galaxy-commits December 2015

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[galaxyproject/usegalaxy-playbook] 59fef6: update Main mutable confs
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 59fef64f85fd25aedc35710a3337297794ac4a05 https://github.com/galaxyproject/usegalaxy-playbook/commit/59fef64f85fd25ae… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml M files/galaxy/usegalaxy.org/var/shed_tool_conf.xml Log Message: ----------- update Main mutable confs

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[galaxyproject/usegalaxy-playbook] b0743a: update Main mutable confs
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: b0743a95d286828ae6eca9c6abc7b5c7e1d3682b https://github.com/galaxyproject/usegalaxy-playbook/commit/b0743a95d286828a… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml M files/galaxy/usegalaxy.org/var/shed_tool_conf.xml M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml Log Message: ----------- update Main mutable confs

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[galaxyproject/usegalaxy-playbook] e5a779: Main update mutable confs
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: e5a779b61c3fb51e86dad05ee1e91a8841898558 https://github.com/galaxyproject/usegalaxy-playbook/commit/e5a779b61c3fb51e… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml M files/galaxy/usegalaxy.org/var/shed_tool_conf.xml Log Message: ----------- Main update mutable confs

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[galaxyproject/usegalaxy-playbook] 35058f: move main tools around sections
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 35058f835809ba215f613a3b159f86af8134d185 https://github.com/galaxyproject/usegalaxy-playbook/commit/35058f835809ba21… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/config/tool_conf.xml Log Message: ----------- move main tools around sections

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[galaxyproject/usegalaxy-playbook] 4706a8: update Main mutable confs
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 4706a84ce7e6e858d3c77387e105792e50f2d0db https://github.com/galaxyproject/usegalaxy-playbook/commit/4706a84ce7e6e858… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml M files/galaxy/usegalaxy.org/var/migrated_tools_conf.xml Log Message: ----------- update Main mutable confs

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[galaxyproject/usegalaxy-playbook] 688fc9: move main tools between sections
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 688fc971afab94a363a02c9e569e5f6731cfa015 https://github.com/galaxyproject/usegalaxy-playbook/commit/688fc971afab94a3… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/config/tool_conf.xml Log Message: ----------- move main tools between sections

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[galaxyproject/galaxy] 43e384: --pre does not exist on pip < 1.4, but on pip < 1....
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 43e38414e6770b447d9de19450f2fe738a07f471 https://github.com/galaxyproject/galaxy/commit/43e38414e6770b447d9de19450f2… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M scripts/common_startup.sh Log Message: ----------- --pre does not exist on pip < 1.4, but on pip < 1.4, the default behavior was the same as using --pre on pip >= 1.4. Therefore, detect the version of pip and add --pre if necessary. Fixes #1134 Commit: 6678544caa7bc5a415984fae448826aefc1ec6ea https://github.com/galaxyproject/galaxy/commit/6678544caa7bc5a415984fae4488… Author: John Chilton <jmchilton(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M scripts/common_startup.sh Log Message: ----------- Merge pull request #1372 from natefoo/pip-pre-fix Fix usage of --pre with pip < 1.4 Compare: https://github.com/galaxyproject/galaxy/compare/6ed3ceafed73...6678544caa7b

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[galaxyproject/galaxy] 04f5ed: Reimplement menu onclick functionality that appear...
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 04f5ed4552d5b0b837eabded18704eeda5cc8c26 https://github.com/galaxyproject/galaxy/commit/04f5ed4552d5b0b837eabded1870… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2015-12-17 (Thu, 17 Dec 2015) Changed paths: M client/galaxy/scripts/layout/menu.js M static/maps/layout/menu.js.map M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/libs.bundled.js.map M static/scripts/layout/menu.js Log Message: ----------- Reimplement menu onclick functionality that appears to have been dropped (probably a bad merge?) in the webpack PR. Commit: 6ed3ceafed73ace54537f79a72caec02ef798cbb https://github.com/galaxyproject/galaxy/commit/6ed3ceafed73ace54537f79a72ca… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M client/galaxy/scripts/layout/menu.js M static/maps/layout/menu.js.map M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/libs.bundled.js.map M static/scripts/layout/menu.js Log Message: ----------- Merge pull request #1365 from dannon/redo_click Reimplement menu onclick functionality that appears to have been drop… Compare: https://github.com/galaxyproject/galaxy/compare/cced5c337893...6ed3ceafed73

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[galaxyproject/usegalaxy-playbook] 5529c2: Main mutable confs
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 5529c2b40eff91770293ac45601d3af5543c68fc https://github.com/galaxyproject/usegalaxy-playbook/commit/5529c2b40eff9177… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml Log Message: ----------- Main mutable confs

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[galaxyproject/usegalaxy-playbook] a865ac: introduce DEPRECATED section and put GATK there
by GitHub 18 Dec '15

18 Dec '15

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: a865ac6a63c08b44a364d2748619e447958f6a46 https://github.com/galaxyproject/usegalaxy-playbook/commit/a865ac6a63c08b44… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2015-12-18 (Fri, 18 Dec 2015) Changed paths: M files/galaxy/usegalaxy.org/config/tool_conf.xml Log Message: ----------- introduce DEPRECATED section and put GATK there

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galaxy-commits December 2015