Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 2299e06a6937328f36485a8baa136c1138461144
https://github.com/galaxyproject/galaxy/commit/2299e06a6937328f36485a8baa13…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Add StoredWorkflow.show_in_tool_panel function
This is more DRY and fixes
https://github.com/galaxyproject/galaxy/issues/6889#issuecomment-438991091.
The bug itself was due to comparing
the id of a StoredWorkflowUserShareAssociation instead of StoredWorkflow
when checking if a stored workflow should be in the tool panel.
Commit: b5ce8d0dcf5affd462e33902126d4dd5c5921be6
https://github.com/galaxyproject/galaxy/commit/b5ce8d0dcf5affd462e33902126d…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #7014 from mvdbeek/fix_inability_to_remove_workflow_from_panel
[18.01] Fix display_in_tool_panel status for shared workflows
Commit: 1e4821c64477452f54390458dac67161467315ba
https://github.com/galaxyproject/galaxy/commit/1e4821c64477452f54390458dac6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-20 (Tue, 20 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Provide element_identifier attribute in DatsetCollectionWrapper
This allows accessing `$input1.element_identifier` for an `input1` of
collection_type `list:pair`.
Commit: 988d308a12f37ce0d6fc8c2974cdc081b3bbd6a3
https://github.com/galaxyproject/galaxy/commit/988d308a12f37ce0d6fc8c2974cd…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge pull request #7032 from mvdbeek/backport_element_identifier_everywhere
[18.01] Backport Provide element_identifier attribute in DatsetCollectionWrapper
Commit: 9a6fddcdca7042e5e453bdd235ed8c5b3266fb7d
https://github.com/galaxyproject/galaxy/commit/9a6fddcdca7042e5e453bdd235ed…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.01' into release_18.05
Commit: 2620367a5a402274e27630817be814914ef4f90a
https://github.com/galaxyproject/galaxy/commit/2620367a5a402274e27630817be8…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.05' into release_18.09
Commit: 5a62a5c091a9c73ffd6647af7a81e1781c59aa17
https://github.com/galaxyproject/galaxy/commit/5a62a5c091a9c73ffd6647af7a81…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.09' into dev
Compare: https://github.com/galaxyproject/galaxy/compare/8033f0cd6d38...5a62a5c091a9
**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.
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: a2b7521140f74b443c7339cf3ef605fde4bae187
https://github.com/galaxyproject/galaxy/commit/a2b7521140f74b443c7339cf3ef6…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-11-23 (Fri, 23 Nov 2018)
Changed paths:
M lib/galaxy/jobs/runners/state_handlers/resubmit.py
A test/functional/tools/exit_code_from_env.xml
M test/functional/tools/samples_tool_conf.xml
A test/integration/resubmission_tool_detected_always_error_job_conf.xml
A test/integration/resubmission_tool_detected_resubmit_job_conf.xml
M test/integration/test_job_resubmission.py
Log Message:
-----------
Fix resubmission on tool error detection.
Parts of this were wired up before but pieces were missing and so it was broken.
Commit: 8033f0cd6d3882b3373e31470d7fd0ae6c37c467
https://github.com/galaxyproject/galaxy/commit/8033f0cd6d3882b3373e31470d7f…
Author: Helena Rasche <hxr(a)hx42.org>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/jobs/runners/state_handlers/resubmit.py
A test/functional/tools/exit_code_from_env.xml
M test/functional/tools/samples_tool_conf.xml
A test/integration/resubmission_tool_detected_always_error_job_conf.xml
A test/integration/resubmission_tool_detected_resubmit_job_conf.xml
M test/integration/test_job_resubmission.py
Log Message:
-----------
Merge pull request #7040 from jmchilton/fix_tool_detected_error_resubmission
Fix resubmission on tool error detection.
Compare: https://github.com/galaxyproject/galaxy/compare/015b8547ad3b...8033f0cd6d38
**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.
Branch: refs/heads/master
Home: https://github.com/galaxyproject/galaxy
Commit: 2299e06a6937328f36485a8baa136c1138461144
https://github.com/galaxyproject/galaxy/commit/2299e06a6937328f36485a8baa13…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Add StoredWorkflow.show_in_tool_panel function
This is more DRY and fixes
https://github.com/galaxyproject/galaxy/issues/6889#issuecomment-438991091.
The bug itself was due to comparing
the id of a StoredWorkflowUserShareAssociation instead of StoredWorkflow
when checking if a stored workflow should be in the tool panel.
Commit: b5ce8d0dcf5affd462e33902126d4dd5c5921be6
https://github.com/galaxyproject/galaxy/commit/b5ce8d0dcf5affd462e33902126d…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #7014 from mvdbeek/fix_inability_to_remove_workflow_from_panel
[18.01] Fix display_in_tool_panel status for shared workflows
Commit: 1e4821c64477452f54390458dac67161467315ba
https://github.com/galaxyproject/galaxy/commit/1e4821c64477452f54390458dac6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-20 (Tue, 20 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Provide element_identifier attribute in DatsetCollectionWrapper
This allows accessing `$input1.element_identifier` for an `input1` of
collection_type `list:pair`.
Commit: 59afe04523b8b00623b92458b4eb275f31401a19
https://github.com/galaxyproject/galaxy/commit/59afe04523b8b00623b92458b4eb…
Author: Jelle Scholtalbers <j.scholtalbers(a)gmail.com>
Date: 2018-11-22 (Thu, 22 Nov 2018)
Changed paths:
M lib/galaxy/tools/deps/mulled/mulled_build.py
Log Message:
-----------
fix error when building images where conda channels is passed as a string instead of a list
Commit: 5255a0bf20dea411dbc4c1b9b05e757f2e554df1
https://github.com/galaxyproject/galaxy/commit/5255a0bf20dea411dbc4c1b9b05e…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-11-22 (Thu, 22 Nov 2018)
Changed paths:
M lib/galaxy/tools/deps/container_resolvers/__init__.py
M lib/galaxy/tools/deps/container_resolvers/mulled.py
Log Message:
-----------
Fix ``involucro_auto_init`` default value
Commit: 9aaafd8aea1930af02aeebc6b78f03164779ee7c
https://github.com/galaxyproject/galaxy/commit/9aaafd8aea1930af02aeebc6b78f…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-24 (Sat, 24 Nov 2018)
Changed paths:
M lib/galaxy/tools/deps/container_resolvers/__init__.py
M lib/galaxy/tools/deps/container_resolvers/mulled.py
M lib/galaxy/tools/deps/mulled/mulled_build.py
Log Message:
-----------
Merge pull request #7044 from nsoranzo/release_18.09_fix/mulled_container_default_channels
[18.09] Backport #7038
Commit: 988d308a12f37ce0d6fc8c2974cdc081b3bbd6a3
https://github.com/galaxyproject/galaxy/commit/988d308a12f37ce0d6fc8c2974cd…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge pull request #7032 from mvdbeek/backport_element_identifier_everywhere
[18.01] Backport Provide element_identifier attribute in DatsetCollectionWrapper
Commit: 9a6fddcdca7042e5e453bdd235ed8c5b3266fb7d
https://github.com/galaxyproject/galaxy/commit/9a6fddcdca7042e5e453bdd235ed…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.01' into release_18.05
Commit: 2620367a5a402274e27630817be814914ef4f90a
https://github.com/galaxyproject/galaxy/commit/2620367a5a402274e27630817be8…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.05' into release_18.09
Commit: c228760e1f067111fff0ecf9cf69ed3b019313a2
https://github.com/galaxyproject/galaxy/commit/c228760e1f067111fff0ecf9cf69…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/deps/container_resolvers/__init__.py
M lib/galaxy/tools/deps/container_resolvers/mulled.py
M lib/galaxy/tools/deps/mulled/mulled_build.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.09'
Compare: https://github.com/galaxyproject/galaxy/compare/f2c9baf2c54b...c228760e1f06
**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.
Branch: refs/heads/release_18.09
Home: https://github.com/galaxyproject/galaxy
Commit: 2299e06a6937328f36485a8baa136c1138461144
https://github.com/galaxyproject/galaxy/commit/2299e06a6937328f36485a8baa13…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Add StoredWorkflow.show_in_tool_panel function
This is more DRY and fixes
https://github.com/galaxyproject/galaxy/issues/6889#issuecomment-438991091.
The bug itself was due to comparing
the id of a StoredWorkflowUserShareAssociation instead of StoredWorkflow
when checking if a stored workflow should be in the tool panel.
Commit: b5ce8d0dcf5affd462e33902126d4dd5c5921be6
https://github.com/galaxyproject/galaxy/commit/b5ce8d0dcf5affd462e33902126d…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #7014 from mvdbeek/fix_inability_to_remove_workflow_from_panel
[18.01] Fix display_in_tool_panel status for shared workflows
Commit: 1e4821c64477452f54390458dac67161467315ba
https://github.com/galaxyproject/galaxy/commit/1e4821c64477452f54390458dac6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-20 (Tue, 20 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Provide element_identifier attribute in DatsetCollectionWrapper
This allows accessing `$input1.element_identifier` for an `input1` of
collection_type `list:pair`.
Commit: 988d308a12f37ce0d6fc8c2974cdc081b3bbd6a3
https://github.com/galaxyproject/galaxy/commit/988d308a12f37ce0d6fc8c2974cd…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge pull request #7032 from mvdbeek/backport_element_identifier_everywhere
[18.01] Backport Provide element_identifier attribute in DatsetCollectionWrapper
Commit: 9a6fddcdca7042e5e453bdd235ed8c5b3266fb7d
https://github.com/galaxyproject/galaxy/commit/9a6fddcdca7042e5e453bdd235ed…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.01' into release_18.05
Commit: 2620367a5a402274e27630817be814914ef4f90a
https://github.com/galaxyproject/galaxy/commit/2620367a5a402274e27630817be8…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.05' into release_18.09
Compare: https://github.com/galaxyproject/galaxy/compare/9aaafd8aea19...2620367a5a40
**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.
Branch: refs/heads/release_18.05
Home: https://github.com/galaxyproject/galaxy
Commit: 2299e06a6937328f36485a8baa136c1138461144
https://github.com/galaxyproject/galaxy/commit/2299e06a6937328f36485a8baa13…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Add StoredWorkflow.show_in_tool_panel function
This is more DRY and fixes
https://github.com/galaxyproject/galaxy/issues/6889#issuecomment-438991091.
The bug itself was due to comparing
the id of a StoredWorkflowUserShareAssociation instead of StoredWorkflow
when checking if a stored workflow should be in the tool panel.
Commit: b5ce8d0dcf5affd462e33902126d4dd5c5921be6
https://github.com/galaxyproject/galaxy/commit/b5ce8d0dcf5affd462e33902126d…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-15 (Thu, 15 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #7014 from mvdbeek/fix_inability_to_remove_workflow_from_panel
[18.01] Fix display_in_tool_panel status for shared workflows
Commit: 1e4821c64477452f54390458dac67161467315ba
https://github.com/galaxyproject/galaxy/commit/1e4821c64477452f54390458dac6…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-20 (Tue, 20 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Provide element_identifier attribute in DatsetCollectionWrapper
This allows accessing `$input1.element_identifier` for an `input1` of
collection_type `list:pair`.
Commit: 988d308a12f37ce0d6fc8c2974cdc081b3bbd6a3
https://github.com/galaxyproject/galaxy/commit/988d308a12f37ce0d6fc8c2974cd…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/tools/wrappers.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge pull request #7032 from mvdbeek/backport_element_identifier_everywhere
[18.01] Backport Provide element_identifier attribute in DatsetCollectionWrapper
Commit: 9a6fddcdca7042e5e453bdd235ed8c5b3266fb7d
https://github.com/galaxyproject/galaxy/commit/9a6fddcdca7042e5e453bdd235ed…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-27 (Tue, 27 Nov 2018)
Changed paths:
M lib/galaxy/model/__init__.py
M lib/galaxy/tools/wrappers.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M test/functional/tools/identifier_collection.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.01' into release_18.05
Compare: https://github.com/galaxyproject/galaxy/compare/45e475e19aa1...9a6fddcdca70
**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.