September 2017 - galaxy-commits - lists.galaxyproject.org

[galaxyproject/usegalaxy-playbook] 899d7d: Convert Test job_conf.xml to use macros.
by GitHub 21 Sep '17

21 Sep '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 899d7d6e59e3592c0de322460b0364195bfe6b09 https://github.com/galaxyproject/usegalaxy-playbook/commit/899d7d6e59e3592c… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-09-21 (Thu, 21 Sep 2017) Changed paths: M env/common/files/galaxy/dynamic_rules/bridges_select.py M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py M env/common/files/galaxy/dynamic_rules/reserved.py M env/test/files/galaxy/config/job_resource_params_conf.xml M env/test/group_vars/all.yml M env/test/group_vars/galaxyservers/vars.yml M env/test/templates/galaxy/config/job_conf.xml.j2 Log Message: ----------- Convert Test job_conf.xml to use macros.

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[galaxyproject/usegalaxy-playbook] 9107dd: Fix version fact handling and update Test
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 9107dd7da5f37f0eff09ef8d74242336287f808a https://github.com/galaxyproject/usegalaxy-playbook/commit/9107dd7da5f37f0e… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: M env/test/files/galaxy/galaxy_version.yml M roles/usegalaxy_cvmfs/tasks/update.yml Log Message: ----------- Fix version fact handling and update Test

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[galaxyproject/usegalaxy-playbook] a1ffe3: Set $GALAXY_VIRTUAL_ENV on Bridges
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: a1ffe39ec0801b596661dd0a465bc23fdc02659e https://github.com/galaxyproject/usegalaxy-playbook/commit/a1ffe39ec0801b59… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: M env/test/templates/galaxy/config/job_conf.xml.j2 Log Message: ----------- Set $GALAXY_VIRTUAL_ENV on Bridges

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[galaxyproject/usegalaxy-playbook] a4fa5e: usegalaxy CVMFS role enhancements:
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: a4fa5ea2962d0722ad99e5342fc17abae7ef7743 https://github.com/galaxyproject/usegalaxy-playbook/commit/a4fa5ea2962d0722… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: A roles/usegalaxy_cvmfs/defaults/main.yml M roles/usegalaxy_cvmfs/tasks/update.yml Log Message: ----------- usegalaxy CVMFS role enhancements: - Check for running docker containers, fail if there are any - Get latest branch HEAD version from Github so we don't have to transaction/pull/abort if there are no changes - Use Ansible blocks to abort the transaction on failure Commit: 9a817b65c1a21d39be2bb593809efade760a3d89 https://github.com/galaxyproject/usegalaxy-playbook/commit/9a817b65c1a21d39… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: M env/test/files/galaxy/galaxy_version.yml M env/test/group_vars/all.yml M env/test/host_vars/br005.bridges.psc.edu.yml Log Message: ----------- Update Test to a branch of mine for testing pending Pulsar changes in a production environment. Compare: https://github.com/galaxyproject/usegalaxy-playbook/compare/d004b3540989...…

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[galaxyproject/galaxy] 6b25b4: Remove unused export base mako
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 6b25b44394f3626ddc22356d2105eb259e88a303 https://github.com/galaxyproject/galaxy/commit/6b25b44394f3626ddc22356d2105… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: R templates/export_base.mako Log Message: ----------- Remove unused export base mako Commit: a25a76ab6a7f2919c277674b89543075aa93eecc https://github.com/galaxyproject/galaxy/commit/a25a76ab6a7f2919c277674b8954… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: R templates/export_base.mako Log Message: ----------- Merge pull request #4661 from guerler/remove_export_base Remove unused export base mako Compare: https://github.com/galaxyproject/galaxy/compare/907228928f02...a25a76ab6a7f

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[galaxyproject/usegalaxy-playbook] d004b3: update Test
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: d004b3540989fc6e3b196bdbfc9ef483e4475a75 https://github.com/galaxyproject/usegalaxy-playbook/commit/d004b3540989fc6e… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: M common_roles M env/test/files/galaxy/galaxy_version.yml A stage/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample Log Message: ----------- update Test

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[galaxyproject/galaxy] ee6b8b: pin the last flake8
by GitHub 20 Sep '17

20 Sep '17

Branch: refs/heads/release_17.09 Home: https://github.com/galaxyproject/galaxy Commit: ee6b8b1af8c997d874a9ad7213231582b69cf82c https://github.com/galaxyproject/galaxy/commit/ee6b8b1af8c997d874a9ad721323… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M tox.ini Log Message: ----------- pin the last flake8 thanks @nsoranzo :eagle: :eyes: Commit: 0e89935460a54fa846dff53041fcfe3b8e7e9ecd https://github.com/galaxyproject/galaxy/commit/0e89935460a54fa846dff53041fc… Author: Nicola Soranzo <nsoranzo(a)tiscali.it> Date: 2017-09-20 (Wed, 20 Sep 2017) Changed paths: M tox.ini Log Message: ----------- Merge pull request #4652 from martenson/release_17.09 [17.09] pin the last missing flake8 Compare: https://github.com/galaxyproject/galaxy/compare/f46a5c1797fb...0e89935460a5

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[galaxyproject/galaxy] 7fd681: pin flake8 deps for release
by GitHub 19 Sep '17

19 Sep '17

Branch: refs/heads/release_17.09 Home: https://github.com/galaxyproject/galaxy Commit: 7fd6813dd7fcf373cc09a3da6fd6f4bf5c8b0863 https://github.com/galaxyproject/galaxy/commit/7fd6813dd7fcf373cc09a3da6fd6… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M tox.ini Log Message: ----------- pin flake8 deps for release Commit: f46a5c1797fb4c1f3fc663addf83ce9a411beac6 https://github.com/galaxyproject/galaxy/commit/f46a5c1797fb4c1f3fc663addf83… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M tox.ini Log Message: ----------- Merge pull request #4650 from martenson/release_17.09 [17.09] pin flake8 deps for release Compare: https://github.com/galaxyproject/galaxy/compare/a25b6e5b0eb5...f46a5c1797fb

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[galaxyproject/galaxy] eee4a1: Update version to 17.09.rc1
by GitHub 19 Sep '17

19 Sep '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: eee4a17a4cb45b6d79e610c00cbdf37df0988993 https://github.com/galaxyproject/galaxy/commit/eee4a17a4cb45b6d79e610c00cbd… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 17.09.rc1 Commit: b7694ef656613400694183eb9e72f16ef2a207fe https://github.com/galaxyproject/galaxy/commit/b7694ef656613400694183eb9e72… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 18.01.dev Commit: 6ea93b19e5a6f86b08c7459337288ac9862537ff https://github.com/galaxyproject/galaxy/commit/6ea93b19e5a6f86b08c745933728… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Log Message: ----------- Merge branch 'version-17.09' into version-18.01.dev Commit: 907228928f02d12bead54a883bd8cc50ebbeb386 https://github.com/galaxyproject/galaxy/commit/907228928f02d12bead54a883bd8… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #4649 from martenson/version-18.01.dev Update version to 18.01.dev Compare: https://github.com/galaxyproject/galaxy/compare/f15405877601...907228928f02

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[galaxyproject/galaxy] eee4a1: Update version to 17.09.rc1
by GitHub 19 Sep '17

19 Sep '17

Branch: refs/heads/release_17.09 Home: https://github.com/galaxyproject/galaxy Commit: eee4a17a4cb45b6d79e610c00cbdf37df0988993 https://github.com/galaxyproject/galaxy/commit/eee4a17a4cb45b6d79e610c00cbd… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 17.09.rc1 Commit: a25b6e5b0eb5ed97e789e1b4b8643be775a55e05 https://github.com/galaxyproject/galaxy/commit/a25b6e5b0eb5ed97e789e1b4b864… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-09-19 (Tue, 19 Sep 2017) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #4648 from martenson/version-17.09 [17.09]Update version to 17.09.rc1 Compare: https://github.com/galaxyproject/galaxy/compare/f15405877601...a25b6e5b0eb5

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