Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c0dca7a44cd12492ec34ad9c7cf2a7aa5ab0d116
https://github.com/galaxyproject/galaxy/commit/c0dca7a44cd12492ec34ad9c7cf2…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2019-02-04 (Mon, 04 Feb 2019)
Changed paths:
M test/unit/tools/test_toolbox.py
Log Message:
-----------
Respect `section=False` parameter in `BaseToolBoxTestCase._setup_two_versions_in_config()`
Broken in commit fd1c34b4c9fec55286c3d33e2802062ef393de82
Commit: 87d4904189e42b9263bea70a321bf80ae4549a93
https://github.com/galaxyproject/galaxy/commit/87d4904189e42b9263bea70a321b…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2019-02-05 (Tue, 05 Feb 2019)
Changed paths:
M templates/webapps/tool_shed/common/common.mako
Log Message:
-----------
Remove spurious quote
Commit: ab03de44e86a376a4c7d98dad9b683992327aa32
https://github.com/galaxyproject/galaxy/commit/ab03de44e86a376a4c7d98dad9b6…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2019-02-05 (Tue, 05 Feb 2019)
Changed paths:
M lib/tool_shed/galaxy_install/tools/tool_panel_manager.py
M test/unit/shed_unit/test_tool_panel_manager.py
M test/unit/tools/test_toolbox.py
Log Message:
-----------
Do not remove tools from other installed revisions when uninstalling TS repo
Multiple installed revisions of a repository can provide the same version of
a tool, e.g. for the repository
https://toolshed.g2.bx.psu.edu/view/nilesh/rseqc
only one tool out of 22 has a different version in revision 57 with
respect to revision 56.
In this case, when uninstalling one repository, the tools with the same guid
were removed also from the other repository revisions in the
`shed_tool_conf` file. This can be prevented by checking also the tool path.
Commit: f84a29b9545d544d8d1bbe0a433f3e8dd647cbaf
https://github.com/galaxyproject/galaxy/commit/f84a29b9545d544d8d1bbe0a433f…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2019-02-05 (Tue, 05 Feb 2019)
Changed paths:
M lib/tool_shed/galaxy_install/tools/tool_panel_manager.py
M templates/webapps/tool_shed/common/common.mako
M test/unit/shed_unit/test_tool_panel_manager.py
M test/unit/tools/test_toolbox.py
Log Message:
-----------
Merge pull request #7300 from nsoranzo/toolshed_fixes
Do not remove tools from other installed revisions when uninstalling TS repo
Compare: https://github.com/galaxyproject/galaxy/compare/71b01b1be3f7...f84a29b9545d
Branch: refs/heads/master
Home: https://github.com/galaxyproject/usegalaxy-playbook
Commit: cce48a7764ed202c79dd9e0407a7e7eeb2d3c3c1
https://github.com/galaxyproject/usegalaxy-playbook/commit/cce48a7764ed202c…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2019-02-04 (Mon, 04 Feb 2019)
Changed paths:
M env/test/files/galaxy/config/tool_conf.xml
M env/test/files/galaxy/var/integrated_tool_panel.xml
M env/test/files/galaxy/var/migrated_tools_conf.xml
M env/test/files/galaxy/var/shed_tool_conf.xml
Log Message:
-----------
usegalaxy.* integration updates for Test
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 7dd9213fd874a4bf12d0eee86f03c48dd467a6f2
https://github.com/galaxyproject/galaxy/commit/7dd9213fd874a4bf12d0eee86f03…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/test_custom_builds.py
Log Message:
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Add longer pauses for some selenium tests, mark as slow renders for easier tracking down and fixing.
Commit: d59352224c8f41ba8a1a9219b2bafa24e1a1f142
https://github.com/galaxyproject/galaxy/commit/d59352224c8f41ba8a1a9219b2ba…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M test/galaxy_selenium/driver_factory.py
Log Message:
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Set chrome to run headlessly -- todo configure via env var or switch
Commit: 78c66f260c4bad5b2d632919fe14307602c8fb4e
https://github.com/galaxyproject/galaxy/commit/78c66f260c4bad5b2d632919fe14…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M test/galaxy_selenium/navigates_galaxy.py
Log Message:
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Wait for logout redirect.
Commit: 9e879b731f27d7b17161c83a60ef559aa529ec63
https://github.com/galaxyproject/galaxy/commit/9e879b731f27d7b17161c83a60ef…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/test_custom_builds.py
Log Message:
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Drop now unused slowrender
Commit: 817a8469b69e37c48e72a081a75d5c734e636624
https://github.com/galaxyproject/galaxy/commit/817a8469b69e37c48e72a081a75d…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-02-04 (Mon, 04 Feb 2019)
Changed paths:
M test/galaxy_selenium/cli.py
M test/galaxy_selenium/driver_factory.py
M test/selenium_tests/framework.py
Log Message:
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Tie chrome native headless mode into existing HEADLESS logic, functioning with or without pyvirtualdisplay.
Commit: 71b01b1be3f70f239fe9114b43eeef87fd9801d9
https://github.com/galaxyproject/galaxy/commit/71b01b1be3f70f239fe9114b43ee…
Author: Aysam Guerler <aysam.guerler(a)gmail.com>
Date: 2019-02-04 (Mon, 04 Feb 2019)
Changed paths:
M test/galaxy_selenium/cli.py
M test/galaxy_selenium/driver_factory.py
M test/galaxy_selenium/navigates_galaxy.py
M test/selenium_tests/framework.py
Log Message:
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Merge pull request #7287 from dannon/slow_selenium_tests
Fix remaining selenium tests and add headless testing option.
Compare: https://github.com/galaxyproject/galaxy/compare/645031578d31...71b01b1be3f7
Branch: refs/heads/release_19.01
Home: https://github.com/galaxyproject/galaxy
Commit: 37a9f2bcea99ea55f7b36b94aa481558702ca897
https://github.com/galaxyproject/galaxy/commit/37a9f2bcea99ea55f7b36b94aa48…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2019-01-07 (Mon, 07 Jan 2019)
Changed paths:
M doc/Makefile
M doc/source/admin/config_logging.rst
Log Message:
-----------
Update logging config docs:
- The example for split file logging was invalid (referenced the
nonexistent "generic" formatter)
- Switch YAML dicts from 4- to 2-space indent to match the indentation
style in galaxy.yml.sample
- Document setting the message format with the YAML config
- Reword a few things to hopefully be a bit clearer
Commit: 79672df45221e4417d2c363bb262c19a2eb48b1f
https://github.com/galaxyproject/galaxy/commit/79672df45221e4417d2c363bb262…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2019-01-09 (Wed, 09 Jan 2019)
Changed paths:
M config/job_conf.xml.sample_advanced
M doc/source/admin/scaling.md
Log Message:
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Update documentation for handler assignment method configurability and
remove some legacy stuff.
Commit: e9773f17335bea2d9106aa364d29f1f53454c883
https://github.com/galaxyproject/galaxy/commit/e9773f17335bea2d9106aa364d29…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2019-01-09 (Wed, 09 Jan 2019)
Changed paths:
M doc/source/admin/config_logging.rst
Log Message:
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Minor spello
Commit: 35c60489e8d52a47e82ae4462dfd7af5ced26f2b
https://github.com/galaxyproject/galaxy/commit/35c60489e8d52a47e82ae4462dfd…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2019-01-09 (Wed, 09 Jan 2019)
Changed paths:
M doc/source/admin/apache.md
M doc/source/admin/nginx.md
Log Message:
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Fixed link to proxy_package_layout in proxy docs
Commit: 9a133e91f84d31e0c4e39c36301a368d66c48508
https://github.com/galaxyproject/galaxy/commit/9a133e91f84d31e0c4e39c36301a…
Author: Nicola Soranzo <nicola.soranzo(a)gmail.com>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M doc/source/admin/scaling.md
Log Message:
-----------
Remove spurious characters
Co-Authored-By: natefoo <nate(a)bx.psu.edu>
Commit: 74fcf12fa0968ef448fecb3f0ff9bd4736f91cd2
https://github.com/galaxyproject/galaxy/commit/74fcf12fa0968ef448fecb3f0ff9…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2019-02-01 (Fri, 01 Feb 2019)
Changed paths:
M doc/source/admin/scaling.md
Log Message:
-----------
Incorporate suggestions from @nsoranzo
Commit: 49cbad5debb649013e142134b3b4ad8361125914
https://github.com/galaxyproject/galaxy/commit/49cbad5debb649013e142134b3b4…
Author: Daniel Blankenberg <dan.blankenberg(a)gmail.com>
Date: 2019-02-02 (Sat, 02 Feb 2019)
Changed paths:
M config/job_conf.xml.sample_advanced
M doc/Makefile
M doc/source/admin/apache.md
M doc/source/admin/config_logging.rst
M doc/source/admin/nginx.md
M doc/source/admin/scaling.md
Log Message:
-----------
Merge pull request #7191 from natefoo/admin-docs-19.01
[19.01] Properly document handler assignment method configuration and fix logging configuration docs
Compare: https://github.com/galaxyproject/galaxy/compare/038d1a1d83fa...49cbad5debb6