy/admin/manage_dependencies.mako
M templates/webapps/galaxy/admin/sanitize_whitelist.mako
M templates/webapps/galaxy/admin/view_display_applications.mako
M templates/webapps/galaxy/history/share.mako
M test/galaxy_selenium/navigation.yml
Log Message:
-----------
Merge remote-tracking branch 'upstream/dev' into unified_webpack4
Commit: 581e734dfcb9662a6c4c2f0d9288fad2a0707e54
https://github.com/galaxyproject/galaxy/commit/581e734dfcb9662a6c4c2f0d92...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M config/plugins/webhooks/demo/tour_generator/config.yml
A config/plugins/webhooks/demo/tour_generator/package.json
R config/plugins/webhooks/demo/tour_generator/script.js
A config/plugins/webhooks/demo/tour_generator/tour_generator.js
Log Message:
-----------
Incremental packaging of tour_builder
Commit: 571d783517654302a5823487021848166e3a3e10
https://github.com/galaxyproject/galaxy/commit/571d783517654302a582348702...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
M config/plugins/webhooks/demo/tour_generator/package.json
A config/plugins/webhooks/demo/tour_generator/script.js
M config/plugins/webhooks/demo/tour_generator/tour_generator.js
Log Message:
-----------
Package up tool tour generator as a single artifact that doesn't reach into Galaxy
code other than the Galaxy global that's required.
Commit: 65bfe605d0995a5ac177a65ad64e80a597e53e3a
https://github.com/galaxyproject/galaxy/commit/65bfe605d0995a5ac177a65ad6...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M .gitignore
A client/package-lock.json
M client/package.json
M client/webpack.config.js
M client/yarn.lock
M templates/base.mako
M templates/base/base_panels.mako
M templates/js-app.mako
M templates/webapps/galaxy/galaxy.panels.mako
Log Message:
-----------
Single css output from webpack
Commit: de4030fcceebd55a77de3d33a7bc21fb09697895
https://github.com/galaxyproject/galaxy/commit/de4030fcceebd55a77de3d33a7...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M templates/base/base_panels.mako
Log Message:
-----------
Fix requirebundled being chunked together.
Commit: 91d13a5a0cc87df1a01c72dca7e835f609e2dabe
https://github.com/galaxyproject/galaxy/commit/91d13a5a0cc87df1a01c72dca7...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M templates/base/base_panels.mako
Log Message:
-----------
We also need base.chunk here.
Commit: 273bf080b53e2b8cf8acfaa17ab0bcd1bbb82de0
https://github.com/galaxyproject/galaxy/commit/273bf080b53e2b8cf8acfaa17a...
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-10-18 (Thu, 18 Oct 2018)
Changed paths:
M client/webpack.config.js
Log Message:
-----------
added in missing priority stats on webpack.config
Commit: 09e1bfb98d4b6f88d00e665daf8a63d40224d290
https://github.com/galaxyproject/galaxy/commit/09e1bfb98d4b6f88d00e665daf...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-19 (Fri, 19 Oct 2018)
Changed paths:
R client/package-lock.json
M client/yarn.lock
Log Message:
-----------
Drop package-lock.json; regenerate yarn.lock
Commit: dac9d14311ec27b40432a64b35e68cab892078d6
https://github.com/galaxyproject/galaxy/commit/dac9d14311ec27b40432a64b35...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-22 (Mon, 22 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Minor webpack upgrade.
Commit: 7244fb5153b39ba285ac3bf5a4128e2705c1279a
https://github.com/galaxyproject/galaxy/commit/7244fb5153b39ba285ac3bf5a4...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-23 (Tue, 23 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
Log Message:
-----------
Swap back to bundled jquery-ui, sort this out later (or purge it with fire)
Commit: 9d94c0da95c833c49c21537336b62371420eb671
https://github.com/galaxyproject/galaxy/commit/9d94c0da95c833c49c21537336...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
A client/galaxy/images/light_gray_grid.gif
M client/galaxy/style/scss/base.scss
R static/images/light_gray_grid.gif
M templates/webapps/galaxy/workflow/editor.mako
Log Message:
-----------
Stage workflow editor images via webpacked styles (todo is relevant in here, it should
be refactored, but I'm taking minimal steps here to get things working correctly)
Commit: 1970d2d29c07aa50ef3713307eccd02861d44810
https://github.com/galaxyproject/galaxy/commit/1970d2d29c07aa50ef3713307e...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M client/galaxy/scripts/onload.js
Log Message:
-----------
Add jquery drop plugin to onload, seems to have been lost along the way.
Commit: 129153a542ea6e4438ddbc1e7137e4c4e60759d8
https://github.com/galaxyproject/galaxy/commit/129153a542ea6e4438ddbc1e71...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M client/package.json
M client/yarn.lock
Log Message:
-----------
Fix problem with rxjs dep listing in yarn.lock, bump webpack (minor)
Commit: 743d3b32f2426b39640d19c6dcd550727a549287
https://github.com/galaxyproject/galaxy/commit/743d3b32f2426b39640d19c6dc...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
A client/galaxy/images/delete.gif
A client/galaxy/images/star.gif
R client/galaxy/style/jquery.rating.css
M client/galaxy/style/scss/base.scss
A client/galaxy/style/scss/jquery.rating.scss
R static/images/delete.gif
R static/images/star.gif
Log Message:
-----------
fix rating styles -- this isn't great, but the loaders just work better this way,
calling it scss and customizing it slightly.
Commit: 6a2999e109d79420d261e165e366d16bcbfdf685
https://github.com/galaxyproject/galaxy/commit/6a2999e109d79420d261e165e3...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/polyfills.js
M client/galaxy/style/scss/select2.scss
M client/galaxy/style/scss/sprite-fugue.scss
M client/galaxy/style/scss/sprite-history-buttons.scss
M client/galaxy/style/scss/sprite-history-states.scss
Log Message:
-----------
Client format.
Commit: 0c8344ee4fda3a54606bb84a23b2e1d24bfcd54e
https://github.com/galaxyproject/galaxy/commit/0c8344ee4fda3a54606bb84a23...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-25 (Thu, 25 Oct 2018)
Changed paths:
A client/galaxy/images/fugue/application-dock-270-bw.png
A client/galaxy/images/fugue/application-dock-270.png
A client/galaxy/images/fugue/arrow-000-small-bw.png
A client/galaxy/images/fugue/arrow-090.png
A client/galaxy/images/fugue/arrow-circle.png
A client/galaxy/images/fugue/arrow-resize-090-bw.png
A client/galaxy/images/fugue/arrow-resize-090.png
A client/galaxy/images/fugue/arrow-split-bw.png
A client/galaxy/images/fugue/arrow-split.png
A client/galaxy/images/fugue/arrow-transition-270-bw.png
A client/galaxy/images/fugue/arrow-transition-bw.png
A client/galaxy/images/fugue/asterisk-small-outline.png
A client/galaxy/images/fugue/asterisk-small-yellow.png
A client/galaxy/images/fugue/asterisk-small.png
A client/galaxy/images/fugue/block--plus-bw.png
A client/galaxy/images/fugue/block--plus.png
A client/galaxy/images/fugue/bookmarks-bw.png
A client/galaxy/images/fugue/bookmarks.png
A client/galaxy/images/fugue/bug.png
A client/galaxy/images/fugue/chart.png
A client/galaxy/images/fugue/chevron-expand-bw.png
A client/galaxy/images/fugue/chevron-expand.png
A client/galaxy/images/fugue/chevron.png
A client/galaxy/images/fugue/control-270.png
A client/galaxy/images/fugue/cross-button.png
A client/galaxy/images/fugue/cross-circle-bw.png
A client/galaxy/images/fugue/cross-circle.png
A client/galaxy/images/fugue/cross-small-bw.png
A client/galaxy/images/fugue/cross.png
A client/galaxy/images/fugue/disk--arrow-bw.png
A client/galaxy/images/fugue/disk--arrow.png
A client/galaxy/images/fugue/disk.png
A client/galaxy/images/fugue/exclamation.png
A client/galaxy/images/fugue/external.png
A client/galaxy/images/fugue/eye.png
A client/galaxy/images/fugue/gear-bw.png
A client/galaxy/images/fugue/gear.png
A client/galaxy/images/fugue/globe-bw.png
A client/galaxy/images/fugue/globe.png
A client/galaxy/images/fugue/hammer-bw.png
A client/galaxy/images/fugue/hammer.png
A client/galaxy/images/fugue/information-white.png
A client/galaxy/images/fugue/layer-transparent-bw.png
A client/galaxy/images/fugue/layer-transparent.png
A client/galaxy/images/fugue/layers-stack-bw.png
A client/galaxy/images/fugue/layers-stack.png
A client/galaxy/images/fugue/magnifier-left.png
A client/galaxy/images/fugue/magnifier-zoom-out.png
A client/galaxy/images/fugue/magnifier-zoom.png
A client/galaxy/images/fugue/navigation.png
A client/galaxy/images/fugue/pencil-small.png
A client/galaxy/images/fugue/pencil.png
A client/galaxy/images/fugue/plus-button-bw.png
A client/galaxy/images/fugue/plus-button.png
A client/galaxy/images/fugue/plus-circle.png
A client/galaxy/images/fugue/sticky-note-text.png
A client/galaxy/images/fugue/tag--plus.png
A client/galaxy/images/fugue/tag-label.png
A client/galaxy/images/fugue/tags.png
A client/galaxy/images/fugue/toggle-bw.png
A client/galaxy/images/fugue/toggle-expand-bw.png
A client/galaxy/images/fugue/toggle-expand.png
A client/galaxy/images/fugue/toggle.png
A client/galaxy/images/fugue/toolbox-bw.png
A client/galaxy/images/fugue/toolbox.png
A client/galaxy/images/fugue/ui-slider-050-bw.png
A client/galaxy/images/fugue/ui-slider-050.png
A client/galaxy/images/tipsy.gif
A client/galaxy/images/tracks/block.png
A client/galaxy/images/tracks/close_btn.gif
A client/galaxy/images/tracks/diag_bg.gif
A client/galaxy/images/tracks/go_btn.gif
A client/galaxy/images/tracks/handle-left.gif
A client/galaxy/images/tracks/handle-right.gif
A client/galaxy/images/tracks/pan_left.gif
A client/galaxy/images/tracks/pan_right.gif
A client/galaxy/images/tracks/show_history.gif
A client/galaxy/images/tracks/zoom_in.gif
A client/galaxy/images/tracks/zoom_in_full.gif
A client/galaxy/images/tracks/zoom_out.gif
A client/galaxy/images/tracks/zoom_out_full.gif
M client/galaxy/scripts/viz/trackster.js
M client/galaxy/style/scss/autocomplete_tagging.scss
M client/galaxy/style/scss/base.scss
A static/images/fugue
R static/images/fugue/application-dock-270-bw.png
R static/images/fugue/application-dock-270.png
R static/images/fugue/arrow-000-small-bw.png
R static/images/fugue/arrow-090.png
R static/images/fugue/arrow-circle.png
R static/images/fugue/arrow-resize-090-bw.png
R static/images/fugue/arrow-resize-090.png
R static/images/fugue/arrow-split-bw.png
R static/images/fugue/arrow-split.png
R static/images/fugue/arrow-transition-270-bw.png
R static/images/fugue/arrow-transition-bw.png
R static/images/fugue/asterisk-small-outline.png
R static/images/fugue/asterisk-small-yellow.png
R static/images/fugue/asterisk-small.png
R static/images/fugue/block--plus-bw.png
R static/images/fugue/block--plus.png
R static/images/fugue/bookmarks-bw.png
R static/images/fugue/bookmarks.png
R static/images/fugue/bug.png
R static/images/fugue/chart.png
R static/images/fugue/chevron-expand-bw.png
R static/images/fugue/chevron-expand.png
R static/images/fugue/chevron.png
R static/images/fugue/control-270.png
R static/images/fugue/cross-button.png
R static/images/fugue/cross-circle-bw.png
R static/images/fugue/cross-circle.png
R static/images/fugue/cross-small-bw.png
R static/images/fugue/cross.png
R static/images/fugue/disk--arrow-bw.png
R static/images/fugue/disk--arrow.png
R static/images/fugue/disk.png
R static/images/fugue/exclamation.png
R static/images/fugue/external.png
R static/images/fugue/eye.png
R static/images/fugue/gear-bw.png
R static/images/fugue/gear.png
R static/images/fugue/globe-bw.png
R static/images/fugue/globe.png
R static/images/fugue/hammer-bw.png
R static/images/fugue/hammer.png
R static/images/fugue/information-white.png
R static/images/fugue/layer-transparent-bw.png
R static/images/fugue/layer-transparent.png
R static/images/fugue/layers-stack-bw.png
R static/images/fugue/layers-stack.png
R static/images/fugue/magnifier-left.png
R static/images/fugue/magnifier-zoom-out.png
R static/images/fugue/magnifier-zoom.png
R static/images/fugue/navigation.png
R static/images/fugue/pencil-small.png
R static/images/fugue/pencil.png
R static/images/fugue/plus-button-bw.png
R static/images/fugue/plus-button.png
R static/images/fugue/plus-circle.png
R static/images/fugue/sticky-note-text.png
R static/images/fugue/tag--plus.png
R static/images/fugue/tag-label.png
R static/images/fugue/tags.png
R static/images/fugue/toggle-bw.png
R static/images/fugue/toggle-expand-bw.png
R static/images/fugue/toggle-expand.png
R static/images/fugue/toggle.png
R static/images/fugue/toolbox-bw.png
R static/images/fugue/toolbox.png
R static/images/fugue/ui-slider-050-bw.png
R static/images/fugue/ui-slider-050.png
R static/images/tipsy.gif
A static/images/tracks
R static/images/tracks/block.png
R static/images/tracks/close_btn.gif
R static/images/tracks/diag_bg.gif
R static/images/tracks/go_btn.gif
R static/images/tracks/handle-left.gif
R static/images/tracks/handle-right.gif
R static/images/tracks/pan_left.gif
R static/images/tracks/pan_right.gif
R static/images/tracks/show_history.gif
R static/images/tracks/zoom_in.gif
R static/images/tracks/zoom_in_full.gif
R static/images/tracks/zoom_out.gif
R static/images/tracks/zoom_out_full.gif
Log Message:
-----------
Stage trackster (and potentially other fugue-consumers, which we should be getting rid
of) via webpack.
Commit: b27b3fe2af116301e96247576814728d525b275e
https://github.com/galaxyproject/galaxy/commit/b27b3fe2af116301e962475768...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
A lib/galaxy/datatypes/test/test.cel
A lib/galaxy/datatypes/test/test.idpdb
Log Message:
-----------
Move test files for upstream merge (case sensitivity in git)
Commit: 46f24df8e1b67dcc92d71c6849c922e57f8ffcdd
https://github.com/galaxyproject/galaxy/commit/46f24df8e1b67dcc92d71c6849...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
A static/images/visualization
Log Message:
-----------
For simplicity, just symlink viz images for now
Commit: 51273658fb5420c9e6748ed2b08e6769e33158eb
https://github.com/galaxyproject/galaxy/commit/51273658fb5420c9e6748ed2b0...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M .ci/jenkins/selenium-py3/run_tests.sh
M Makefile
M client/galaxy/scripts/mvc/ui/ui-slider.js
M client/galaxy/style/scss/base.scss
M client/galaxy/style/scss/collection.scss
M client/galaxy/style/scss/list-item.scss
M config/datatypes_conf.xml.sample
M config/galaxy.yml.sample
M config/plugins/visualizations/scatterplot/package.json
M config/plugins/visualizations/scatterplot/src/scatterplot.js
M config/plugins/visualizations/scatterplot/static/scatterplot.css
M config/plugins/visualizations/scatterplot/static/scatterplot.js
M config/plugins/visualizations/scatterplot/templates/scatterplot.mako
M doc/source/admin/galaxy_options.rst
M doc/source/admin/scaling.md
M doc/source/admin/special_topics/bug_reports.rst
M doc/source/releases/18.09.rst
M doc/source/releases/18.09_announce.rst
M doc/source/releases/index.rst
M lib/galaxy/authnz/managers.py
M lib/galaxy/config.py
M lib/galaxy/containers/docker.py
M lib/galaxy/containers/docker_model.py
M lib/galaxy/containers/docker_swarm.py
M lib/galaxy/datatypes/assembly.py
M lib/galaxy/datatypes/binary.py
M lib/galaxy/datatypes/blast.py
M lib/galaxy/datatypes/data.py
M lib/galaxy/datatypes/genetics.py
M lib/galaxy/datatypes/interval.py
A lib/galaxy/datatypes/isa.py
M lib/galaxy/datatypes/molecules.py
M lib/galaxy/datatypes/mothur.py
M lib/galaxy/datatypes/phylip.py
M lib/galaxy/datatypes/proteomics.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
M lib/galaxy/datatypes/test/1.afg
M lib/galaxy/datatypes/test/1.bcf_uncompressed
A lib/galaxy/datatypes/test/1.excel.xls
M lib/galaxy/datatypes/test/1.fastq
A lib/galaxy/datatypes/test/1.fastqcssanger
M lib/galaxy/datatypes/test/1.fastqsanger
M lib/galaxy/datatypes/test/1.fastqsolexa
M lib/galaxy/datatypes/test/1.owl
M lib/galaxy/datatypes/test/1.stockholm
R lib/galaxy/datatypes/test/1.vcf.gz
A lib/galaxy/datatypes/test/1.vcf_bgzip
R lib/galaxy/datatypes/test/1.xls
M lib/galaxy/datatypes/test/2.fastq
R lib/galaxy/datatypes/test/2.fastqsanger
M lib/galaxy/datatypes/test/2.fastqsolexa
R lib/galaxy/datatypes/test/2.shuffled.bam
A lib/galaxy/datatypes/test/2.shuffled.unsorted.bam
M lib/galaxy/datatypes/test/2.txt
A lib/galaxy/datatypes/test/3.fastq
M lib/galaxy/datatypes/test/3.txt
M lib/galaxy/datatypes/test/454Score.pdf
A lib/galaxy/datatypes/test/5e5z.pqr
R lib/galaxy/datatypes/test/Acanium.hmm
A lib/galaxy/datatypes/test/Acanium.snaphmm
M lib/galaxy/datatypes/test/alignment.lav
R lib/galaxy/datatypes/test/biom2_sparse_otu_table_hdf5.biom
A lib/galaxy/datatypes/test/biom2_sparse_otu_table_hdf5.biom2
A lib/galaxy/datatypes/test/gff.gff3
R lib/galaxy/datatypes/test/gff_version_3.gff
A lib/galaxy/datatypes/test/interv1.bed
R lib/galaxy/datatypes/test/interval1.bed
M lib/galaxy/datatypes/test/mothur_datatypetest_true.mothur.filter
R lib/galaxy/datatypes/test/sequence.qual
M lib/galaxy/datatypes/test/sequence.qual454
M lib/galaxy/datatypes/test/sequence.qualsolid
A lib/galaxy/datatypes/test/tblastn_four_human_vs_rhodopsin.blastxml
R lib/galaxy/datatypes/test/tblastn_four_human_vs_rhodopsin.xml
R lib/galaxy/datatypes/test/test.CEL
R lib/galaxy/datatypes/test/test.idpDB
R lib/galaxy/datatypes/test/test_ensembl.tab
A lib/galaxy/datatypes/test/test_ensembl.tabular
M lib/galaxy/datatypes/test/test_tab.bed
M lib/galaxy/datatypes/test/ucsc.customtrack
M lib/galaxy/datatypes/test/wiggle.wig
M lib/galaxy/datatypes/text.py
M lib/galaxy/datatypes/upload_util.py
M lib/galaxy/datatypes/util/gff_util.py
M lib/galaxy/datatypes/xml.py
M lib/galaxy/dependencies/pipfiles/default/Pipfile
M lib/galaxy/dependencies/pipfiles/default/pinned-dev-requirements.txt
M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
M lib/galaxy/dependencies/pipfiles/flake8/pinned-requirements.txt
M lib/galaxy/dependencies/pipfiles/update.sh
M lib/galaxy/jobs/dynamic_tool_destination.py
M lib/galaxy/jobs/handler.py
M lib/galaxy/jobs/metrics/instrumenters/env.py
M lib/galaxy/jobs/runners/__init__.py
M lib/galaxy/jobs/runners/drmaa.py
M lib/galaxy/jobs/runners/kubernetes.py
M lib/galaxy/jobs/runners/util/cli/job/slurm_torque.py
M lib/galaxy/managers/cloud.py
M lib/galaxy/managers/collections.py
M lib/galaxy/managers/rbac_secured.py
M lib/galaxy/managers/sharable.py
M lib/galaxy/managers/tags.py
M lib/galaxy/managers/workflows.py
M lib/galaxy/model/custom_types.py
M lib/galaxy/model/migrate/versions/0141_add_oidc_tables.py
M lib/galaxy/model/migrate/versions/0142_change_numeric_metric_precision.py
M lib/galaxy/model/migrate/versions/0143_add_cloudauthz_tables.py
A lib/galaxy/model/migrate/versions/0144_add_cleanup_event_user_table.py
M lib/galaxy/model/search.py
M lib/galaxy/objectstore/cloud.py
M lib/galaxy/security/validate_user_input.py
M lib/galaxy/tools/__init__.py
M lib/galaxy/tools/data/__init__.py
M lib/galaxy/tools/deps/brew_exts.py
M lib/galaxy/tools/deps/containers.py
M lib/galaxy/tools/deps/views.py
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/github.py
M lib/galaxy/tools/error_reports/plugins/influxdb.py
M lib/galaxy/tools/error_reports/plugins/json.py
M lib/galaxy/tools/error_reports/plugins/sentry.py
M lib/galaxy/tools/parameters/basic.py
M lib/galaxy/tools/parameters/dynamic_options.py
M lib/galaxy/tools/parser/xml.py
M lib/galaxy/tools/verify/asserts/__init__.py
M lib/galaxy/tools/verify/interactor.py
M lib/galaxy/tools/verify/test_data.py
M lib/galaxy/util/__init__.py
M lib/galaxy/util/checkers.py
M lib/galaxy/util/inflection.py
M lib/galaxy/util/json.py
M lib/galaxy/util/pastescript/serve.py
M lib/galaxy/visualization/data_providers/genome.py
M lib/galaxy/visualization/data_providers/phyloviz/newickparser.py
M lib/galaxy/web/base/controller.py
M lib/galaxy/web/framework/middleware/batch.py
M lib/galaxy/webapps/galaxy/api/cloudauthz.py
M lib/galaxy/webapps/galaxy/api/uploads.py
M lib/galaxy/webapps/galaxy/api/users.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M lib/galaxy/webapps/galaxy/config_schema.yml
M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py
M lib/galaxy/webapps/galaxy/controllers/dataset.py
M lib/galaxy/webapps/galaxy/controllers/forms.py
M lib/galaxy/webapps/galaxy/controllers/page.py
M lib/galaxy/webapps/tool_shed/api/tools.py
M lib/galaxy/webapps/tool_shed/controllers/repository.py
M lib/galaxy/webapps/tool_shed/controllers/upload.py
M lib/tool_shed/capsule/capsule_manager.py
M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py
M lib/tool_shed/galaxy_install/tools/data_manager.py
M lib/tool_shed/galaxy_install/tools/tool_panel_manager.py
M lib/tool_shed/metadata/metadata_generator.py
M lib/tool_shed/tools/tool_validator.py
M lib/tool_shed/util/commit_util.py
M lib/tool_shed/util/readme_util.py
M lib/tool_shed/util/repository_util.py
M lib/tool_shed/util/workflow_util.py
M lib/tool_shed/util/xml_util.py
M run.sh
M scripts/bootstrap_history.py
M scripts/check_python.py
M scripts/cleanup_datasets/pgcleanup.py
M scripts/runtime_stats.py
M scripts/summarize_timings.py
M scripts/tool_shed/api/reset_metadata_on_repositories.py
M scripts/tool_shed/bootstrap_tool_shed/create_user_with_api_key.py
M scripts/transfer.py
M setup.cfg
M static/style/blue/base.css
M static/welcome.html.sample
M templates/display_base.mako
M templates/ind_share_base.mako
M templates/message.mako
M templates/webapps/galaxy/history/display.mako
M templates/webapps/galaxy/visualization/display.mako
M templates/webapps/galaxy/visualization/display_in_frame.mako
M templates/webapps/galaxy/workflow/display.mako
M templates/webapps/galaxy/workflow/sharing.mako
M templates/webapps/tool_shed/repository/common.mako
A test-data/MTBLS6.zip
M test/api/test_tools_upload.py
M test/api/test_workflows.py
M test/api/test_workflows_from_yaml.py
M test/base/driver_util.py
M test/base/populators.py
M test/base/workflow_fixtures.py
M test/functional/tools/output_filter.xml
A test/functional/tools/remove_value.xml
M test/functional/tools/samples_tool_conf.xml
M test/functional/webhooks/phdcomics/__init__.py
A test/integration/test_datatype_upload.py
M test/selenium_tests/test_uploads.py
M test/shed_functional/base/twilltestcase.py
M test/unit/datatypes/test_bam.py
M test/unit/datatypes/test_vcf.py
M test/unit/jobs/dynamic_tool_destination/test_dynamic_tool_destination.py
M test/unit/web/framework/test_webapp.py
M tools/data_source/upload.py
M tools/extract/extract_genomic_dna.py
M tools/filters/convert_characters.py
M tools/filters/grep.py
M tools/filters/uniq.py
M tools/stats/filtering.py
M tools/stats/gsummary.py
Log Message:
-----------
Merge remote-tracking branch 'upstream/dev' into unified_webpack4
Commit: 7dbc81ca825adbae503d076c88a838336790067f
https://github.com/galaxyproject/galaxy/commit/7dbc81ca825adbae503d076c88...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M scripts/get_uwsgi_args.py
Log Message:
-----------
Add images to default static-safe location
Commit: dbdce6d37b075720d9d936921ae72edd66211bc1
https://github.com/galaxyproject/galaxy/commit/dbdce6d37b075720d9d936921a...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M .gitignore
A static/images/delete_tag_icon_gray.png
A static/style/blue/ok_small.png
Log Message:
-----------
Stage two more images after inclusion in scripts. We'll inevitably find more of
these, and they should all be removed, but this gives us a way to transition as things are
rewritten.
Commit: 4d5285b65921e8a25689d7813872619dbd6e9b23
https://github.com/galaxyproject/galaxy/commit/4d5285b65921e8a25689d78138...
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
A static/style/blue/question-octagon-frame.png
Log Message:
-----------
Another image link for admin_toolshed stuff.
Commit: 31905f1402d9ba8af82d0ae723eaccc20d1d621c
https://github.com/galaxyproject/galaxy/commit/31905f1402d9ba8af82d0ae723...
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-10-31 (Wed, 31 Oct 2018)
Changed paths:
M .gitignore
M client/.babelrc
R client/GruntFile.js
A client/galaxy/images/Armitagep_manhattan.png
A client/galaxy/images/Armitagep_qqplot.png
A client/galaxy/images/add_icon.png
A client/galaxy/images/add_icon_dark.png
A client/galaxy/images/aggregate_history1.png
A client/galaxy/images/aggregate_history2.png
A client/galaxy/images/bar_chart.png
A client/galaxy/images/base_bg.png
A client/galaxy/images/bed_warn.png
A client/galaxy/images/button_bar_bg_light.png
A client/galaxy/images/circle.py
A client/galaxy/images/closebox.png
A client/galaxy/images/dat_points_table_brows_1.png
A client/galaxy/images/data_empty.png
A client/galaxy/images/data_error.png
A client/galaxy/images/data_ok.png
A client/galaxy/images/data_queued.png
A client/galaxy/images/data_running.gif
A client/galaxy/images/ddarrowsplit.png
A client/galaxy/images/delete.gif
A client/galaxy/images/delete_tag_icon_gray.png
A client/galaxy/images/delete_tag_icon_white.png
A client/galaxy/images/documents-stack-faded.png
A client/galaxy/images/documents-stack.png
A client/galaxy/images/done_message_icon.png
A client/galaxy/images/dropdownarrow.png
A client/galaxy/images/error_bg.png
A client/galaxy/images/error_icon.svg
A client/galaxy/images/error_large.png
A client/galaxy/images/error_message_icon.png
A client/galaxy/images/error_small.png
A client/galaxy/images/fetchTax.png
A client/galaxy/images/footer_title_bg.png
A client/galaxy/images/form_body_bg.png
A client/galaxy/images/form_title_bg.png
A client/galaxy/images/fugue.png
A client/galaxy/images/fugue/application-dock-270-bw.png
A client/galaxy/images/fugue/application-dock-270.png
A client/galaxy/images/fugue/arrow-000-small-bw.png
A client/galaxy/images/fugue/arrow-090.png
A client/galaxy/images/fugue/arrow-circle.png
A client/galaxy/images/fugue/arrow-resize-090-bw.png
A client/galaxy/images/fugue/arrow-resize-090.png
A client/galaxy/images/fugue/arrow-split-bw.png
A client/galaxy/images/fugue/arrow-split.png
A client/galaxy/images/fugue/arrow-transition-270-bw.png
A client/galaxy/images/fugue/arrow-transition-bw.png
A client/galaxy/images/fugue/asterisk-small-outline.png
A client/galaxy/images/fugue/asterisk-small-yellow.png
A client/galaxy/images/fugue/asterisk-small.png
A client/galaxy/images/fugue/block--plus-bw.png
A client/galaxy/images/fugue/block--plus.png
A client/galaxy/images/fugue/bookmarks-bw.png
A client/galaxy/images/fugue/bookmarks.png
A client/galaxy/images/fugue/bug.png
A client/galaxy/images/fugue/chart.png
A client/galaxy/images/fugue/chevron-expand-bw.png
A client/galaxy/images/fugue/chevron-expand.png
A client/galaxy/images/fugue/chevron.png
A client/galaxy/images/fugue/control-270.png
A client/galaxy/images/fugue/cross-button.png
A client/galaxy/images/fugue/cross-circle-bw.png
A client/galaxy/images/fugue/cross-circle.png
A client/galaxy/images/fugue/cross-small-bw.png
A client/galaxy/images/fugue/cross.png
A client/galaxy/images/fugue/disk--arrow-bw.png
A client/galaxy/images/fugue/disk--arrow.png
A client/galaxy/images/fugue/disk.png
A client/galaxy/images/fugue/exclamation.png
A client/galaxy/images/fugue/external.png
A client/galaxy/images/fugue/eye.png
A client/galaxy/images/fugue/gear-bw.png
A client/galaxy/images/fugue/gear.png
A client/galaxy/images/fugue/globe-bw.png
A client/galaxy/images/fugue/globe.png
A client/galaxy/images/fugue/hammer-bw.png
A client/galaxy/images/fugue/hammer.png
A client/galaxy/images/fugue/information-white.png
A client/galaxy/images/fugue/layer-transparent-bw.png
A client/galaxy/images/fugue/layer-transparent.png
A client/galaxy/images/fugue/layers-stack-bw.png
A client/galaxy/images/fugue/layers-stack.png
A client/galaxy/images/fugue/magnifier-left.png
A client/galaxy/images/fugue/magnifier-zoom-out.png
A client/galaxy/images/fugue/magnifier-zoom.png
A client/galaxy/images/fugue/navigation.png
A client/galaxy/images/fugue/pencil-small.png
A client/galaxy/images/fugue/pencil.png
A client/galaxy/images/fugue/plus-button-bw.png
A client/galaxy/images/fugue/plus-button.png
A client/galaxy/images/fugue/plus-circle.png
A client/galaxy/images/fugue/sticky-note-text.png
A client/galaxy/images/fugue/tag--plus.png
A client/galaxy/images/fugue/tag-label.png
A client/galaxy/images/fugue/tags.png
A client/galaxy/images/fugue/toggle-bw.png
A client/galaxy/images/fugue/toggle-expand-bw.png
A client/galaxy/images/fugue/toggle-expand.png
A client/galaxy/images/fugue/toggle.png
A client/galaxy/images/fugue/toolbox-bw.png
A client/galaxy/images/fugue/toolbox.png
A client/galaxy/images/fugue/ui-slider-050-bw.png
A client/galaxy/images/fugue/ui-slider-050.png
A client/galaxy/images/galaxy_icons.svg
A client/galaxy/images/galaxy_spinner.fla
A client/galaxy/images/gray_bg.png
A client/galaxy/images/hatch-023858.png
A client/galaxy/images/hgrad.png
A client/galaxy/images/hgrad_over.png
A client/galaxy/images/histogram.png
A client/galaxy/images/histogram2.png
A client/galaxy/images/history-buttons.png
A client/galaxy/images/history-states.png
A client/galaxy/images/info_icon.svg
A client/galaxy/images/info_large.png
A client/galaxy/images/info_message_icon.png
A client/galaxy/images/info_small.png
A client/galaxy/images/jstree/32px.png
A client/galaxy/images/jstree/40px.png
A client/galaxy/images/jstree/throbber.gif
A client/galaxy/images/kendall.png
A client/galaxy/images/largespinner.gif
A client/galaxy/images/layout_callout_top.png
A client/galaxy/images/light_gray_grid.gif
A client/galaxy/images/mag_glass.png
A client/galaxy/images/masthead_bg.png
A client/galaxy/images/menu_bg.png
A client/galaxy/images/mutation_visualization_example.png
A client/galaxy/images/ok_bg.png
A client/galaxy/images/ok_icon.svg
A client/galaxy/images/ok_large.png
A client/galaxy/images/ok_small.png
A client/galaxy/images/overview_arrows.png
A client/galaxy/images/panel_header_bg.png
A client/galaxy/images/pearson.png
A client/galaxy/images/popupmenu_callout_top.png
A client/galaxy/images/question-balloon.png
A client/galaxy/images/question-octagon-frame.png
A client/galaxy/images/resizable.png
A client/galaxy/images/scatter.png
A client/galaxy/images/scatterplot.png
A client/galaxy/images/select2-spinner.gif
A client/galaxy/images/select2.png
A client/galaxy/images/select2x2.png
A client/galaxy/images/silk/add.png
A client/galaxy/images/silk/book.png
A client/galaxy/images/silk/book_open.png
A client/galaxy/images/silk/chart_curve.png
A client/galaxy/images/silk/folder.png
A client/galaxy/images/silk/folder_page.png
A client/galaxy/images/silk/link.png
A client/galaxy/images/silk/link_break.png
A client/galaxy/images/silk/page_white.png
A client/galaxy/images/silk/page_white_compressed.png
A client/galaxy/images/silk/resultset_bottom.png
A client/galaxy/images/silk/resultset_next.png
A client/galaxy/images/silk/resultset_previous.png
A client/galaxy/images/solid_qual.png
A client/galaxy/images/spearman.png
A client/galaxy/images/sprite-fugue.png
A client/galaxy/images/sprite-history-buttons.png
A client/galaxy/images/sprite-history-states.png
A client/galaxy/images/star.gif
A client/galaxy/images/thumbtack_icon.png
A client/galaxy/images/thumbtack_icon_dark.png
A client/galaxy/images/tiny_arrow_left.png
A client/galaxy/images/tiny_arrow_right.png
A client/galaxy/images/tipsy.gif
A client/galaxy/images/tracks/block.png
A client/galaxy/images/tracks/close_btn.gif
A client/galaxy/images/tracks/diag_bg.gif
A client/galaxy/images/tracks/go_btn.gif
A client/galaxy/images/tracks/handle-left.gif
A client/galaxy/images/tracks/handle-right.gif
A client/galaxy/images/tracks/pan_left.gif
A client/galaxy/images/tracks/pan_right.gif
A client/galaxy/images/tracks/show_history.gif
A client/galaxy/images/tracks/zoom_in.gif
A client/galaxy/images/tracks/zoom_in_full.gif
A client/galaxy/images/tracks/zoom_out.gif
A client/galaxy/images/tracks/zoom_out_full.gif
A client/galaxy/images/visualization/draggable_horizontal.png
A client/galaxy/images/visualization/draggable_vertical.png
A client/galaxy/images/visualization/strand_left.png
A client/galaxy/images/visualization/strand_left_inv.png
A client/galaxy/images/visualization/strand_right.png
A client/galaxy/images/visualization/strand_right_inv.png
A client/galaxy/images/wait_icon.svg
A client/galaxy/images/wait_large.png
A client/galaxy/images/wait_small.png
A client/galaxy/images/warn_bg.png
A client/galaxy/images/warn_icon.svg
A client/galaxy/images/warn_large.png
A client/galaxy/images/warn_message_icon.png
A client/galaxy/images/warn_small.png
A client/galaxy/images/workflow_circle_drag.png
A client/galaxy/images/workflow_circle_green.png
A client/galaxy/images/workflow_circle_open.png
M client/galaxy/scripts/apps/admin.js
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/apps/chart.js
M client/galaxy/scripts/apps/extended.js
M client/galaxy/scripts/apps/login.js
M client/galaxy/scripts/galaxy.js
M client/galaxy/scripts/layout/masthead.js
M client/galaxy/scripts/layout/menu.js
M client/galaxy/scripts/layout/modal.js
M client/galaxy/scripts/layout/panel.js
M client/galaxy/scripts/layout/router.js
M client/galaxy/scripts/layout/scratchbook.js
M client/galaxy/scripts/mvc/base-mvc.js
M client/galaxy/scripts/mvc/base/controlled-fetch-collection.js
M client/galaxy/scripts/mvc/dataset/data.js
M client/galaxy/scripts/mvc/history/history-contents.js
M client/galaxy/scripts/mvc/history/history-list.js
M client/galaxy/scripts/mvc/history/history-model.js
M client/galaxy/scripts/mvc/history/history-view-edit-current.js
M client/galaxy/scripts/mvc/history/history-view.js
M client/galaxy/scripts/mvc/history/job-states-model.js
M client/galaxy/scripts/mvc/history/multi-panel.js
M client/galaxy/scripts/mvc/tool/tools.js
M client/galaxy/scripts/mvc/tours.js
M client/galaxy/scripts/mvc/user/user-model.js
M client/galaxy/scripts/mvc/workflow/workflow-node.js
M client/galaxy/scripts/onload.js
M client/galaxy/scripts/polyfills.js
M client/galaxy/scripts/qunit/assets/base.css
M client/galaxy/scripts/qunit/tests/galaxy_app_base_tests.js
M client/galaxy/scripts/reports/run_stats.js
A client/galaxy/scripts/style.js
M client/galaxy/scripts/utils/config.js
M client/galaxy/scripts/viz/phyloviz.js
M client/galaxy/scripts/viz/sweepster.js
M client/galaxy/scripts/viz/trackster.js
M client/galaxy/scripts/viz/trackster/tracks.js
M client/galaxy/scripts/viz/visualization.js
M client/galaxy/style/scss/autocomplete_tagging.scss
M client/galaxy/style/scss/base.scss
M client/galaxy/style/scss/iconic_stroke.scss
A client/galaxy/style/scss/jquery.rating.scss
M client/galaxy/style/scss/jstree.scss
M client/galaxy/style/scss/select2.scss
A client/galaxy/style/scss/sprite-fugue.scss
A client/galaxy/style/scss/sprite-history-buttons.scss
A client/galaxy/style/scss/sprite-history-states.scss
M client/galaxy/style/scss/trackster.scss
R client/galaxy/style/source_material/circle.py
R client/galaxy/style/source_material/error_icon.svg
R client/galaxy/style/source_material/galaxy_icons.svg
R client/galaxy/style/source_material/galaxy_spinner.fla
R client/galaxy/style/source_material/info_icon.svg
R client/galaxy/style/source_material/ok_icon.svg
R client/galaxy/style/source_material/wait_icon.svg
R client/galaxy/style/source_material/warn_icon.svg
M client/gulpfile.js
M client/karma.config.js
M client/package.json
M client/webpack.config.js
M client/yarn.lock
M config/plugins/visualizations/common/templates/chart_entry_point.mako
M config/plugins/webhooks/demo/tour_generator/config.yml
A config/plugins/webhooks/demo/tour_generator/package.json
M config/plugins/webhooks/demo/tour_generator/script.js
A config/plugins/webhooks/demo/tour_generator/tour_generator.js
M doc/source/dev/faq.rst
M run_tests.sh
M scripts/get_uwsgi_args.py
R static/GruntFile.js
R static/images/Armitagep_manhattan.png
R static/images/Armitagep_qqplot.png
R static/images/add_icon.png
R static/images/add_icon_dark.png
R static/images/aggregate_history1.png
R static/images/aggregate_history2.png
R static/images/bar_chart.png
R static/images/bed_warn.png
R static/images/closebox.png
R static/images/dat_points_table_brows_1.png
R static/images/ddarrowsplit.png
R static/images/delete.gif
A static/images/delete_tag_icon_gray.png
R static/images/delete_tag_icon_gray.png
R static/images/delete_tag_icon_white.png
R static/images/documents-stack-faded.png
R static/images/documents-stack.png
R static/images/dropdownarrow.png
R static/images/fetchTax.png
A static/images/fugue
R static/images/fugue/application-dock-270-bw.png
R static/images/fugue/application-dock-270.png
R static/images/fugue/arrow-000-small-bw.png
R static/images/fugue/arrow-090.png
R static/images/fugue/arrow-circle.png
R static/images/fugue/arrow-resize-090-bw.png
R static/images/fugue/arrow-resize-090.png
R static/images/fugue/arrow-split-bw.png
R static/images/fugue/arrow-split.png
R static/images/fugue/arrow-transition-270-bw.png
R static/images/fugue/arrow-transition-bw.png
R static/images/fugue/asterisk-small-outline.png
R static/images/fugue/asterisk-small-yellow.png
R static/images/fugue/asterisk-small.png
R static/images/fugue/block--plus-bw.png
R static/images/fugue/block--plus.png
R static/images/fugue/bookmarks-bw.png
R static/images/fugue/bookmarks.png
R static/images/fugue/bug.png
R static/images/fugue/chart.png
R static/images/fugue/chevron-expand-bw.png
R static/images/fugue/chevron-expand.png
R static/images/fugue/chevron.png
R static/images/fugue/control-270.png
R static/images/fugue/cross-button.png
R static/images/fugue/cross-circle-bw.png
R static/images/fugue/cross-circle.png
R static/images/fugue/cross-small-bw.png
R static/images/fugue/cross.png
R static/images/fugue/disk--arrow-bw.png
R static/images/fugue/disk--arrow.png
R static/images/fugue/disk.png
R static/images/fugue/exclamation.png
R static/images/fugue/external.png
R static/images/fugue/eye.png
R static/images/fugue/gear-bw.png
R static/images/fugue/gear.png
R static/images/fugue/globe-bw.png
R static/images/fugue/globe.png
R static/images/fugue/hammer-bw.png
R static/images/fugue/hammer.png
R static/images/fugue/information-white.png
R static/images/fugue/layer-transparent-bw.png
R static/images/fugue/layer-transparent.png
R static/images/fugue/layers-stack-bw.png
R static/images/fugue/layers-stack.png
R static/images/fugue/magnifier-left.png
R static/images/fugue/magnifier-zoom-out.png
R static/images/fugue/magnifier-zoom.png
R static/images/fugue/navigation.png
R static/images/fugue/pencil-small.png
R static/images/fugue/pencil.png
R static/images/fugue/plus-button-bw.png
R static/images/fugue/plus-button.png
R static/images/fugue/plus-circle.png
R static/images/fugue/sticky-note-text.png
R static/images/fugue/tag--plus.png
R static/images/fugue/tag-label.png
R static/images/fugue/tags.png
R static/images/fugue/toggle-bw.png
R static/images/fugue/toggle-expand-bw.png
R static/images/fugue/toggle-expand.png
R static/images/fugue/toggle.png
R static/images/fugue/toolbox-bw.png
R static/images/fugue/toolbox.png
R static/images/fugue/ui-slider-050-bw.png
R static/images/fugue/ui-slider-050.png
R static/images/hatch-023858.png
R static/images/histogram.png
R static/images/histogram2.png
R static/images/jstree/32px.png
R static/images/jstree/40px.png
R static/images/jstree/throbber.gif
R static/images/kendall.png
R static/images/light_gray_grid.gif
R static/images/mag_glass.png
R static/images/mutation_visualization_example.png
R static/images/overview_arrows.png
R static/images/pearson.png
R static/images/resizable.png
R static/images/scatter.png
R static/images/scatterplot.png
R static/images/select2-spinner.gif
R static/images/select2.png
R static/images/select2x2.png
R static/images/silk/add.png
R static/images/silk/book.png
R static/images/silk/book_open.png
R static/images/silk/chart_curve.png
R static/images/silk/folder.png
R static/images/silk/folder_page.png
R static/images/silk/link.png
R static/images/silk/link_break.png
R static/images/silk/page_white.png
R static/images/silk/page_white_compressed.png
R static/images/silk/resultset_bottom.png
R static/images/silk/resultset_next.png
R static/images/silk/resultset_previous.png
R static/images/solid_qual.png
R static/images/spearman.png
R static/images/star.gif
R static/images/thumbtack_icon.png
R static/images/thumbtack_icon_dark.png
R static/images/tipsy.gif
A static/images/tracks
R static/images/tracks/block.png
R static/images/tracks/close_btn.gif
R static/images/tracks/diag_bg.gif
R static/images/tracks/go_btn.gif
R static/images/tracks/handle-left.gif
R static/images/tracks/handle-right.gif
R static/images/tracks/pan_left.gif
R static/images/tracks/pan_right.gif
R static/images/tracks/show_history.gif
R static/images/tracks/zoom_in.gif
R static/images/tracks/zoom_in_full.gif
R static/images/tracks/zoom_out.gif
R static/images/tracks/zoom_out_full.gif
A static/images/visualization
R static/images/visualization/draggable_horizontal.png
R static/images/visualization/draggable_vertical.png
R static/images/visualization/strand_left.png
R static/images/visualization/strand_left_inv.png
R static/images/visualization/strand_right.png
R static/images/visualization/strand_right_inv.png
M static/style/base.css
A static/style/blue/base.css
R static/style/blue/base.css
R static/style/blue/base_bg.png
R static/style/blue/button_bar_bg_light.png
R static/style/blue/data_empty.png
R static/style/blue/data_error.png
R static/style/blue/data_ok.png
R static/style/blue/data_queued.png
R static/style/blue/done_message_icon.png
R static/style/blue/error_bg.png
R static/style/blue/error_large.png
R static/style/blue/error_message_icon.png
R static/style/blue/error_small.png
R static/style/blue/footer_title_bg.png
R static/style/blue/form_body_bg.png
R static/style/blue/form_title_bg.png
R static/style/blue/fugue.png
R static/style/blue/gray_bg.png
R static/style/blue/hgrad.png
R static/style/blue/hgrad_over.png
R static/style/blue/history-buttons.png
R static/style/blue/history-states.png
R static/style/blue/info_large.png
R static/style/blue/info_message_icon.png
R static/style/blue/info_small.png
R static/style/blue/largespinner.gif
R static/style/blue/layout_callout_top.png
R static/style/blue/masthead_bg.png
R static/style/blue/menu_bg.png
R static/style/blue/ok_bg.png
R static/style/blue/ok_large.png
A static/style/blue/ok_small.png
R static/style/blue/ok_small.png
R static/style/blue/panel_header_bg.png
R static/style/blue/popupmenu_callout_top.png
R static/style/blue/question-balloon.png
A static/style/blue/question-octagon-frame.png
R static/style/blue/question-octagon-frame.png
R static/style/blue/tiny_arrow_left.png
R static/style/blue/tiny_arrow_right.png
M static/style/blue/trackster.css
R static/style/blue/wait_large.png
R static/style/blue/wait_small.png
R static/style/blue/warn_bg.png
R static/style/blue/warn_large.png
R static/style/blue/warn_message_icon.png
R static/style/blue/warn_small.png
R static/style/blue/workflow_circle_drag.png
R static/style/blue/workflow_circle_green.png
R static/style/blue/workflow_circle_open.png
R static/style/shared_images/data_running.gif
R static/style/shared_images/error_large.png
R static/style/shared_images/error_small.png
R static/style/shared_images/info_large.png
R static/style/shared_images/info_small.png
R static/style/shared_images/ok_large.png
R static/style/shared_images/ok_small.png
R static/style/shared_images/wait_large.png
R static/style/shared_images/wait_small.png
R static/style/shared_images/warn_large.png
R static/style/shared_images/warn_small.png
M templates/admin/tool_shed_repository/browse_repository.mako
M templates/admin/tool_shed_repository/browse_tool_dependency.mako
M templates/admin/tool_shed_repository/manage_repository.mako
M templates/admin/tool_shed_repository/reselect_tool_panel_section.mako
M templates/admin/tool_shed_repository/select_tool_panel_section.mako
M templates/base.mako
M templates/base/base_panels.mako
M templates/galaxy_client_app.mako
M templates/js-app.mako
M templates/legacy/grid_base.mako
M templates/webapps/galaxy/galaxy.panels.mako
M templates/webapps/galaxy/visualization/display.mako
M templates/webapps/galaxy/visualization/gie.mako
M templates/webapps/galaxy/visualization/sweepster.mako
M templates/webapps/galaxy/workflow/editor.mako
M templates/webapps/reports/run_stats.mako
M templates/webapps/tool_shed/repository/browse_repository.mako
M templates/webapps/tool_shed/repository/manage_repository.mako
M templates/webapps/tool_shed/repository/preview_tools_in_changeset.mako
M templates/webapps/tool_shed/repository/rate_repository.mako
M templates/webapps/tool_shed/repository/upload.mako
M templates/webapps/tool_shed/repository/view_changelog.mako
M templates/webapps/tool_shed/repository/view_changeset.mako
M templates/webapps/tool_shed/repository/view_repository.mako
M templates/webapps/tool_shed/repository_review/browse_review.mako
M templates/webapps/tool_shed/repository_review/edit_review.mako
M templates/webapps/tool_shed/repository_review/reviews_of_changeset_revision.mako
M templates/webapps/tool_shed/repository_review/reviews_of_repository.mako
M templates/webapps/tool_shed/repository_review/select_previous_review.mako
M test/base/driver_util.py
Log Message:
-----------
Merge pull request #6917 from dannon/unified_webpack4
Unified webpack4
Compare:
https://github.com/galaxyproject/galaxy/compare/f40bb68141eb...31905f1402d9
**NOTE:** This service has been marked for deprecation:
https://developer.github.com/changes/2018-04-25-github-services-deprecation/
Functionality will be removed from
GitHub.com on January 31st, 2019.