galaxy-commits April 2016

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[galaxyproject/galaxy] 0ff81d: remove buildbot remnants
by GitHub 11 Apr '16

11 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 0ff81d3dcb85d82e213b970d48cf948402c40e23 https://github.com/galaxyproject/galaxy/commit/0ff81d3dcb85d82e213b970d48cf… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-04-11 (Mon, 11 Apr 2016) Changed paths: R buildbot_setup.sh M test/casperjs/casperjs_runner.py Log Message: ----------- remove buildbot remnants Commit: 03b9f7c372f288a9a4c4e440d892ca8cbf167b57 https://github.com/galaxyproject/galaxy/commit/03b9f7c372f288a9a4c4e440d892… Author: carlfeberhard <carlfeberhard(a)users.noreply.github.com> Date: 2016-04-11 (Mon, 11 Apr 2016) Changed paths: R buildbot_setup.sh M test/casperjs/casperjs_runner.py Log Message: ----------- Merge pull request #2125 from martenson/remove-buildbot remove buildbot remnants Compare: https://github.com/galaxyproject/galaxy/compare/ebb3c1fcec98...03b9f7c372f2

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[galaxyproject/galaxy] 99c2a6: API: add server_starttime to api/configuration
by GitHub 11 Apr '16

11 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 99c2a6b623ef063d9b3611d7b5621b737cbe12ab https://github.com/galaxyproject/galaxy/commit/99c2a6b623ef063d9b3611d7b562… Author: carlfeberhard <carlfeberhard(a)gmail.com> Date: 2016-04-11 (Mon, 11 Apr 2016) Changed paths: M lib/galaxy/managers/configuration.py M lib/galaxy/web/framework/base.py M lib/galaxy/web/framework/helpers/__init__.py Log Message: ----------- API: add server_starttime to api/configuration Adds key server_starttime to the JSON returned from api/configuration. This is the epoch time since the last server restart and may be convenient for use in client-side caching. This moves server_starttime from web/framework/helpers/__init__.py (for use in script cache-busting) to web/framework/base.py. On the client, this should be available to all pages as: Galaxy.config.server_starttime. Commit: ebb3c1fcec988a96f2cd46309096140087ba5aaf https://github.com/galaxyproject/galaxy/commit/ebb3c1fcec988a96f2cd46309096… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-04-11 (Mon, 11 Apr 2016) Changed paths: M lib/galaxy/managers/configuration.py M lib/galaxy/web/framework/base.py M lib/galaxy/web/framework/helpers/__init__.py Log Message: ----------- Merge pull request #2124 from carlfeberhard/config-restart-time API: add server_starttime to api/configuration Compare: https://github.com/galaxyproject/galaxy/compare/bf83b39e0d30...ebb3c1fcec98

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[galaxyproject/galaxy]
by GitHub 11 Apr '16

11 Apr '16

Branch: refs/heads/iuc_default_conda_channel Home: https://github.com/galaxyproject/galaxy

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[galaxyproject/usegalaxy-playbook] 5d10f5: Updated GCC2016 related slides.
by GitHub 09 Apr '16

09 Apr '16

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 5d10f5004185bf142fb1cf85d6247a312357c1a7 https://github.com/galaxyproject/usegalaxy-playbook/commit/5d10f5004185bf14… Author: tnabtaf <clements(a)galaxyproject.org> Date: 2016-04-09 (Sat, 09 Apr 2016) Changed paths: A files/galaxy/common/static/welcome_img/GCC2016May20Deadlines.png A files/galaxy/common/static/welcome_img/GCC2016ScholarshipsDomestic.png M templates/galaxy/common/static/welcome.html.j2 Log Message: ----------- Updated GCC2016 related slides.

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[galaxyproject/galaxy] 265158: fix blocking issue check;
by GitHub 09 Apr '16

09 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 2651587e82e42d159372b86190b1cc8c7463a823 https://github.com/galaxyproject/galaxy/commit/2651587e82e42d159372b86190b1… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M scripts/bootstrap_history.py Log Message: ----------- fix blocking issue check; it would check the issues created by galaxybot before I think Commit: bf83b39e0d308c2c41d8a18c29bf723c00212019 https://github.com/galaxyproject/galaxy/commit/bf83b39e0d308c2c41d8a18c29bf… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M scripts/bootstrap_history.py Log Message: ----------- Merge pull request #2113 from martenson/fix-blocking-issue-check fix blocking issue check Compare: https://github.com/galaxyproject/galaxy/compare/ac789ede75dc...bf83b39e0d30

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[galaxyproject/galaxy] 30f2f5: change run_tool_shed.py to see the file in the cor...
by GitHub 09 Apr '16

09 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 30f2f5d43056fb679dbc228e0cc8801a2c15ef2f https://github.com/galaxyproject/galaxy/commit/30f2f5d43056fb679dbc228e0cc8… Author: nitesh1989 <nitesh.turaga(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M run_tool_shed.sh Log Message: ----------- change run_tool_shed.py to see the file in the correct lcoation Commit: ac789ede75dcb3435c13889617372a13f085765d https://github.com/galaxyproject/galaxy/commit/ac789ede75dcb3435c1388961737… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M run_tool_shed.sh Log Message: ----------- Merge pull request #2121 from nitesh1989/run_tool_shed_fix change run_tool_shed.py to see the file in the correct lcoation Compare: https://github.com/galaxyproject/galaxy/compare/428c30680eb4...ac789ede75dc

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[galaxyproject/galaxy] af4233: Automate and clarify more of the release process.
by GitHub 08 Apr '16

08 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: af42338ecca940a6d40f356a18fd78e6a8c995af https://github.com/galaxyproject/galaxy/commit/af42338ecca940a6d40f356a18fd… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M Makefile M scripts/bootstrap_history.py Log Message: ----------- Automate and clarify more of the release process. upstream is used repeatedly and just assumed to be a remote - this tests for it and adds it if it doesn't exist before using in make commands now. This also automates the previous release to dev merge in the instructions with a new Make command. Additionally, two PRs need to be created to update versions. This prints a reminder to do this and adds it to the release checklist. Ideally, these PRs could be avoided with a direct push or automatically created with hub (https://github.com/github/hub). Commit: 428c30680eb40c6d5456b2b0ce80610642da548f https://github.com/galaxyproject/galaxy/commit/428c30680eb40c6d5456b2b0ce80… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M Makefile M scripts/bootstrap_history.py Log Message: ----------- Merge pull request #2117 from jmchilton/release_improve Automate and clarify more of the release process. Compare: https://github.com/galaxyproject/galaxy/compare/aa69d5007d99...428c30680eb4

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[galaxyproject/galaxy] 579846: Update version to 16.04.rc1
by GitHub 08 Apr '16

08 Apr '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 579846fdfbbb6ca2363d9b79e0ec308f96af120a https://github.com/galaxyproject/galaxy/commit/579846fdfbbb6ca2363d9b79e0ec… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 16.04.rc1 Commit: 5739f25003981b22aac3bc055166390a84e07072 https://github.com/galaxyproject/galaxy/commit/5739f25003981b22aac3bc055166… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 16.07.dev Commit: 986ea22ed770e1876953e5aee780427d71fe698f https://github.com/galaxyproject/galaxy/commit/986ea22ed770e1876953e5aee780… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Log Message: ----------- Merge branch 'version-16.04' into version-16.07.dev Commit: aa69d5007d99c94fedced2646ca8a0e9f18eba54 https://github.com/galaxyproject/galaxy/commit/aa69d5007d99c94fedced2646ca8… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #2119 from jmchilton/version-16.07.dev Version 16.07.dev Compare: https://github.com/galaxyproject/galaxy/compare/f377d069e2aa...aa69d5007d99

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[galaxyproject/galaxy] 579846: Update version to 16.04.rc1
by GitHub 08 Apr '16

08 Apr '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: 579846fdfbbb6ca2363d9b79e0ec308f96af120a https://github.com/galaxyproject/galaxy/commit/579846fdfbbb6ca2363d9b79e0ec… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 16.04.rc1 Commit: abca525bee723fab9027c7fb5554a16b319976ab https://github.com/galaxyproject/galaxy/commit/abca525bee723fab9027c7fb5554… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #2118 from jmchilton/version-16.04 [16.04] Update version to 16.04.rc1 Compare: https://github.com/galaxyproject/galaxy/compare/f377d069e2aa...abca525bee72

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[galaxyproject/usegalaxy-playbook] e1cab2: Pulsar stuff for Jetstream @ TACC and IU
by GitHub 08 Apr '16

08 Apr '16

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: e1cab2530d7cfa772da483e442a3d40b381b91d8 https://github.com/galaxyproject/usegalaxy-playbook/commit/e1cab2530d7cfa77… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2016-04-08 (Fri, 08 Apr 2016) Changed paths: A files/galaxy/test.galaxyproject.org/config/pulsar_jetstream_actions.yml R files/galaxy/test.galaxyproject.org/config/pulsar_jetstream_iu_actions.yml A files/galaxy/test.galaxyproject.org/config/pulsar_jetstream_tacc.yml A files/galaxy/test.galaxyproject.org/dynamic_rules/jetstream.py M stage/group_vars/all.yml M stage/group_vars/galaxyservers.yml M templates/galaxy/test.galaxyproject.org/config/job_conf.xml.j2 Log Message: ----------- Pulsar stuff for Jetstream @ TACC and IU

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galaxy-commits April 2016