Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 420f43645af9b37c32eb126f89c4266f36f6edb0
https://github.com/galaxyproject/galaxy/commit/420f43645af9b37c32eb126f89c4…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M config/galaxy.yml.sample
M config/reports.yml.sample
M config/tool_shed.yml.sample
M lib/galaxy/webapps/config_manage.py
M lib/galaxy/webapps/uwsgi_schema.yml
M scripts/get_uwsgi_args.py
Log Message:
-----------
map the favicon in uwsgi config
Commit: b45c3531dedc71b4ea8142fe5aa9f17f10bfb997
https://github.com/galaxyproject/galaxy/commit/b45c3531dedc71b4ea8142fe5aa9…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js
Log Message:
-----------
dispose of tooltip when the delete is being called
Commit: 33eb06c9b872f75fd22e06297a2043f8685d1df2
https://github.com/galaxyproject/galaxy/commit/33eb06c9b872f75fd22e06297a20…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M lib/galaxy/webapps/uwsgi_schema.yml
Log Message:
-----------
remove something that should have never been where it was
look at me, I do not know what I am doing
Commit: b64754dee94c571112c79ccb15fe515545337e15
https://github.com/galaxyproject/galaxy/commit/b64754dee94c571112c79ccb15fe…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M config/galaxy.yml.sample
M config/reports.yml.sample
M config/tool_shed.yml.sample
M lib/galaxy/webapps/config_manage.py
M scripts/get_uwsgi_args.py
Log Message:
-----------
Merge pull request #6743 from martenson/fix-favicon-uwsgi
[18.09] fix favicon.ico for uwsgi deployments
Commit: 7a22f38a2e5229ebca109836396b17bf8785af37
https://github.com/galaxyproject/galaxy/commit/7a22f38a2e5229ebca109836396b…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js
Log Message:
-----------
Merge pull request #6744 from martenson/dispose-tooltip-on-delete
[18.09] dispose of dataset tooltip when the delete is being called
Commit: 101f2009f81d3c884ac1343a6d369be5fdfb03d4
https://github.com/galaxyproject/galaxy/commit/101f2009f81d3c884ac1343a6d36…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js
M config/galaxy.yml.sample
M config/reports.yml.sample
M config/tool_shed.yml.sample
M lib/galaxy/webapps/config_manage.py
M scripts/get_uwsgi_args.py
Log Message:
-----------
Merge branch 'release_18.09' into dev
Compare: https://github.com/galaxyproject/galaxy/compare/4723ad6672fe...101f2009f81d
**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: 4fc9fe2150690c04d4d6071994126a05b250379b
https://github.com/galaxyproject/galaxy/commit/4fc9fe2150690c04d4d607199412…
Author: Sebastian Kapust <sebastian(a)kapust.org>
Date: 2018-09-11 (Tue, 11 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Fix target update for rule collection builder after input selection
Commit: a937bc5539414624fe42c49607416f14dadd425b
https://github.com/galaxyproject/galaxy/commit/a937bc5539414624fe42c4960741…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-09-11 (Tue, 11 Sep 2018)
Changed paths:
M static/scripts/bundled/libs.bundled.js
M static/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Client build.
Commit: 2a79ae0ce1bbefe8a0340edb4882a00f07fc6de2
https://github.com/galaxyproject/galaxy/commit/2a79ae0ce1bbefe8a0340edb4882…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
M static/scripts/bundled/libs.bundled.js
M static/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Merge pull request #6691 from jmchilton/backport_6326
[18.05] Backport #6326
Commit: bddabe3029335a7db51a0ef1c6a7508937db33fa
https://github.com/galaxyproject/galaxy/commit/bddabe3029335a7db51a0ef1c6a7…
Author: Dave B <dave(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/buildapp.py
Log Message:
-----------
Add missing route for API endpoint.
Commit: 1dacc35332cf956ed5631fe8c6fa8e231dab663e
https://github.com/galaxyproject/galaxy/commit/1dacc35332cf956ed5631fe8c6fa…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/buildapp.py
Log Message:
-----------
Merge pull request #6703 from davebx/updates_api
[18.05] Add missing route for API endpoint.
Commit: 7e2a77e8af152a501f124a6d0f702a66502e0dd3
https://github.com/galaxyproject/galaxy/commit/7e2a77e8af152a501f124a6d0f70…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Catch additional permutations of Slurm cgroup creation warnings
Commit: f7c1d31dbc6f23eb4fba37b82aeb2808fd69224f
https://github.com/galaxyproject/galaxy/commit/f7c1d31dbc6f23eb4fba37b82aeb…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/tools.py
Log Message:
-----------
unquote the tool_version in the tools API
if the tool version includes '+', which is a recommended way
of versioning per https://galaxy-iuc-standards.readthedocs.io/en/latest/best_practices/tool_x…
this would fail the comparison down the line in the toolbox.get_tool() method
this commit also downgrades the unquote_plus to unquote for tool_id
for similar reasons since it also contains the version
Commit: 1b6d422afdd0c1f7291a0999bfc54284b90972d2
https://github.com/galaxyproject/galaxy/commit/1b6d422afdd0c1f7291a0999bfc5…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-13 (Thu, 13 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
unquote similarly to previous commit but in the workflow controller
Commit: f513594c31a3738420889b3f5e36d39796946587
https://github.com/galaxyproject/galaxy/commit/f513594c31a3738420889b3f5e36…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #6707 from martenson/unqoute_tool_version
[18.05] unquote the tool_version in the tools API
Commit: 3d508a01d3d58908b667e428f125df91d8c599c1
https://github.com/galaxyproject/galaxy/commit/3d508a01d3d58908b667e428f125…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Improvements from @nsoranzo
Commit: 6993dbb6fcd112e077fbad66deae716a53247d07
https://github.com/galaxyproject/galaxy/commit/6993dbb6fcd112e077fbad66deae…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Merge pull request #6705 from natefoo/slurm-cgroup-enospc
[18.05] Catch additional permutations of Slurm cgroup creation warnings
Commit: 18d99deb951a8d429be5695fac539c93e4c90e3e
https://github.com/galaxyproject/galaxy/commit/18d99deb951a8d429be5695fac53…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Decode tool id and version in the client, not in the API
using `decodeUriComponent` from `decode-uri-component` JS package.
Revert https://github.com/galaxyproject/galaxy/pull/6707
Remove unused `_get_tool()` method in
`lib/galaxy/webapps/galaxy/api/workflows.py` .
Rebuild client with:
```
make client-production-maps
```
Commit: 7f38e61caebe8e56ab1f6cf6d5b577c6b020c9d3
https://github.com/galaxyproject/galaxy/commit/7f38e61caebe8e56ab1f6cf6d5b5…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
R lib/galaxy/dependencies/requirements.txt
Log Message:
-----------
Remove again lib/galaxy/dependencies/requirements.txt
It was reintroduced (empty) by mistake in
https://github.com/galaxyproject/galaxy/pull/4474 .
Commit: 35754dc49a7d29a12fe10c444ce69c1af47b0a2b
https://github.com/galaxyproject/galaxy/commit/35754dc49a7d29a12fe10c444ce6…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M scripts/plugin_staging.py
Log Message:
-----------
Fix symlinking during plugin staging
Remove also broken symlinks before creating the new ones.
Commit: 5121275c1d5e7c724edbc3cef531f3401aea5225
https://github.com/galaxyproject/galaxy/commit/5121275c1d5e7c724edbc3cef531…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M lib/galaxy/managers/users.py
Log Message:
-----------
Remove stray debug statement.
Commit: 1cdcb80fe88cd076f5c966b0b6a4acab37841877
https://github.com/galaxyproject/galaxy/commit/1cdcb80fe88cd076f5c966b0b6a4…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M lib/galaxy/managers/users.py
Log Message:
-----------
Merge pull request #6739 from jmchilton/remove_debug
[18.09] Remove stray debug statement.
Commit: 5635a05a2a70c3e8887c32b1a8675f124808fd49
https://github.com/galaxyproject/galaxy/commit/5635a05a2a70c3e8887c32b1a867…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
M lib/galaxy/managers/workflows.py
M lib/galaxy/workflow/modules.py
M test/api/test_workflows.py
M test/unit/workflows/test_modules.py
Log Message:
-----------
Look up collection_type if collection_type_source is set
We do this in the wf-editor and in the backend, so this works for
subworkflows. This should make quite some tools more usable in a
workflow scenario. Should fix
- https://github.com/galaxyproject/galaxy/issues/6514
- https://github.com/galaxyproject/galaxy/issues/6012
- https://github.com/galaxyproject/galaxy/issues/6569
- https://github.com/galaxyproject/galaxy/issues/1889
and perhaps more issues related to this.
Commit: f7fe3418d63683a998425b99f4688872fef07b09
https://github.com/galaxyproject/galaxy/commit/f7fe3418d63683a998425b99f468…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
Log Message:
-----------
Reset collection_type if collection_type_source has been removed
Commit: a52ee84aede53ff2cb5a3e667e4ef03df1fd3acb
https://github.com/galaxyproject/galaxy/commit/a52ee84aede53ff2cb5a3e667e4e…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-connector.js
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
Log Message:
-----------
Drop invalid connections if type_source is unavailable
Commit: 29f07f0b0ad49b86b50c34e9890eb2117e067a2b
https://github.com/galaxyproject/galaxy/commit/29f07f0b0ad49b86b50c34e9890e…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-connector.js
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
M lib/galaxy/managers/workflows.py
M lib/galaxy/workflow/modules.py
M test/api/test_workflows.py
M test/unit/workflows/test_modules.py
Log Message:
-----------
Merge pull request #6741 from jmchilton/backport_type_source
[18.09] Backport #6732
Commit: 840041744505402ab5af4f39b84ba76599cb8588
https://github.com/galaxyproject/galaxy/commit/840041744505402ab5af4f39b84b…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M scripts/plugin_staging.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Merge pull request #6737 from nsoranzo/release_18.05_revert_6707
[18.05] Decode tool id and version in the client, not in the API
Commit: 4ce8086c2052a1abee4824456ddfd48ee5cb7c6a
https://github.com/galaxyproject/galaxy/commit/4ce8086c2052a1abee4824456ddf…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/jobs/runners/slurm.py
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M lib/galaxy/webapps/galaxy/buildapp.py
M scripts/plugin_staging.py
Log Message:
-----------
Merge branch 'release_18.05' into release_18.09
Commit: 4723ad6672fef064a75934604ab03150ec14e872
https://github.com/galaxyproject/galaxy/commit/4723ad6672fef064a75934604ab0…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/jobs/runners/slurm.py
M lib/galaxy/managers/users.py
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M scripts/plugin_staging.py
Log Message:
-----------
Merge branch 'release_18.09' into dev
Compare: https://github.com/galaxyproject/galaxy/compare/c9f2361e8e1f...4723ad6672fe
**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: 4fc9fe2150690c04d4d6071994126a05b250379b
https://github.com/galaxyproject/galaxy/commit/4fc9fe2150690c04d4d607199412…
Author: Sebastian Kapust <sebastian(a)kapust.org>
Date: 2018-09-11 (Tue, 11 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Fix target update for rule collection builder after input selection
Commit: a937bc5539414624fe42c49607416f14dadd425b
https://github.com/galaxyproject/galaxy/commit/a937bc5539414624fe42c4960741…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-09-11 (Tue, 11 Sep 2018)
Changed paths:
M static/scripts/bundled/libs.bundled.js
M static/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Client build.
Commit: 2a79ae0ce1bbefe8a0340edb4882a00f07fc6de2
https://github.com/galaxyproject/galaxy/commit/2a79ae0ce1bbefe8a0340edb4882…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-rules-edit.js
M static/scripts/bundled/libs.bundled.js
M static/scripts/mvc/ui/ui-rules-edit.js
Log Message:
-----------
Merge pull request #6691 from jmchilton/backport_6326
[18.05] Backport #6326
Commit: bddabe3029335a7db51a0ef1c6a7508937db33fa
https://github.com/galaxyproject/galaxy/commit/bddabe3029335a7db51a0ef1c6a7…
Author: Dave B <dave(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/buildapp.py
Log Message:
-----------
Add missing route for API endpoint.
Commit: 1dacc35332cf956ed5631fe8c6fa8e231dab663e
https://github.com/galaxyproject/galaxy/commit/1dacc35332cf956ed5631fe8c6fa…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/buildapp.py
Log Message:
-----------
Merge pull request #6703 from davebx/updates_api
[18.05] Add missing route for API endpoint.
Commit: 7e2a77e8af152a501f124a6d0f702a66502e0dd3
https://github.com/galaxyproject/galaxy/commit/7e2a77e8af152a501f124a6d0f70…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Catch additional permutations of Slurm cgroup creation warnings
Commit: f7c1d31dbc6f23eb4fba37b82aeb2808fd69224f
https://github.com/galaxyproject/galaxy/commit/f7c1d31dbc6f23eb4fba37b82aeb…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-12 (Wed, 12 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/tools.py
Log Message:
-----------
unquote the tool_version in the tools API
if the tool version includes '+', which is a recommended way
of versioning per https://galaxy-iuc-standards.readthedocs.io/en/latest/best_practices/tool_x…
this would fail the comparison down the line in the toolbox.get_tool() method
this commit also downgrades the unquote_plus to unquote for tool_id
for similar reasons since it also contains the version
Commit: 1b6d422afdd0c1f7291a0999bfc54284b90972d2
https://github.com/galaxyproject/galaxy/commit/1b6d422afdd0c1f7291a0999bfc5…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-13 (Thu, 13 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
unquote similarly to previous commit but in the workflow controller
Commit: f513594c31a3738420889b3f5e36d39796946587
https://github.com/galaxyproject/galaxy/commit/f513594c31a3738420889b3f5e36…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
Log Message:
-----------
Merge pull request #6707 from martenson/unqoute_tool_version
[18.05] unquote the tool_version in the tools API
Commit: 3d508a01d3d58908b667e428f125df91d8c599c1
https://github.com/galaxyproject/galaxy/commit/3d508a01d3d58908b667e428f125…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Improvements from @nsoranzo
Commit: 6993dbb6fcd112e077fbad66deae716a53247d07
https://github.com/galaxyproject/galaxy/commit/6993dbb6fcd112e077fbad66deae…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-14 (Fri, 14 Sep 2018)
Changed paths:
M lib/galaxy/jobs/runners/slurm.py
Log Message:
-----------
Merge pull request #6705 from natefoo/slurm-cgroup-enospc
[18.05] Catch additional permutations of Slurm cgroup creation warnings
Commit: 18d99deb951a8d429be5695fac539c93e4c90e3e
https://github.com/galaxyproject/galaxy/commit/18d99deb951a8d429be5695fac53…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Decode tool id and version in the client, not in the API
using `decodeUriComponent` from `decode-uri-component` JS package.
Revert https://github.com/galaxyproject/galaxy/pull/6707
Remove unused `_get_tool()` method in
`lib/galaxy/webapps/galaxy/api/workflows.py` .
Rebuild client with:
```
make client-production-maps
```
Commit: 7f38e61caebe8e56ab1f6cf6d5b577c6b020c9d3
https://github.com/galaxyproject/galaxy/commit/7f38e61caebe8e56ab1f6cf6d5b5…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
R lib/galaxy/dependencies/requirements.txt
Log Message:
-----------
Remove again lib/galaxy/dependencies/requirements.txt
It was reintroduced (empty) by mistake in
https://github.com/galaxyproject/galaxy/pull/4474 .
Commit: 35754dc49a7d29a12fe10c444ce69c1af47b0a2b
https://github.com/galaxyproject/galaxy/commit/35754dc49a7d29a12fe10c444ce6…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M scripts/plugin_staging.py
Log Message:
-----------
Fix symlinking during plugin staging
Remove also broken symlinks before creating the new ones.
Commit: 840041744505402ab5af4f39b84ba76599cb8588
https://github.com/galaxyproject/galaxy/commit/840041744505402ab5af4f39b84b…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M scripts/plugin_staging.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Merge pull request #6737 from nsoranzo/release_18.05_revert_6707
[18.05] Decode tool id and version in the client, not in the API
Commit: 4ce8086c2052a1abee4824456ddfd48ee5cb7c6a
https://github.com/galaxyproject/galaxy/commit/4ce8086c2052a1abee4824456ddf…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/jobs/runners/slurm.py
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M lib/galaxy/webapps/galaxy/buildapp.py
M scripts/plugin_staging.py
Log Message:
-----------
Merge branch 'release_18.05' into release_18.09
Compare: https://github.com/galaxyproject/galaxy/compare/29f07f0b0ad4...4ce8086c2052
**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: 18d99deb951a8d429be5695fac539c93e4c90e3e
https://github.com/galaxyproject/galaxy/commit/18d99deb951a8d429be5695fac53…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Decode tool id and version in the client, not in the API
using `decodeUriComponent` from `decode-uri-component` JS package.
Revert https://github.com/galaxyproject/galaxy/pull/6707
Remove unused `_get_tool()` method in
`lib/galaxy/webapps/galaxy/api/workflows.py` .
Rebuild client with:
```
make client-production-maps
```
Commit: 7f38e61caebe8e56ab1f6cf6d5b577c6b020c9d3
https://github.com/galaxyproject/galaxy/commit/7f38e61caebe8e56ab1f6cf6d5b5…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
R lib/galaxy/dependencies/requirements.txt
Log Message:
-----------
Remove again lib/galaxy/dependencies/requirements.txt
It was reintroduced (empty) by mistake in
https://github.com/galaxyproject/galaxy/pull/4474 .
Commit: 35754dc49a7d29a12fe10c444ce69c1af47b0a2b
https://github.com/galaxyproject/galaxy/commit/35754dc49a7d29a12fe10c444ce6…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M scripts/plugin_staging.py
Log Message:
-----------
Fix symlinking during plugin staging
Remove also broken symlinks before creating the new ones.
Commit: 840041744505402ab5af4f39b84ba76599cb8588
https://github.com/galaxyproject/galaxy/commit/840041744505402ab5af4f39b84b…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-09-19 (Wed, 19 Sep 2018)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M client/package.json
R lib/galaxy/dependencies/requirements.txt
M lib/galaxy/webapps/galaxy/api/tools.py
M lib/galaxy/webapps/galaxy/api/workflows.py
M scripts/plugin_staging.py
M static/scripts/bundled/admin.bundled.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/chart.bundled.js
M static/scripts/bundled/extended.bundled.js
Log Message:
-----------
Merge pull request #6737 from nsoranzo/release_18.05_revert_6707
[18.05] Decode tool id and version in the client, not in the API
Compare: https://github.com/galaxyproject/galaxy/compare/6993dbb6fcd1...840041744505
**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.