Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: a54f4892fa1defe5e406e10a658305872f479be3 https://github.com/galaxyproject/galaxy/commit/a54f4892fa1defe5e406e10a65830... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/framework/webapp.py
Log Message: ----------- Remove generic formbuilder controller redirect
Commit: 6f2da1882a119db41adbfc766add198733522ea7 https://github.com/galaxyproject/galaxy/commit/6f2da1882a119db41adbfc766add1... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: R lib/galaxy/web/framework/formbuilder.py
Log Message: ----------- Remove formbuilder code file
Commit: 28f7bed5ffcc85069d234724c56a6a0850f1da2c https://github.com/galaxyproject/galaxy/commit/28f7bed5ffcc85069d234724c56a6... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py
Log Message: ----------- Remove unused field as html function from model
Commit: 67aac2d9d9d4305f8064584366125579445cc476 https://github.com/galaxyproject/galaxy/commit/67aac2d9d9d4305f8064584366125... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py
Log Message: ----------- Remove unused html helper for address fields
Commit: 372ae48a85ddf9cc5f450bba19e937e23a6a3c08 https://github.com/galaxyproject/galaxy/commit/372ae48a85ddf9cc5f450bba19e93... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/metadata.py
Log Message: ----------- Remove html helpers from metadata parameter inputs
Commit: ec1438c9a0396cf0f370c66c14116b952bbd66a4 https://github.com/galaxyproject/galaxy/commit/ec1438c9a0396cf0f370c66c14116... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py
Log Message: ----------- Avoid returning html in galaxy associated toolshed api
Commit: c20ddb096d36f2125dee2ec9aed9ba7fde2e04d4 https://github.com/galaxyproject/galaxy/commit/c20ddb096d36f2125dee2ec9aed9b... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/toolshed.py
Log Message: ----------- Remove html helpers from second toolshed api controller
Commit: 8d41a79ba12360357aae688600963e2f4a14f524 https://github.com/galaxyproject/galaxy/commit/8d41a79ba12360357aae688600963... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove html based input doc tests
Commit: 26e8d89a1a415d248aaa4c377b6587181bd77076 https://github.com/galaxyproject/galaxy/commit/26e8d89a1a415d248aaa4c377b658... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py M lib/tool_shed/util/repository_util.py
Log Message: ----------- Move select builder to toolshed
Commit: 9b95e7e9519467187f2a9240c47551cb74e43291 https://github.com/galaxyproject/galaxy/commit/9b95e7e9519467187f2a9240c4755... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove html helpers from form builder
Commit: 4f80540e89834f3092e1d9e2ba2a993130e70953 https://github.com/galaxyproject/galaxy/commit/4f80540e89834f3092e1d9e2ba2a9... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove size handlers for html text fields
Commit: a840c4792295dce538e332496e2baeba11a2f2c0 https://github.com/galaxyproject/galaxy/commit/a840c4792295dce538e332496e2ba... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove refresh on change handler for checkbox field
Commit: 96d3d27a59faa378dba4d4d9d50966b324751580 https://github.com/galaxyproject/galaxy/commit/96d3d27a59faa378dba4d4d9d5096... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove html helper to disable input fields
Commit: 3bc44493367cd4f6e4c4efa5551463f35238f507 https://github.com/galaxyproject/galaxy/commit/3bc44493367cd4f6e4c4efa555146... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused file field from form builder
Commit: ea9d53c5d8eef6bc67ceac55c2bc8a3b6a570a66 https://github.com/galaxyproject/galaxy/commit/ea9d53c5d8eef6bc67ceac55c2bc8... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused genome space field from form builder
Commit: f77a47bf651366a259b7964658538e03f0900c73 https://github.com/galaxyproject/galaxy/commit/f77a47bf651366a259b7964658538... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused hidden field wrapper from form builder
Commit: 16036fbe4f4166b53c31edde9e14256a5c87b554 https://github.com/galaxyproject/galaxy/commit/16036fbe4f4166b53c31edde9e142... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused params parameter from addressfield wrapper
Commit: 09862dde84e0e9acbf7b09122cf22bcdc65759d5 https://github.com/galaxyproject/galaxy/commit/09862dde84e0e9acbf7b09122cf22... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused params parameter from workflow fields
Commit: 82f56b004a440c7b57d4103e1b2b0359756b2c1e https://github.com/galaxyproject/galaxy/commit/82f56b004a440c7b57d4103e1b2b0... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused parameters from workflow mapping field
Commit: 0147816ecf6a00472a528f7fc672c9b45888287f https://github.com/galaxyproject/galaxy/commit/0147816ecf6a00472a528f7fc672c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused parameters from history field
Commit: d0565f1f5078e8e355a7f79c1f91411cd12070bb https://github.com/galaxyproject/galaxy/commit/d0565f1f5078e8e355a7f79c1f914... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove checkbox special case handling, only used in toolshed
Commit: f8ef4a7bc14c9ad80a0fc7a27ffb89fadefc14eb https://github.com/galaxyproject/galaxy/commit/f8ef4a7bc14c9ad80a0fc7a27ffb8... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py
Log Message: ----------- Remove template form helper for libraries
Commit: 797fd8286f2db4656a6d9ba8a720a4f1f12e0b3a https://github.com/galaxyproject/galaxy/commit/797fd8286f2db4656a6d9ba8a720a... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/library_contents.py
Log Message: ----------- Remove get widget helper
Commit: df5a9530e0dbdf94d05bf5ee25ca722278e927d6 https://github.com/galaxyproject/galaxy/commit/df5a9530e0dbdf94d05bf5ee25ca7... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py
Log Message: ----------- Remove association for template helpers
Commit: 4d1df8c4566e539e4c192867eea9cfc761191a6b https://github.com/galaxyproject/galaxy/commit/4d1df8c4566e539e4c192867eea9c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused checkbox parameters
Commit: 296649937ff045734480a4b673902f5921cf3ad5 https://github.com/galaxyproject/galaxy/commit/296649937ff045734480a4b673902... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused on change handler for galaxy select fields
Commit: 31607438e7492467e1d689060007dfaed45e5fcd https://github.com/galaxyproject/galaxy/commit/31607438e7492467e1d689060007d... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove unused select value helper
Commit: 3eed3a4df058c1674ec3d4682c8365d45f4b2386 https://github.com/galaxyproject/galaxy/commit/3eed3a4df058c1674ec3d4682c836... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: R templates/common/select_template.mako R templates/common/template_common.mako
Log Message: ----------- Remove unused mako templates for custom form building
Commit: 26677708e14b5e4ae23e4dfea5b105b74bc4b134 https://github.com/galaxyproject/galaxy/commit/26677708e14b5e4ae23e4dfea5b10... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/web/framework/webapp.py
Log Message: ----------- Remove unused form template loader
Commit: 07ce743b8df873a348d883e202c5f3f45315aceb https://github.com/galaxyproject/galaxy/commit/07ce743b8df873a348d883e202c5f... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: R templates/form.mako
Log Message: ----------- Remove form.mako
Commit: d489aea241a27dfc8a15875a0cb37c2f54f2eacc https://github.com/galaxyproject/galaxy/commit/d489aea241a27dfc8a15875a0cb37... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/tools/__init__.py
Log Message: ----------- Remove unused refresh on change parsing for tool version selection field
Commit: 91c05859b6f9fc9fefc3b4fca3f1dc12cac9a176 https://github.com/galaxyproject/galaxy/commit/91c05859b6f9fc9fefc3b4fca3f1d... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/util/repository_util.py
Log Message: ----------- Move remaining form builder to toolshed
Commit: 8ccdee9690eac96da1b12e5b6b22c72509b90af3 https://github.com/galaxyproject/galaxy/commit/8ccdee9690eac96da1b12e5b6b22c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/util/repository_util.py
Log Message: ----------- Link toolshed form builder to repository utilites
Commit: ec16aadccc9a476d5f2936953fe2975246b460ab https://github.com/galaxyproject/galaxy/commit/ec16aadccc9a476d5f2936953fe29... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/grids/util.py
Log Message: ----------- Link toolshed form builder with grid utilities
Commit: a726eba67bd0a762346cec3cd2338481085b142d https://github.com/galaxyproject/galaxy/commit/a726eba67bd0a762346cec3cd2338... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: A lib/tool_shed/util/form_util.py
Log Message: ----------- Add form builder for toolshed
Commit: 0dcad1a485e677de244f7483fb6210ebea47ad58 https://github.com/galaxyproject/galaxy/commit/0dcad1a485e677de244f7483fb621... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py M lib/tool_shed/metadata/repository_metadata_manager.py M lib/tool_shed/repository_types/util.py M lib/tool_shed/util/admin_util.py M lib/tool_shed/util/form_util.py M lib/tool_shed/util/tool_dependency_util.py M lib/tool_shed/util/tool_util.py
Log Message: ----------- Import toolshed form builder in remaining modules
Commit: c1acba4a5ba63c4ef0d6e4b69e7c1840d87cae28 https://github.com/galaxyproject/galaxy/commit/c1acba4a5ba63c4ef0d6e4b69e7c1... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/util/form_util.py
Log Message: ----------- Remove to dictionary helpers from toolshed form builder
Commit: 2c1a9a6b7a910fb571e7b6c268ba952706e92644 https://github.com/galaxyproject/galaxy/commit/2c1a9a6b7a910fb571e7b6c268ba9... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py
Log Message: ----------- Use toolshed form builder for admin toolshed
Commit: 0b3bcb748548dbd7bd58c54b03c273912dca96e9 https://github.com/galaxyproject/galaxy/commit/0b3bcb748548dbd7bd58c54b03c27... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/util/hg_util.py
Log Message: ----------- Avoid uninitialized variable in toolshed cloning process
Commit: c2f92fdc4bcc9c440a97503f94090a748ef6c30a https://github.com/galaxyproject/galaxy/commit/c2f92fdc4bcc9c440a97503f94090... Author: guerler aysam.guerler@gmail.com Date: 2017-12-01 (Fri, 01 Dec 2017)
Changed paths: M lib/tool_shed/util/form_util.py
Log Message: ----------- Restore dict helper, some toolshed elements use the new client but the toolshed backend
Commit: 87e44fbdfe1a84be77603b77043249ad73219ef6 https://github.com/galaxyproject/galaxy/commit/87e44fbdfe1a84be77603b7704324... Author: guerler aysam.guerler@gmail.com Date: 2017-12-02 (Sat, 02 Dec 2017)
Changed paths: M lib/galaxy/model/__init__.py M lib/galaxy/web/form_builder.py M lib/galaxy/webapps/galaxy/api/library_contents.py M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py M lib/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py M lib/tool_shed/grids/util.py M lib/tool_shed/metadata/repository_metadata_manager.py M lib/tool_shed/util/form_util.py M lib/tool_shed/util/tool_dependency_util.py M lib/tool_shed/util/tool_util.py
Log Message: ----------- Fix import order
Commit: 644c108e28e3c804e2f9841d5d4ac377157be3fe https://github.com/galaxyproject/galaxy/commit/644c108e28e3c804e2f9841d5d4ac... Author: guerler aysam.guerler@gmail.com Date: 2017-12-02 (Sat, 02 Dec 2017)
Changed paths: M lib/galaxy/web/__init__.py
Log Message: ----------- Remove formbuilder from framework import
Commit: 141a321bfe3ee35cd1a199f42f5e55d131775c0d https://github.com/galaxyproject/galaxy/commit/141a321bfe3ee35cd1a199f42f5e5... Author: guerler aysam.guerler@gmail.com Date: 2017-12-04 (Mon, 04 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/toolshed.py
Log Message: ----------- Remove unused panel section parsing
Commit: da9d9bf61cf90dd6d3b12450bf1cdceebd2d64ea https://github.com/galaxyproject/galaxy/commit/da9d9bf61cf90dd6d3b12450bf1cd... Author: guerler aysam.guerler@gmail.com Date: 2017-12-04 (Mon, 04 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py
Log Message: ----------- Remove panel section from duplicate toolshed api endpoint
Commit: c7ebf747f9fef827e89893776ee77870b996d70a https://github.com/galaxyproject/galaxy/commit/c7ebf747f9fef827e89893776ee77... Author: Dave B dave@bx.psu.edu Date: 2017-12-04 (Mon, 04 Dec 2017)
Changed paths: M client/galaxy/scripts/mvc/toolshed/repository-view.js M lib/tool_shed/util/form_util.py M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/mvc/toolshed/repository-view.js
Log Message: ----------- Fix the shed tool conf select field.
Commit: 82b8e093fc4fe8c4e960af407824bf04308436c2 https://github.com/galaxyproject/galaxy/commit/82b8e093fc4fe8c4e960af407824b... Author: Dave B dave@bx.psu.edu Date: 2017-12-04 (Mon, 04 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py M lib/galaxy/webapps/galaxy/api/toolshed.py
Log Message: ----------- Merge branch 'remove_formbuilder' of ssh://github.com/guerler/galaxy into remove_formbuilder
Commit: 47a91eae67b2d66ed8beb45893577dc1e101b7a5 https://github.com/galaxyproject/galaxy/commit/47a91eae67b2d66ed8beb45893577... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py M templates/user/register.mako
Log Message: ----------- Build subscribe checkbox in register mako without html backend helper
Commit: 9fb40508fdf4c4c8ab4dafcec38185b28574eb6d https://github.com/galaxyproject/galaxy/commit/9fb40508fdf4c4c8ab4dafcec3818... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M client/galaxy/scripts/mvc/toolshed/repository-view.js M lib/tool_shed/util/form_util.py M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/mvc/toolshed/repository-view.js
Log Message: ----------- Merge branch 'remove_formbuilder' of https://github.com/guerler/galaxy into remove_formbuilder
Commit: 969f3d7e2ea3e39f52e5e5f0d5c4dd0ca769291a https://github.com/galaxyproject/galaxy/commit/969f3d7e2ea3e39f52e5e5f0d5c4d... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: R client/galaxy/scripts/apps/admin-toolshed.js A client/galaxy/scripts/apps/extended.js R client/galaxy/scripts/apps/library.js R client/galaxy/scripts/apps/masthead.js R client/galaxy/scripts/apps/viz.js R client/galaxy/scripts/apps/workflow.js M client/galaxy/scripts/mvc/form/form-data.js M client/galaxy/scripts/mvc/form/form-parameters.js M client/galaxy/scripts/mvc/form/form-repeat.js M client/galaxy/scripts/mvc/form/form-view.js M client/galaxy/scripts/mvc/form/form-wrapper.js M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js M client/galaxy/scripts/mvc/ui/ui-misc.js M client/galaxy/scripts/mvc/ui/ui-modal.js M client/galaxy/scripts/mvc/ui/ui-portlet.js M client/galaxy/scripts/mvc/ui/ui-slider.js M client/galaxy/scripts/mvc/ui/ui-tabs.js M client/galaxy/scripts/mvc/ui/ui-thumbnails.js M client/galaxy/scripts/mvc/visualization/visualization-model.js M client/galaxy/scripts/mvc/workflow/workflow-canvas.js M client/galaxy/scripts/mvc/workflow/workflow-manager.js M client/galaxy/scripts/mvc/workflow/workflow-node.js M client/galaxy/scripts/mvc/workflow/workflow-view.js M client/galaxy/scripts/utils/utils.js M client/package.json M client/webpack.config.js M client/yarn.lock M config/datatypes_conf.xml.sample M config/plugins/visualizations/charts/static/client/app.js M config/plugins/visualizations/charts/static/client/components/model.js M config/plugins/visualizations/charts/static/client/components/screenshot.js M config/plugins/visualizations/charts/static/client/views/description.js M config/plugins/visualizations/charts/static/client/views/editor.js M config/plugins/visualizations/charts/static/client/views/groups.js M config/plugins/visualizations/charts/static/client/views/settings.js M config/plugins/visualizations/charts/static/client/views/viewer.js M config/plugins/visualizations/charts/static/client/views/viewport.js M config/plugins/visualizations/charts/webpack.config.js R config/plugins/visualizations/scatterplot/Gruntfile.js R config/plugins/visualizations/scatterplot/src/scatterplot-config-editor.js R config/plugins/visualizations/scatterplot/src/scatterplot-display.js R config/plugins/visualizations/scatterplot/src/scatterplot-model.js M config/plugins/visualizations/scatterplot/src/scatterplot.js M config/plugins/visualizations/scatterplot/static/numeric-column-stats.js R config/plugins/visualizations/scatterplot/static/scatterplot-edit.js A config/plugins/visualizations/scatterplot/static/scatterplot.bundle.js M config/plugins/visualizations/scatterplot/static/worker-stats.js M config/plugins/visualizations/scatterplot/templates/scatterplot.mako A config/plugins/visualizations/scatterplot/webpack.config.js M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/msa.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/sniff.py M lib/galaxy/tools/error_reports/plugins/sentry.py M lib/galaxy/tools/toolbox/filters/__init__.py M lib/galaxy/webapps/galaxy/api/users.py M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py M lib/galaxy/webapps/galaxy/controllers/library.py M lib/galaxy/webapps/galaxy/controllers/visualization.py M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/bundled/analysis.bundled.js A static/scripts/bundled/extended.bundled.js M static/scripts/bundled/library.bundled.js M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/bundled/workflow.bundled.js M static/scripts/mvc/form/form-data.js M static/scripts/mvc/form/form-repeat.js M static/scripts/mvc/form/form-view.js M static/scripts/mvc/form/form-wrapper.js M static/scripts/mvc/library/library-foldertoolbar-view.js M static/scripts/mvc/ui/ui-misc.js M static/scripts/mvc/ui/ui-modal.js M static/scripts/mvc/ui/ui-portlet.js M static/scripts/mvc/ui/ui-tabs.js M static/scripts/mvc/ui/ui-thumbnails.js M static/scripts/mvc/visualization/visualization-model.js M static/scripts/mvc/workflow/workflow-canvas.js M static/scripts/mvc/workflow/workflow-manager.js M static/scripts/mvc/workflow/workflow-node.js M static/scripts/mvc/workflow/workflow-view.js M static/scripts/utils/utils.js M templates/webapps/galaxy/base_panels.mako M templates/webapps/galaxy/galaxy.masthead.mako M templates/webapps/galaxy/galaxy.panels.mako M templates/webapps/galaxy/workflow/editor.mako M tools/data_source/upload.py
Log Message: ----------- Merge branch 'dev' into remove_formbuilder
Commit: aba0d3d0156a58d6b9301cdd9fcf440400f87e71 https://github.com/galaxyproject/galaxy/commit/aba0d3d0156a58d6b9301cdd9fcf4... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M client/galaxy/scripts/mvc/toolshed/repository-view.js
Log Message: ----------- Remove debug output
Commit: 49783c21e853467e18d997bfde869ac4bbfbb2af https://github.com/galaxyproject/galaxy/commit/49783c21e853467e18d997bfde869... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M static/scripts/bundled/extended.bundled.js M static/scripts/mvc/toolshed/repository-view.js
Log Message: ----------- Make client
Commit: c49a184952c2ab6fa15b906d9726cfe3f36ecce8 https://github.com/galaxyproject/galaxy/commit/c49a184952c2ab6fa15b906d9726c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Add select to manage repositories
Commit: d72bd83600696e2ad89e457a8dec0c0563b6cda0 https://github.com/galaxyproject/galaxy/commit/d72bd83600696e2ad89e457a8dec0... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Switch alert checked to mako without backend support
Commit: 4d1dae38f8137b6a76e9880f321e4264078e184b https://github.com/galaxyproject/galaxy/commit/4d1dae38f8137b6a76e9880f321e4... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/webapps/tool_shed/user/manage_email_alerts.mako
Log Message: ----------- Revise checkbox in manage emails mako
Commit: 0e14da24feb002e6885cae5cba05e75f80feb033 https://github.com/galaxyproject/galaxy/commit/0e14da24feb002e6885cae5cba05e... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Revise malicious checkbox in repository manager
Commit: efc0135fc5d4ed2267e8516c3ec3a17504e4e6bc https://github.com/galaxyproject/galaxy/commit/efc0135fc5d4ed2267e8516c3ec3a... Author: guerler aysam.guerler@gmail.com Date: 2017-12-05 (Tue, 05 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Replace select field for alerts
Commit: 41eb44961f7553689c677dae39e18620f8a5d89f https://github.com/galaxyproject/galaxy/commit/41eb44961f7553689c677dae39e18... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/webapps/tool_shed/repository/find_tools.mako M templates/webapps/tool_shed/repository/find_workflows.mako M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Transform checkboxes in find workflows and tools
Commit: 27d738192fed9eb66882e35e838499360a9f9522 https://github.com/galaxyproject/galaxy/commit/27d738192fed9eb66882e35e83849... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/user/register.mako M templates/webapps/tool_shed/common/common.mako M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Add shared checkbox and select field helper to common makos
Commit: 7583c2be55ac74e9747351f58056c020b1d6a623 https://github.com/galaxyproject/galaxy/commit/7583c2be55ac74e9747351f58056c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py
Log Message: ----------- Adjust previously revised checkboxes
Commit: a32f8349d47741e6f960084da4e6eef88cc189ed https://github.com/galaxyproject/galaxy/commit/a32f8349d47741e6f960084da4e6e... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/find_tools.mako M templates/webapps/tool_shed/repository/find_workflows.mako M templates/webapps/tool_shed/user/manage_email_alerts.mako
Log Message: ----------- Adjust mako templates
Commit: 84ea08973acc16960bfa1e96530d68b8f341a8d4 https://github.com/galaxyproject/galaxy/commit/84ea08973acc16960bfa1e96530d6... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Revise alerts checkbox in manage repositories
Commit: 9fc4817518516f0527e6c62dacf2e6dce91de0a8 https://github.com/galaxyproject/galaxy/commit/9fc4817518516f0527e6c62dacf2e... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository_review/edit_review.mako
Log Message: ----------- Edit review
Commit: 662e01a3a251f4edc9c540b534e2eee912f77bc2 https://github.com/galaxyproject/galaxy/commit/662e01a3a251f4edc9c540b534e2e... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository_review.py M templates/webapps/tool_shed/common/common.mako M templates/webapps/tool_shed/repository_review/browse_review.mako
Log Message: ----------- Fix review editing
Commit: 8965d85607cd146a9d57789f107e7e99d0c3062c https://github.com/galaxyproject/galaxy/commit/8965d85607cd146a9d57789f107e7... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/tools/__init__.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/web/form_builder.py
Log Message: ----------- Remove legacy refresh on change value handler
Commit: 726ce9ae66405513e054df6a87285c023352e00d https://github.com/galaxyproject/galaxy/commit/726ce9ae66405513e054df6a87285... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/tools/__init__.py
Log Message: ----------- Restore refresh flag on metadata ref
Commit: 63d312c11b4e424313d77c510425051bbce819fd https://github.com/galaxyproject/galaxy/commit/63d312c11b4e424313d77c5104250... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/tool_shed/grids/repository_grids.py M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Remove last get_html caller from toolshed backend library
Commit: 4fd96359395632f00277a03b59d69644af148b9c https://github.com/galaxyproject/galaxy/commit/4fd96359395632f00277a03b59d69... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py R lib/tool_shed/util/form_util.py
Log Message: ----------- Remove toolshed form builder
Commit: c20277dbb25316d79cadad24591a48303de708c8 https://github.com/galaxyproject/galaxy/commit/c20277dbb25316d79cadad24591a4... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py M lib/galaxy/webapps/tool_shed/controllers/repository.py M lib/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py M lib/tool_shed/grids/util.py M lib/tool_shed/metadata/repository_metadata_manager.py M lib/tool_shed/repository_types/util.py M lib/tool_shed/util/admin_util.py M lib/tool_shed/util/repository_util.py M lib/tool_shed/util/tool_dependency_util.py M lib/tool_shed/util/tool_util.py
Log Message: ----------- Remove form util helper from use cases
Commit: 4a66364fb19374468bc5ef322730f881ac172fb1 https://github.com/galaxyproject/galaxy/commit/4a66364fb19374468bc5ef322730f... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add field id to select field handler
Commit: 48012b6c98b49e89b7d6291f08d84d0a5e874aae https://github.com/galaxyproject/galaxy/commit/48012b6c98b49e89b7d6291f08d84... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/admin/tool_shed_repository/common.mako M templates/webapps/tool_shed/repository/common.mako
Log Message: ----------- Remove get html use cases in makos
Commit: 5bfb5196788c286c9ea88f0dd59b142055000490 https://github.com/galaxyproject/galaxy/commit/5bfb5196788c286c9ea88f0dd59b1... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/admin/tool_shed_repository/common.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_tool_dependencies.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/webapps/tool_shed/admin/dataset_security/group/group_create.mako M templates/webapps/tool_shed/admin/dataset_security/role/role_create.mako M templates/webapps/tool_shed/common/reset_metadata_on_selected_repositories.mako M templates/webapps/tool_shed/repository/preview_tools_in_changeset.mako M templates/webapps/tool_shed/repository/view_repository.mako M templates/webapps/tool_shed/repository_review/reviews_of_changeset_revision.mako
Log Message: ----------- Remove get html calls from remaining makos
Commit: c6fc1a82824c58c4e241aa78f4b313dbbb0d10e9 https://github.com/galaxyproject/galaxy/commit/c6fc1a82824c58c4e241aa78f4b31... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/tool_form.mako
Log Message: ----------- Regress form mako preview
Commit: b6e520902fe59ea8695e23f6689f67ddbb1ef8a5 https://github.com/galaxyproject/galaxy/commit/b6e520902fe59ea8695e23f6689f6... Author: guerler aysam.guerler@gmail.com Date: 2017-12-06 (Wed, 06 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py
Log Message: ----------- Fix push list handler
Commit: 4e2e2eb59af873038c979602c8d108d96fb43e1a https://github.com/galaxyproject/galaxy/commit/4e2e2eb59af873038c979602c8d10... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add multiple handler to mako
Commit: fcbd540eede33d013ebdabab914d263314b53b55 https://github.com/galaxyproject/galaxy/commit/fcbd540eede33d013ebdabab914d2... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add refresh on change flag to select
Commit: 819225500218157ff7c0bd3a1c37ed23c61cb41b https://github.com/galaxyproject/galaxy/commit/819225500218157ff7c0bd3a1c37e... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add escape handler
Commit: 5aba71c84a1e83327f3769f165bbb44804aa7b07 https://github.com/galaxyproject/galaxy/commit/5aba71c84a1e83327f3769f165bbb... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py M templates/webapps/tool_shed/common/common.mako M templates/webapps/tool_shed/repository/manage_repository.mako
Log Message: ----------- Restore checkbox view for toolshed makos
Commit: 3f43fadd53dd5a9937e2e1dd7a5dee6df7a29151 https://github.com/galaxyproject/galaxy/commit/3f43fadd53dd5a9937e2e1dd7a5de... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Insert import into mako caller, escape labels
Commit: 3b16a39dc873aa41c7c35e83e6d7f4c2de0e1b41 https://github.com/galaxyproject/galaxy/commit/3b16a39dc873aa41c7c35e83e6d7f... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Escape values and labels
Commit: 790a0b9e2cd0b3a62c851b30cf4474ecdaba3a35 https://github.com/galaxyproject/galaxy/commit/790a0b9e2cd0b3a62c851b30cf447... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository_review.py
Log Message: ----------- Avoid uninitialized parameter
Commit: db5cf7204a825c8beac97afee3d1bf693611cfc3 https://github.com/galaxyproject/galaxy/commit/db5cf7204a825c8beac97afee3d1b... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py
Log Message: ----------- Fix value parsing to checkbox field
Commit: ecbe7878655f95d63896f4a70a6993c4acf3f0b1 https://github.com/galaxyproject/galaxy/commit/ecbe7878655f95d63896f4a70a699... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository.py
Log Message: ----------- Fix allow push, switch to select field
Commit: c814e09563a29f998749e91338f7cf237c5e0070 https://github.com/galaxyproject/galaxy/commit/c814e09563a29f998749e91338f7c... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository/tool_form.mako
Log Message: ----------- Remove input element preview from tool preview
Commit: d746f8bd9e8fe506534d0332589db245ef9dcb5d https://github.com/galaxyproject/galaxy/commit/d746f8bd9e8fe506534d0332589db... Author: guerler aysam.guerler@gmail.com Date: 2017-12-07 (Thu, 07 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Fix multiple handler
Commit: faf1c4f3224aba16cd7124f8f5fc1181f7e95b70 https://github.com/galaxyproject/galaxy/commit/faf1c4f3224aba16cd7124f8f5fc1... Author: guerler aysam.guerler@gmail.com Date: 2017-12-08 (Fri, 08 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add value selection to select field
Commit: c9a9cb5e24dce19ff9283d72568003c1e5c2dcf8 https://github.com/galaxyproject/galaxy/commit/c9a9cb5e24dce19ff9283d7256800... Author: guerler aysam.guerler@gmail.com Date: 2017-12-08 (Fri, 08 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Add value support for checkboxes
Commit: 701cdad4393310b67aa563a957ed3191ff9ecead https://github.com/galaxyproject/galaxy/commit/701cdad4393310b67aa563a957ed3... Author: guerler aysam.guerler@gmail.com Date: 2017-12-08 (Fri, 08 Dec 2017)
Changed paths: M templates/webapps/tool_shed/common/common.mako
Log Message: ----------- Revise onchange attribute
Commit: c1e29a2cc2ba65ab926b5d032088b2dc6108ce2a https://github.com/galaxyproject/galaxy/commit/c1e29a2cc2ba65ab926b5d032088b... Author: guerler aysam.guerler@gmail.com Date: 2017-12-08 (Fri, 08 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository_review.py
Log Message: ----------- Restore previous behavior
Commit: 0444aa6ae68ae6b9f860f997c9bacd6aa02a9538 https://github.com/galaxyproject/galaxy/commit/0444aa6ae68ae6b9f860f997c9bac... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository_review/browse_review.mako
Log Message: ----------- Fix checked value setting for private mode
Commit: 319205a57242ca8fb475dde0a67e21cf23fab420 https://github.com/galaxyproject/galaxy/commit/319205a57242ca8fb475dde0a67e2... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M templates/webapps/tool_shed/repository_review/edit_review.mako
Log Message: ----------- Handle checkbox flag for private settings, component name encoded in checkbox name
Commit: fa793bd637705b56f7cbb69b41a08843a9000ac1 https://github.com/galaxyproject/galaxy/commit/fa793bd637705b56f7cbb69b41a08... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M client/galaxy/scripts/apps/admin.js M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/apps/panels/admin-panel.js M client/galaxy/scripts/apps/panels/history-panel.js M client/galaxy/scripts/apps/panels/tool-panel.js M client/galaxy/scripts/galaxy.pages.js M client/galaxy/scripts/layout/generic-nav-view.js M client/galaxy/scripts/layout/scratchbook.js M client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js M client/galaxy/scripts/mvc/dataset/data.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/dataset/dataset-li.js M client/galaxy/scripts/mvc/form/form-repeat.js M client/galaxy/scripts/mvc/grid/grid-template.js M client/galaxy/scripts/mvc/grid/grid-view.js M client/galaxy/scripts/mvc/history/history-list.js M client/galaxy/scripts/mvc/library/library-dataset-view.js M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js M client/galaxy/scripts/mvc/library/library-librarytoolbar-view.js M client/galaxy/scripts/mvc/tool/tool-form-base.js M client/galaxy/scripts/mvc/tool/tool-form-composite.js M client/galaxy/scripts/mvc/tool/tool-form.js M client/galaxy/scripts/mvc/toolshed/repo-status-view.js M client/galaxy/scripts/mvc/toolshed/repository-queue-view.js M client/galaxy/scripts/mvc/toolshed/repository-view.js M client/galaxy/scripts/mvc/toolshed/shed-list-view.js M client/galaxy/scripts/mvc/toolshed/workflows-view.js M client/galaxy/scripts/mvc/tours.js M client/galaxy/scripts/mvc/ui/ui-frames.js M client/galaxy/scripts/mvc/ui/ui-select-content.js M client/galaxy/scripts/mvc/ui/ui-select-genomespace.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-button.js M client/galaxy/scripts/mvc/upload/upload-view.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/workflow/workflow-forms.js M client/galaxy/scripts/mvc/workflow/workflow-terminals.js M client/galaxy/scripts/mvc/workflow/workflow-view.js M client/galaxy/scripts/mvc/workflow/workflow.js M client/galaxy/scripts/nls/fr/locale.js M client/galaxy/scripts/nls/ja/locale.js M client/galaxy/scripts/nls/locale.js M client/galaxy/scripts/onload.js M client/galaxy/scripts/viz/circster.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/filters.js M client/galaxy/scripts/viz/trackster/tracks.js M client/galaxy/scripts/viz/visualization.js M config/plugins/webhooks/demo/tour_generator/static/script.js A doc/source/admin/cluster.md M doc/source/admin/index.rst A doc/source/admin/jobs.md A doc/source/admin/production.md A doc/source/admin/scaling.md A doc/source/admin/special_topics/apache.md A doc/source/admin/special_topics/ftp.md M doc/source/admin/special_topics/index.rst A doc/source/admin/special_topics/job_metrics.md A doc/source/admin/special_topics/nginx.md M doc/source/conf.py M lib/galaxy/model/__init__.py M lib/galaxy/model/tool_shed_install/__init__.py M lib/galaxy/tools/__init__.py M lib/galaxy/tools/data/__init__.py M lib/galaxy/tools/parameters/basic.py A lib/galaxy/tools/repositories.py A lib/galaxy/util/renamed_temporary_file.py M lib/galaxy/webapps/galaxy/api/toolshed.py M lib/galaxy/webapps/galaxy/api/workflows.py M lib/galaxy/webapps/galaxy/controllers/root.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/galaxy/workflow/modules.py M lib/galaxy/workflow/run.py M lib/tool_shed/galaxy_install/install_manager.py M lib/tool_shed/metadata/metadata_generator.py M lib/tool_shed/metadata/repository_metadata_manager.py M lib/tool_shed/tools/data_table_manager.py M lib/tool_shed/tools/tool_validator.py M lib/tool_shed/util/commit_util.py M lib/tool_shed/util/tool_util.py M lib/tool_shed/util/workflow_util.py M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/extended.bundled.js M static/scripts/bundled/library.bundled.js M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/bundled/workflow.bundled.js M static/scripts/galaxy.pages.js M static/scripts/layout/generic-nav-view.js M static/scripts/layout/scratchbook.js M static/scripts/mvc/collection/list-of-pairs-collection-creator.js M static/scripts/mvc/dataset/data.js M static/scripts/mvc/dataset/dataset-edit-attributes.js M static/scripts/mvc/dataset/dataset-error.js M static/scripts/mvc/dataset/dataset-li-edit.js M static/scripts/mvc/dataset/dataset-li.js M static/scripts/mvc/form/form-repeat.js M static/scripts/mvc/grid/grid-template.js M static/scripts/mvc/grid/grid-view.js M static/scripts/mvc/history/history-list.js M static/scripts/mvc/library/library-dataset-view.js M static/scripts/mvc/library/library-foldertoolbar-view.js M static/scripts/mvc/library/library-librarytoolbar-view.js M static/scripts/mvc/tool/tool-form-base.js M static/scripts/mvc/tool/tool-form-composite.js M static/scripts/mvc/tool/tool-form.js M static/scripts/mvc/toolshed/repo-status-view.js M static/scripts/mvc/toolshed/repository-queue-view.js M static/scripts/mvc/toolshed/repository-view.js M static/scripts/mvc/toolshed/shed-list-view.js M static/scripts/mvc/toolshed/workflows-view.js M static/scripts/mvc/tours.js M static/scripts/mvc/ui/ui-frames.js M static/scripts/mvc/ui/ui-select-content.js M static/scripts/mvc/ui/ui-select-genomespace.js M static/scripts/mvc/upload/collection/collection-row.js M static/scripts/mvc/upload/collection/collection-view.js M static/scripts/mvc/upload/composite/composite-row.js M static/scripts/mvc/upload/composite/composite-view.js M static/scripts/mvc/upload/default/default-row.js M static/scripts/mvc/upload/default/default-view.js M static/scripts/mvc/upload/upload-button.js M static/scripts/mvc/upload/upload-view.js M static/scripts/mvc/user/user-custom-builds.js M static/scripts/mvc/user/user-preferences.js M static/scripts/mvc/workflow/workflow-forms.js M static/scripts/mvc/workflow/workflow-terminals.js M static/scripts/mvc/workflow/workflow-view.js M static/scripts/mvc/workflow/workflow.js M static/scripts/nls/fr/locale.js M static/scripts/nls/ja/locale.js M static/scripts/nls/locale.js M static/scripts/onload.js M static/scripts/viz/circster.js M static/scripts/viz/phyloviz.js M static/scripts/viz/sweepster.js M static/scripts/viz/trackster.js M static/scripts/viz/trackster/filters.js M static/scripts/viz/trackster/tracks.js M static/scripts/viz/visualization.js M templates/webapps/galaxy/workflow/editor.mako M test/api/test_workflows.py A test/integration/resubmission_dynamic_job_conf.xml M test/integration/resubmission_rules/rules.py M test/integration/test_job_resubmission.py A test/shed_functional/test_data/bowtie2_loc_sample/bowtie2_indices.loc.sample A test/unit/tools/test_tool_validation.py
Log Message: ----------- Merge branch 'dev' into remove_formbuilder
Commit: 98319803c0d63913a62bd620377090d7314174e2 https://github.com/galaxyproject/galaxy/commit/98319803c0d63913a62bd62037709... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M lib/galaxy/webapps/tool_shed/controllers/repository_review.py M templates/webapps/tool_shed/repository_review/edit_review.mako
Log Message: ----------- Restore behavior, adjust for missing checkbox field value
Commit: 2686299ac9c2bff79429c2d2615f9d1ac1a9edbf https://github.com/galaxyproject/galaxy/commit/2686299ac9c2bff79429c2d2615f9... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M test/shed_functional/base/twilltestcase.py
Log Message: ----------- Fix value setting in test case
Commit: 066d94b43482e3ee95a70b4a69a49a8fb99bcf58 https://github.com/galaxyproject/galaxy/commit/066d94b43482e3ee95a70b4a69a49... Author: guerler aysam.guerler@gmail.com Date: 2017-12-09 (Sat, 09 Dec 2017)
Changed paths: M lib/galaxy/web/form_builder.py
Log Message: ----------- Fix truthness detection for test cases
Commit: 34a71af9e1bd955bde43b91ea682af164988a339 https://github.com/galaxyproject/galaxy/commit/34a71af9e1bd955bde43b91ea682a... Author: guerler aysam.guerler@gmail.com Date: 2017-12-11 (Mon, 11 Dec 2017)
Changed paths: M client/galaxy/scripts/mvc/workflow/workflow-canvas.js M client/galaxy/scripts/mvc/workflow/workflow-view.js M config/plugins/interactive_environments/hicbrowser/config/allowed_images.yml.sample M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/converters/cram_to_bam.py M lib/galaxy/datatypes/converters/interval_to_tabix_converter.py M lib/galaxy/datatypes/set_metadata_tool.xml M lib/galaxy/datatypes/tabular.py M lib/galaxy/datatypes/test/1.bam A lib/galaxy/datatypes/test/1.vcf A lib/galaxy/datatypes/test/1.vcf.gz A lib/galaxy/datatypes/test/2.cram A lib/galaxy/datatypes/test/2.shuffled.bam M lib/galaxy/visualization/data_providers/genome.py M static/scripts/bundled/extended.bundled.js M static/scripts/mvc/workflow/workflow-canvas.js M static/scripts/mvc/workflow/workflow-view.js A test/unit/datatypes/converters/__init__.py A test/unit/datatypes/converters/test_interval_to_tabix.py A test/unit/datatypes/test_bam.py A test/unit/datatypes/test_bcf.py A test/unit/datatypes/test_cram.py A test/unit/datatypes/test_vcf.py A test/unit/datatypes/util.py M tools/data_source/upload.xml
Log Message: ----------- Merge branch 'dev' into remove_formbuilder
Commit: 7f30028d32b56eeeaacc6a874f8f1f2e312b9b49 https://github.com/galaxyproject/galaxy/commit/7f30028d32b56eeeaacc6a874f8f1... Author: Dannon Baker dannon.baker@gmail.com Date: 2017-12-11 (Mon, 11 Dec 2017)
Changed paths: M client/galaxy/scripts/mvc/toolshed/repository-view.js M lib/galaxy/model/__init__.py M lib/galaxy/model/metadata.py M lib/galaxy/tools/__init__.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/web/__init__.py M lib/galaxy/web/form_builder.py R lib/galaxy/web/framework/formbuilder.py M lib/galaxy/web/framework/webapp.py M lib/galaxy/webapps/galaxy/api/library_contents.py M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py M lib/galaxy/webapps/galaxy/api/toolshed.py M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py M lib/galaxy/webapps/tool_shed/controllers/repository.py M lib/galaxy/webapps/tool_shed/controllers/repository_review.py M lib/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py M lib/tool_shed/grids/repository_grids.py M lib/tool_shed/grids/util.py M lib/tool_shed/util/hg_util.py M lib/tool_shed/util/repository_util.py M lib/tool_shed/util/tool_dependency_util.py M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/bundled/extended.bundled.js R static/scripts/libs/bibtex.js M static/scripts/mvc/toolshed/repository-view.js M templates/admin/tool_shed_repository/common.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_tool_dependencies.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 R templates/form.mako M templates/user/register.mako M templates/webapps/tool_shed/admin/dataset_security/group/group_create.mako M templates/webapps/tool_shed/admin/dataset_security/role/role_create.mako M templates/webapps/tool_shed/common/common.mako M templates/webapps/tool_shed/common/reset_metadata_on_selected_repositories.mako M templates/webapps/tool_shed/repository/common.mako M templates/webapps/tool_shed/repository/find_tools.mako M templates/webapps/tool_shed/repository/find_workflows.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/tool_form.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/user/manage_email_alerts.mako M test/shed_functional/base/twilltestcase.py
Log Message: ----------- Merge pull request #5114 from guerler/remove_formbuilder
Remove html formbuilder from backend
Compare: https://github.com/galaxyproject/galaxy/compare/1e8c15b3ba36...7f30028d32b5