Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: cd1c38c527e54b8f7b0817eda5ac9aa0c68dc349
https://github.com/galaxyproject/galaxy/commit/cd1c38c527e54b8f7b0817eda5ac…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-08-31 (Thu, 31 Aug 2017)
Changed paths:
M test/base/populators.py
Log Message:
-----------
Break up populator methods for greater composibility and reuse.
All of these changes are needed for various downstream enhancements I'm working on for things like CWL support and extra file testing - but I think they should all be okay refactorings on their own.
Commit: 5a7a15d161bececf0a3cd93714e15768b329d95f
https://github.com/galaxyproject/galaxy/commit/5a7a15d161bececf0a3cd93714e1…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-08-31 (Thu, 31 Aug 2017)
Changed paths:
M lib/galaxy/tools/xsd/galaxy.xsd
M test/api/test_tools.py
M test/base/interactor.py
M test/base/populators.py
M test/functional/tools/composite.xml
M test/functional/tools/composite_output.xml
M test/functional/tools/composite_output_tests.xml
M test/functional/tools/metadata.xml
M tools/sr_assembly/velvetg.xml
Log Message:
-----------
Test and clarifications for composite uploads.
- Add an API test for datatype-defined composite uploads - including exercising newline conversion and the space_to_tab parameter.
- Add a test decorator skip_without_datatype to mirror skip_without_tool for this test, improve both decorators.
- The ftype parameter in the composite test tools does nothing - drop it and drop it from the XSD spec.
- Slightly improve the documentation for these composite_data elements in the XSD.
Commit: 9b4cd096e1e9cbbd86aafb384e5b7773abf585ab
https://github.com/galaxyproject/galaxy/commit/9b4cd096e1e9cbbd86aafb384e5b…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-09-04 (Mon, 04 Sep 2017)
Changed paths:
M lib/galaxy/tools/xsd/galaxy.xsd
M test/api/test_tools.py
M test/base/interactor.py
M test/base/populators.py
M test/functional/tools/composite.xml
M test/functional/tools/composite_output.xml
M test/functional/tools/composite_output_tests.xml
M test/functional/tools/metadata.xml
M tools/sr_assembly/velvetg.xml
Log Message:
-----------
Merge pull request #4505 from jmchilton/composite_upload_refine
Tests and clarifications for composite uploads.
Compare: https://github.com/galaxyproject/galaxy/compare/003344ac2f0e...9b4cd096e1e9
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 042386ff8733874fe7004c900fabb16b7798d031
https://github.com/galaxyproject/galaxy/commit/042386ff8733874fe7004c900fab…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
M client/galaxy/scripts/mvc/library/library-dataset-view.js
M client/galaxy/scripts/mvc/library/library-folder-view.js
M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
M client/galaxy/scripts/mvc/library/library-library-view.js
M client/galaxy/scripts/mvc/library/library-librarytoolbar-view.js
M lib/galaxy/webapps/galaxy/api/lda_datasets.py
M static/maps/mvc/library/library-dataset-view.js.map
M static/maps/mvc/library/library-folder-view.js.map
M static/maps/mvc/library/library-foldertoolbar-view.js.map
M static/maps/mvc/library/library-library-view.js.map
M static/maps/mvc/library/library-librarytoolbar-view.js.map
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/mvc/library/library-dataset-view.js
M static/scripts/mvc/library/library-folder-view.js
M static/scripts/mvc/library/library-foldertoolbar-view.js
M static/scripts/mvc/library/library-library-view.js
M static/scripts/mvc/library/library-librarytoolbar-view.js
Log Message:
-----------
wip on improving libraries
Commit: 61eb0114034703d5ec225c42e3b781b96b02b7f6
https://github.com/galaxyproject/galaxy/commit/61eb0114034703d5ec225c42e3b7…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
M lib/galaxy/managers/workflows.py
M lib/galaxy/webapps/galaxy/api/lda_datasets.py
Log Message:
-----------
refactor decode_id method to use base manager
Commit: dc834a52c1dfa2bcca61e3cdb74ed9606c752340
https://github.com/galaxyproject/galaxy/commit/dc834a52c1dfa2bcca61e3cdb74e…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
M lib/galaxy/managers/libraries.py
Log Message:
-----------
fix copypasta error
Commit: e17ab411e338043dce2391672322ebc3468d049e
https://github.com/galaxyproject/galaxy/commit/e17ab411e338043dce2391672322…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
A lib/galaxy/managers/library_datasets.py
M lib/galaxy/webapps/galaxy/api/lda_datasets.py
Log Message:
-----------
refactor show method to use new manager
Commit: cd09d1327a075f83e0c83323da26377ec0336d03
https://github.com/galaxyproject/galaxy/commit/cd09d1327a075f83e0c83323da26…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
M lib/galaxy/webapps/galaxy/api/lda_datasets.py
Log Message:
-----------
refactor the rest of the module to use new manager
Commit: 50ebc19afd6788125285cbf051f85aec6ac34d00
https://github.com/galaxyproject/galaxy/commit/50ebc19afd6788125285cbf051f8…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-17 (Thu, 17 Aug 2017)
Changed paths:
M .ci/flake8_lint_include_list.txt
R lib/galaxy/webapps/galaxy/api/lda_datasets.py
A lib/galaxy/webapps/galaxy/api/library_datasets.py
M lib/galaxy/webapps/galaxy/buildapp.py
M static/maps/mvc/library/library-foldertoolbar-view.js.map
M static/maps/mvc/library/library-librarytoolbar-view.js.map
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
M static/scripts/mvc/library/library-foldertoolbar-view.js
M static/scripts/mvc/library/library-librarytoolbar-view.js
Log Message:
-----------
rename lda_datasets to library_datasets
Commit: d883fc162e4d0a6606b9e4408337e5c564fd1840
https://github.com/galaxyproject/galaxy/commit/d883fc162e4d0a6606b9e4408337…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-18 (Fri, 18 Aug 2017)
Changed paths:
M lib/galaxy/managers/workflows.py
Log Message:
-----------
add ommitted conflict resolution
Commit: ac5be429e70a8533aae3583fed9cd29cb17fc13f
https://github.com/galaxyproject/galaxy/commit/ac5be429e70a8533aae3583fed9c…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-18 (Fri, 18 Aug 2017)
Changed paths:
M static/maps/mvc/library/library-dataset-view.js.map
M static/maps/mvc/library/library-folder-view.js.map
M static/maps/mvc/library/library-foldertoolbar-view.js.map
M static/maps/mvc/library/library-library-view.js.map
M static/maps/mvc/library/library-librarytoolbar-view.js.map
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
M static/scripts/mvc/library/library-dataset-view.js
M static/scripts/mvc/library/library-folder-view.js
M static/scripts/mvc/library/library-foldertoolbar-view.js
M static/scripts/mvc/library/library-library-view.js
M static/scripts/mvc/library/library-librarytoolbar-view.js
Log Message:
-----------
repack
Commit: 6613df5b7a826e8147b2a46c8e87391b230f4315
https://github.com/galaxyproject/galaxy/commit/6613df5b7a826e8147b2a46c8e87…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-28 (Mon, 28 Aug 2017)
Changed paths:
M lib/galaxy/managers/library_datasets.py
M lib/galaxy/webapps/galaxy/api/library_datasets.py
M lib/galaxy/webapps/galaxy/buildapp.py
Log Message:
-----------
add methods for vlidating and updating ld's attributes
Commit: a394faf3be18eceae72ca68dae67596123c89ff6
https://github.com/galaxyproject/galaxy/commit/a394faf3be18eceae72ca68dae67…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-28 (Mon, 28 Aug 2017)
Changed paths:
M lib/galaxy/webapps/galaxy/api/library_datasets.py
Log Message:
-----------
fix refactoring error
Commit: c060bbb5fa54c7062a8daf8df7192d793e354e6e
https://github.com/galaxyproject/galaxy/commit/c060bbb5fa54c7062a8daf8df719…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-28 (Mon, 28 Aug 2017)
Changed paths:
M lib/galaxy/managers/library_datasets.py
Log Message:
-----------
fix wrongly called exceptions
Commit: b096155637e922ab87bab9b86c606e08ef82fea1
https://github.com/galaxyproject/galaxy/commit/b096155637e922ab87bab9b86c60…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-29 (Tue, 29 Aug 2017)
Changed paths:
M client/galaxy/scripts/mvc/library/library-dataset-view.js
M lib/galaxy/managers/library_datasets.py
M static/maps/mvc/library/library-dataset-view.js.map
M static/scripts/mvc/library/library-dataset-view.js
Log Message:
-----------
add functionality to the UI for updating library dataset
Commit: 3ac0c7ced7224e63bc55cde9fad3679b390d9628
https://github.com/galaxyproject/galaxy/commit/3ac0c7ced7224e63bc55cde9fad3…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-30 (Wed, 30 Aug 2017)
Changed paths:
M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
M static/maps/mvc/library/library-foldertoolbar-view.js.map
M static/scripts/mvc/library/library-foldertoolbar-view.js
Log Message:
-----------
improve UX of importing from history to folder
fixes #4151
Commit: 48bb43b8b04b1bdcfb636277c9a595c6a8cbbbb6
https://github.com/galaxyproject/galaxy/commit/48bb43b8b04b1bdcfb636277c9a5…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-30 (Wed, 30 Aug 2017)
Changed paths:
M lib/galaxy/managers/library_datasets.py
M lib/galaxy/webapps/galaxy/api/library_datasets.py
Log Message:
-----------
fix travis issues - whitespace, imports
Commit: f79eba25b532e42e38fec5f6df25229ea6085a03
https://github.com/galaxyproject/galaxy/commit/f79eba25b532e42e38fec5f6df25…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-30 (Wed, 30 Aug 2017)
Changed paths:
M lib/galaxy/managers/library_datasets.py
M test/api/test_libraries.py
Log Message:
-----------
fix small regressions and add tests for the new API
Commit: 65185f5e435a733c0f6b4639ac91f607b12eb844
https://github.com/galaxyproject/galaxy/commit/65185f5e435a733c0f6b4639ac91…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-30 (Wed, 30 Aug 2017)
Changed paths:
M lib/galaxy/webapps/galaxy/api/library_datasets.py
Log Message:
-----------
lint imports
Commit: 3d9809a50d942e51c8afc7dd4cbae8e775b33147
https://github.com/galaxyproject/galaxy/commit/3d9809a50d942e51c8afc7dd4cba…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-04 (Mon, 04 Sep 2017)
Changed paths:
M .ci/flake8_lint_include_list.txt
M client/galaxy/scripts/mvc/library/library-dataset-view.js
M client/galaxy/scripts/mvc/library/library-folder-view.js
M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
M client/galaxy/scripts/mvc/library/library-library-view.js
M client/galaxy/scripts/mvc/library/library-librarytoolbar-view.js
M lib/galaxy/managers/libraries.py
A lib/galaxy/managers/library_datasets.py
M lib/galaxy/managers/workflows.py
R lib/galaxy/webapps/galaxy/api/lda_datasets.py
A lib/galaxy/webapps/galaxy/api/library_datasets.py
M lib/galaxy/webapps/galaxy/buildapp.py
M static/maps/mvc/library/library-dataset-view.js.map
M static/maps/mvc/library/library-folder-view.js.map
M static/maps/mvc/library/library-foldertoolbar-view.js.map
M static/maps/mvc/library/library-library-view.js.map
M static/maps/mvc/library/library-librarytoolbar-view.js.map
M static/scripts/mvc/library/library-dataset-view.js
M static/scripts/mvc/library/library-folder-view.js
M static/scripts/mvc/library/library-foldertoolbar-view.js
M static/scripts/mvc/library/library-library-view.js
M static/scripts/mvc/library/library-librarytoolbar-view.js
M test/api/test_libraries.py
Log Message:
-----------
Merge pull request #4512 from martenson/improving-datalibraries
A round of data libraries improvements.
Compare: https://github.com/galaxyproject/galaxy/compare/8f1303217eea...3d9809a50d94
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 259e12d760c721badf9a6f65da90a9bb5bcb0983
https://github.com/galaxyproject/galaxy/commit/259e12d760c721badf9a6f65da90…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M test/base/api.py
A test/base/testcase.py
M test/base/twilltestcase.py
M test/functional/test_toolbox.py
M test/selenium_tests/framework.py
Log Message:
-----------
Continue separation of FunctionalTestCase from TwillTestCase.
Move non-twill stuff out into its own module including FunctionalTestCase.
Commit: 6e17ff57ea62320e8764b390e50135d95aaa242d
https://github.com/galaxyproject/galaxy/commit/6e17ff57ea62320e8764b390e501…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
R test/functional/test_library_templates.py
Log Message:
-----------
Remove test/functional/test_library_templates.py.
Hasn't been run in forever and it seems like we are deprecating these features.
Commit: 6d7c8b3136e24ff3e752efecb14f57574cd53174
https://github.com/galaxyproject/galaxy/commit/6d7c8b3136e24ff3e752efecb14f…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M test/base/tool_shed_util.py
Log Message:
-----------
Cleanup sys.path hacking in test/base/tool_shed_util.py.
Commit: 7343463daca00ef60836e99faecdf90f85c9fd2a
https://github.com/galaxyproject/galaxy/commit/7343463daca00ef60836e99faecd…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M test/base/driver_util.py
R test/base/test_db_util.py
R test/functional/database_contexts.py
M test/shed_functional/base/test_db_util.py
Log Message:
-----------
Rework hack to inject database contexts into Tool Shed tests.
Rather than depend on something in ``functional`` test module from ``base.driver_util``, just set these global hacks up in ``driver_util`` itself. This eliminates a dependency of ``functional`` on ``base`` - ideally ``base`` would not depend on any other test modules.
Commit: aba726a89f69fe1dbd4b4147e725c7ce0a7a3a33
https://github.com/galaxyproject/galaxy/commit/aba726a89f69fe1dbd4b4147e725…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
R test/base/twilltestcase.py
M test/functional/test_toolbox.py
A test/functional/twilltestcase.py
M test/shed_functional/base/twilltestcase.py
Log Message:
-----------
Move twilltestcase from ``base`` to ``functional`` module.
This way nothing in ``base`` has any dependencies on Twill anymore.
Commit: 5358db58231482312850351d3d1dded25797dec8
https://github.com/galaxyproject/galaxy/commit/5358db58231482312850351d3d1d…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M test/base/tool_shed_util.py
Log Message:
-----------
fix lint order
Commit: b2ceef5b6c258b0d6bc90240549299dbcc3d6ee4
https://github.com/galaxyproject/galaxy/commit/b2ceef5b6c258b0d6bc902405492…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2017-09-03 (Sun, 03 Sep 2017)
Changed paths:
M test/base/api.py
M test/base/driver_util.py
R test/base/test_db_util.py
A test/base/testcase.py
M test/base/tool_shed_util.py
R test/base/twilltestcase.py
R test/functional/database_contexts.py
R test/functional/test_library_templates.py
M test/functional/test_toolbox.py
A test/functional/twilltestcase.py
M test/selenium_tests/framework.py
M test/shed_functional/base/test_db_util.py
M test/shed_functional/base/twilltestcase.py
Log Message:
-----------
Merge pull request #4536 from jmchilton/test_refactoring
Refactor test modules toward cleaner dependencies
Compare: https://github.com/galaxyproject/galaxy/compare/ae7e1f97f0b7...b2ceef5b6c25
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 354ce19677bae15d5cf976386ca988586a0c3eff
https://github.com/galaxyproject/galaxy/commit/354ce19677bae15d5cf976386ca9…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-08-31 (Thu, 31 Aug 2017)
Changed paths:
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/test_workflow_run.py
Log Message:
-----------
Fix workflow run Selenium test and make it more robust.
This test went from transiently broken to always broken during this release cycle. This PR makes two changes to try to fix both of those conditions. It correct the frame and button Selector for the new workflow run UX for the newer error and this allows explicitly refreshing the browser when waiting for datasets to appear to deal with the transient problems.
Commit: edd3b07c3dcace5263dafafef72b8564c8b7ce06
https://github.com/galaxyproject/galaxy/commit/edd3b07c3dcace5263dafafef72b…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-08-31 (Thu, 31 Aug 2017)
Changed paths:
M test/galaxy_selenium/driver_factory.py
Log Message:
-----------
Fix "all" vs. "ALL" in Selenium logging configuration.
The previous value broke all the tests on Jenkins.
Commit: ea9f5f7eb2536765a175f7e411f8d64cb8c34cad
https://github.com/galaxyproject/galaxy/commit/ea9f5f7eb2536765a175f7e411f8…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2017-09-03 (Sun, 03 Sep 2017)
Changed paths:
M test/galaxy_selenium/driver_factory.py
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/test_workflow_run.py
Log Message:
-----------
Merge pull request #4524 from jmchilton/selenium_fixes_16
Fix workflow run Selenium test and make it more robust.
Compare: https://github.com/galaxyproject/galaxy/compare/47efd8089c5b...ea9f5f7eb253
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: f5b29b82d29548a05da911b03d1b3e0dce5dc6e7
https://github.com/galaxyproject/galaxy/commit/f5b29b82d29548a05da911b03d1b…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/tag.js
A client/galaxy/scripts/mvc/workflow/workflow-model.js
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
WIP - show/add/remove workflow tags
Commit: 5e667a7d54eba623bbf6cb42865507e063bdb4a5
https://github.com/galaxyproject/galaxy/commit/5e667a7d54eba623bbf6cb428655…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/tag.js
M client/galaxy/scripts/mvc/workflow/workflow-model.js
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Allow editing tags in workflow overview page
Commit: b57b2de7dac8c2fb36e4f3a626d6d33c57da6064
https://github.com/galaxyproject/galaxy/commit/b57b2de7dac8c2fb36e4f3a626d6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M lib/galaxy/managers/workflows.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Allow exporting and importing workflow tags
Commit: e1b5a459dcfd183327d8ea1d3485fb5f509b6d82
https://github.com/galaxyproject/galaxy/commit/e1b5a459dcfd183327d8ea1d3485…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Allow updating workflows from partial information
The workflow overview page gets workflow information from the
/api/workflows, which returns a reduced amount of information, most
notably the steps are not being returned. This commit skips updating the
actual workflow steps if the steps are not included in the workflow
payload. We can now update name, tags and whether a workflow should be
shown in the tool panel. We also return owner and number of steps in the
response to importing workflows.
Commit: e2d1fabf58f813c2d722849ad9bf5d1d46517665
https://github.com/galaxyproject/galaxy/commit/e2d1fabf58f813c2d722849ad9bf…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-model.js
Log Message:
-----------
Remove unncessary boilerplate from workflow model
Commit: 17be825cdf3714d2f335ba20ad2b6f51ad10c622
https://github.com/galaxyproject/galaxy/commit/17be825cdf3714d2f335ba20ad2b…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Allow renaming, downloading, dropping workflow files to import
Commit: 5dfe36deceb6d4e38a82c0130a011956c29c06df
https://github.com/galaxyproject/galaxy/commit/5dfe36deceb6d4e38a82c0130a01…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M lib/galaxy/managers/workflows.py
Log Message:
-----------
Only access tags if workflow exists
Commit: 060952fa88dd84af04bc1e879e67726596cbc7ff
https://github.com/galaxyproject/galaxy/commit/060952fa88dd84af04bc1e879e67…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Allow downloading .ga workflows via the UI
Commit: 1a4effa70e9ad8088e19ae334753b7a898d286aa
https://github.com/galaxyproject/galaxy/commit/1a4effa70e9ad8088e19ae334753…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M lib/galaxy/webapps/galaxy/controllers/workflow.py
Log Message:
-----------
Remove downloading workflows through controller
Commit: 1015b510f81723b927866546390d179abef796f9
https://github.com/galaxyproject/galaxy/commit/1015b510f81723b927866546390d…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M lib/galaxy/workflow/modules.py
Log Message:
-----------
Properly raise Exception if tool not found
Commit: 70c889435892ebfd1fb88edaab187cb84ba1dccf
https://github.com/galaxyproject/galaxy/commit/70c889435892ebfd1fb88edaab18…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-model.js
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Copy workflows without reloading page
Commit: 1dcfe56bb9f1c81567efe68f5ebe4c2f4c6bfb7f
https://github.com/galaxyproject/galaxy/commit/1dcfe56bb9f1c81567efe68f5ebe…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/tag.js
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Merge WorkflowTagsEditor with TagsEditor
Commit: f1f412ff298a3d859da1f4fe8b7640d722827a1f
https://github.com/galaxyproject/galaxy/commit/f1f412ff298a3d859da1f4fe8b76…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Make tag_editor local variable
Commit: 911c969631a1dcfb7eee2f2499f81d662b617800
https://github.com/galaxyproject/galaxy/commit/911c969631a1dcfb7eee2f2499f8…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Fix logic for determining whether username should be mentioned
Commit: e54b1d1c379f56f2b45ef129a9863be77c379ae7
https://github.com/galaxyproject/galaxy/commit/e54b1d1c379f56f2b45ef129a986…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Fix adjusting dropdown menu
Commit: 0aa4e5463d410df448f484c13174b0e8d6ba87f8
https://github.com/galaxyproject/galaxy/commit/0aa4e5463d410df448f484c13174…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Use toastr for informing user about success/failure
Commit: 61ac1d77a4679938c98e43f54bea9e52073ae32e
https://github.com/galaxyproject/galaxy/commit/61ac1d77a4679938c98e43f54bea…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
M client/galaxy/style/less/base.less
Log Message:
-----------
Highlight workflow dropzone
Commit: 09f66a6394303a70b279a34c8f63458b059febc5
https://github.com/galaxyproject/galaxy/commit/09f66a6394303a70b279a34c8f63…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Remove unused $el_wf_link variable
Commit: 1de485d3f70165ca1860fbc388a30f40d1a21888
https://github.com/galaxyproject/galaxy/commit/1de485d3f70165ca1860fbc388a3…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
camelCase functions and variables
Commit: bbaf59a05a7ff6bb048f93fe1eb192157301d6db
https://github.com/galaxyproject/galaxy/commit/bbaf59a05a7ff6bb048f93fe1eb1…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Display errors to user
Commit: 2968e0e588e35da24caecd0cc4223f694332673b
https://github.com/galaxyproject/galaxy/commit/2968e0e588e35da24caecd0cc422…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Show toast at the top-right (which is the default setting)
Commit: 268a895d2b787d9c77a5b87d04ec772382615a8b
https://github.com/galaxyproject/galaxy/commit/268a895d2b787d9c77a5b87d04ec…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-model.js
Log Message:
-----------
Describe workflow model and collection (thx @martenson)
Commit: aa49c0053a278d40dcc0affaf894b0e60b3d3949
https://github.com/galaxyproject/galaxy/commit/aa49c0053a278d40dcc0affaf894…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-model.js
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Move fetching out of WorkflowCollection
thx for the hint @martenson.
Commit: 9a331363cb51733b446aa44eca71f3439152d4ab
https://github.com/galaxyproject/galaxy/commit/9a331363cb51733b446aa44eca71…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow.js
Log Message:
-----------
Improve error reporting to user
Commit: ede8c200f944a9cc21d894654fb6ec0027747333
https://github.com/galaxyproject/galaxy/commit/ede8c200f944a9cc21d894654fb6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M static/maps/mvc/tag.js.map
A static/maps/mvc/workflow/workflow-model.js.map
M static/maps/mvc/workflow/workflow.js.map
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js
M static/scripts/bundled/login.bundled.js.map
M static/scripts/mvc/tag.js
A static/scripts/mvc/workflow/workflow-model.js
M static/scripts/mvc/workflow/workflow.js
M static/style/blue/base.css
Log Message:
-----------
Add static JS
Commit: d0df3886fa7acaa3d5f63360e2af78aab2deaaaa
https://github.com/galaxyproject/galaxy/commit/d0df3886fa7acaa3d5f63360e2af…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/framework.py
M test/selenium_tests/test_workflow_management.py
Log Message:
-----------
More workflow index page Selenium tests.
- Fix rename test for recent change to using alert.
- Test basic adding a tag.
- Outline of a test for downloading workflows.
- Add test for publishing display on index.
- Add test for using the search box on the workflow index page.
Commit: 47efd8089c5b1dfc67af7cf3887ce5b8b907e057
https://github.com/galaxyproject/galaxy/commit/47efd8089c5b1dfc67af7cf3887c…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-09-01 (Fri, 01 Sep 2017)
Changed paths:
M client/galaxy/scripts/mvc/tag.js
A client/galaxy/scripts/mvc/workflow/workflow-model.js
M client/galaxy/scripts/mvc/workflow/workflow.js
M client/galaxy/style/less/base.less
M lib/galaxy/managers/workflows.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M lib/galaxy/webapps/galaxy/controllers/workflow.py
M lib/galaxy/workflow/modules.py
M static/maps/mvc/tag.js.map
A static/maps/mvc/workflow/workflow-model.js.map
M static/maps/mvc/workflow/workflow.js.map
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js
M static/scripts/bundled/login.bundled.js.map
M static/scripts/mvc/tag.js
A static/scripts/mvc/workflow/workflow-model.js
M static/scripts/mvc/workflow/workflow.js
M static/style/blue/base.css
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/framework.py
M test/selenium_tests/test_workflow_management.py
Log Message:
-----------
Merge pull request #4476 from mvdbeek/workflow_view_tags
Show tags, import by drag-and-drop and avoid refreshed in workflow page
Compare: https://github.com/galaxyproject/galaxy/compare/558e22a49cbd...47efd8089c5b