April 2018 - galaxy-commits - lists.galaxyproject.org

[galaxyproject/galaxy] cd9db0: Provide ToolDataTableManager for backwards compati...
by GitHub 26 Apr '18

26 Apr '18

Branch: refs/heads/release_18.05 Home: https://github.com/galaxyproject/galaxy Commit: cd9db0bffa68cec4891f38db77af578757d3b63d https://github.com/galaxyproject/galaxy/commit/cd9db0bffa68cec4891f38db77af… Author: mvdbeek <m.vandenbeek(a)gmail.com> Date: 2018-04-19 (Thu, 19 Apr 2018) Changed paths: M lib/tool_shed/tools/data_table_manager.py Log Message: ----------- Provide ToolDataTableManager for backwards compatibility Broken in 7df9dce63d635d66a0a9ce5045135ab49b7ef506 Commit: 1b1962ea490cdf3f7ff97bfc0f570235ef8ad7fc https://github.com/galaxyproject/galaxy/commit/1b1962ea490cdf3f7ff97bfc0f57… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/tool_shed/tools/data_table_manager.py Log Message: ----------- Merge pull request #5924 from mvdbeek/fix_data_managers [18.01] Provide ToolDataTableManager for backwards compatibility Commit: 7d81d2cfcba070558dbb1cb5e7b5be390e797ff3 https://github.com/galaxyproject/galaxy/commit/7d81d2cfcba070558dbb1cb5e7b5… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Fix 2 typos in the docs Commit: d5ec01d5da1dfde88090afec6df958dfa98af21c https://github.com/galaxyproject/galaxy/commit/d5ec01d5da1dfde88090afec6df9… Author: Marius van den Beek <m.vandenbeek(a)gmail.com> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Merge pull request #5986 from nsoranzo/release_17.09_doc_fixes [17.09] Fix 2 typos in the docs Commit: a3e69636662cfeae0ebc1b66fcc03b0b7fe13be8 https://github.com/galaxyproject/galaxy/commit/a3e69636662cfeae0ebc1b66fcc0… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Merge branch 'release_17.09' into release_18.01 Commit: 7ce49394c3a73fc64e23603ffcab8f39ff3159a0 https://github.com/galaxyproject/galaxy/commit/7ce49394c3a73fc64e23603ffcab… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md M lib/tool_shed/tools/data_table_manager.py Log Message: ----------- Merge branch 'release_18.01' into release_18.05 Compare: https://github.com/galaxyproject/galaxy/compare/dbb08fe76206...7ce49394c3a7

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[galaxyproject/galaxy] 7d81d2: Fix 2 typos in the docs
by GitHub 26 Apr '18

26 Apr '18

Branch: refs/heads/release_18.01 Home: https://github.com/galaxyproject/galaxy Commit: 7d81d2cfcba070558dbb1cb5e7b5be390e797ff3 https://github.com/galaxyproject/galaxy/commit/7d81d2cfcba070558dbb1cb5e7b5… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Fix 2 typos in the docs Commit: d5ec01d5da1dfde88090afec6df958dfa98af21c https://github.com/galaxyproject/galaxy/commit/d5ec01d5da1dfde88090afec6df9… Author: Marius van den Beek <m.vandenbeek(a)gmail.com> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Merge pull request #5986 from nsoranzo/release_17.09_doc_fixes [17.09] Fix 2 typos in the docs Commit: a3e69636662cfeae0ebc1b66fcc03b0b7fe13be8 https://github.com/galaxyproject/galaxy/commit/a3e69636662cfeae0ebc1b66fcc0… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Merge branch 'release_17.09' into release_18.01 Compare: https://github.com/galaxyproject/galaxy/compare/1b1962ea490c...a3e69636662c

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[galaxyproject/galaxy] 7d81d2: Fix 2 typos in the docs
by GitHub 26 Apr '18

26 Apr '18

Branch: refs/heads/release_17.09 Home: https://github.com/galaxyproject/galaxy Commit: 7d81d2cfcba070558dbb1cb5e7b5be390e797ff3 https://github.com/galaxyproject/galaxy/commit/7d81d2cfcba070558dbb1cb5e7b5… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Fix 2 typos in the docs Commit: d5ec01d5da1dfde88090afec6df958dfa98af21c https://github.com/galaxyproject/galaxy/commit/d5ec01d5da1dfde88090afec6df9… Author: Marius van den Beek <m.vandenbeek(a)gmail.com> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M config/local_conda_mapping.yml.sample M doc/source/admin/cluster.md Log Message: ----------- Merge pull request #5986 from nsoranzo/release_17.09_doc_fixes [17.09] Fix 2 typos in the docs Compare: https://github.com/galaxyproject/galaxy/compare/8e6cdd73aa4d...d5ec01d5da1d

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[galaxyproject/usegalaxy-playbook] fc764f: Test: collect cgroup metrics
by GitHub 26 Apr '18

26 Apr '18

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: fc764f5d40d1b46e5fc45b67d365b3c90682c672 https://github.com/galaxyproject/usegalaxy-playbook/commit/fc764f5d40d1b46e… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2018-04-26 (Thu, 26 Apr 2018) Changed paths: M env/test/files/galaxy/config/job_metrics_conf.xml Log Message: ----------- Test: collect cgroup metrics

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[galaxyproject/usegalaxy-playbook] 2da245: update Test
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 2da245b487e90bf91dc67f284d895582b2e95ef7 https://github.com/galaxyproject/usegalaxy-playbook/commit/2da245b487e90bf9… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M env/test/files/galaxy/galaxy_version.yml Log Message: ----------- update Test

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[galaxyproject/galaxy] cd9db0: Provide ToolDataTableManager for backwards compati...
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/release_18.01 Home: https://github.com/galaxyproject/galaxy Commit: cd9db0bffa68cec4891f38db77af578757d3b63d https://github.com/galaxyproject/galaxy/commit/cd9db0bffa68cec4891f38db77af… Author: mvdbeek <m.vandenbeek(a)gmail.com> Date: 2018-04-19 (Thu, 19 Apr 2018) Changed paths: M lib/tool_shed/tools/data_table_manager.py Log Message: ----------- Provide ToolDataTableManager for backwards compatibility Broken in 7df9dce63d635d66a0a9ce5045135ab49b7ef506 Commit: 1b1962ea490cdf3f7ff97bfc0f570235ef8ad7fc https://github.com/galaxyproject/galaxy/commit/1b1962ea490cdf3f7ff97bfc0f57… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/tool_shed/tools/data_table_manager.py Log Message: ----------- Merge pull request #5924 from mvdbeek/fix_data_managers [18.01] Provide ToolDataTableManager for backwards compatibility Compare: https://github.com/galaxyproject/galaxy/compare/e68eaeecbf66...1b1962ea490c

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[galaxyproject/galaxy] 8d4666: Update version to 18.05.rc1
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/release_18.05 Home: https://github.com/galaxyproject/galaxy Commit: 8d4666578d4dc2c0374ef105659d69931efa1f4e https://github.com/galaxyproject/galaxy/commit/8d4666578d4dc2c0374ef105659d… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 18.05.rc1 Commit: dbb08fe7620610812189049481740215c12f9eb6 https://github.com/galaxyproject/galaxy/commit/dbb08fe762061081218904948174… Author: Dannon <dannon.baker(a)gmail.com> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #5980 from martenson/version-18.05 [18.05] Update version to 18.05.rc1 Compare: https://github.com/galaxyproject/galaxy/compare/c41c84eec6e8...dbb08fe76206

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[galaxyproject/galaxy] 8d4666: Update version to 18.05.rc1
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 8d4666578d4dc2c0374ef105659d69931efa1f4e https://github.com/galaxyproject/galaxy/commit/8d4666578d4dc2c0374ef105659d… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 18.05.rc1 Commit: 53e67733660a8061a31de1a2a867e46e35fa2465 https://github.com/galaxyproject/galaxy/commit/53e67733660a8061a31de1a2a867… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/galaxy/version.py Log Message: ----------- Update version to 18.09.dev Commit: 8b51c30aa7c1e7ea711e22f81a4156ea1bcda769 https://github.com/galaxyproject/galaxy/commit/8b51c30aa7c1e7ea711e22f81a41… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Log Message: ----------- Merge branch 'version-18.05' into version-18.09.dev Commit: 7580a28b39175c221525abf74c0438a89b59f13f https://github.com/galaxyproject/galaxy/commit/7580a28b39175c221525abf74c04… Author: Dannon <dannon.baker(a)gmail.com> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M lib/galaxy/version.py Log Message: ----------- Merge pull request #5982 from martenson/version-18.09.dev start Version 18.09.dev Compare: https://github.com/galaxyproject/galaxy/compare/c41c84eec6e8...7580a28b3917

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[galaxyproject/galaxy] e58034: Correct examples in dynamic job conf doc, remove h...
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: e58034b9876d4fb148049b9cc56a7a99473a7531 https://github.com/galaxyproject/galaxy/commit/e58034b9876d4fb148049b9cc56a… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Correct examples in dynamic job conf doc, remove handlers section from basic sample job config (defining a single default handler is no longer needed). Fixes #5976. Commit: e68eaeecbf6641d48487b130988b012bcd2202ca https://github.com/galaxyproject/galaxy/commit/e68eaeecbf6641d48487b130988b… Author: Dannon <dannon.baker(a)gmail.com> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Merge pull request #5981 from natefoo/job-doc-fixes [18.01] Minor Job documentation corrections Commit: c41c84eec6e8cfc6291dd85ce58ba4b34b394bb1 https://github.com/galaxyproject/galaxy/commit/c41c84eec6e8cfc6291dd85ce58b… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Merge branch 'release_18.01' into release_18.05 Compare: https://github.com/galaxyproject/galaxy/compare/c1e5fb829016...c41c84eec6e8

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[galaxyproject/galaxy] e58034: Correct examples in dynamic job conf doc, remove h...
by GitHub 25 Apr '18

25 Apr '18

Branch: refs/heads/release_18.05 Home: https://github.com/galaxyproject/galaxy Commit: e58034b9876d4fb148049b9cc56a7a99473a7531 https://github.com/galaxyproject/galaxy/commit/e58034b9876d4fb148049b9cc56a… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Correct examples in dynamic job conf doc, remove handlers section from basic sample job config (defining a single default handler is no longer needed). Fixes #5976. Commit: e68eaeecbf6641d48487b130988b012bcd2202ca https://github.com/galaxyproject/galaxy/commit/e68eaeecbf6641d48487b130988b… Author: Dannon <dannon.baker(a)gmail.com> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Merge pull request #5981 from natefoo/job-doc-fixes [18.01] Minor Job documentation corrections Commit: c41c84eec6e8cfc6291dd85ce58ba4b34b394bb1 https://github.com/galaxyproject/galaxy/commit/c41c84eec6e8cfc6291dd85ce58b… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2018-04-25 (Wed, 25 Apr 2018) Changed paths: M config/job_conf.xml.sample_basic M doc/source/admin/jobs.md Log Message: ----------- Merge branch 'release_18.01' into release_18.05 Compare: https://github.com/galaxyproject/galaxy/compare/c1e5fb829016...c41c84eec6e8

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