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

[galaxyproject/galaxy] 487506: Fix automatic handling of Jenkins BUILD_NUMBER in ...
by GitHub 01 Jan '17

01 Jan '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 487506cc79d105f318f6a03e7a6f397ae765b9e8 https://github.com/galaxyproject/galaxy/commit/487506cc79d105f318f6a03e7a6f… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-12-26 (Mon, 26 Dec 2016) Changed paths: M run_tests.sh Log Message: ----------- Fix automatic handling of Jenkins BUILD_NUMBER in Dockerized tests. Follow up #3368, this fix is also needed. I think we are getting closer... xref #3199 xref #3360 Commit: 29e5bd4915f8ff7128e1740723c4c9bb66c665d0 https://github.com/galaxyproject/galaxy/commit/29e5bd4915f8ff7128e1740723c4… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2017-01-01 (Sun, 01 Jan 2017) Changed paths: M run_tests.sh Log Message: ----------- Merge pull request #3370 from jmchilton/integration_tests_2 Fix automatic handling of Jenkins BUILD_NUMBER in Dockerized tests. Compare: https://github.com/galaxyproject/galaxy/compare/408254f93528...29e5bd4915f8

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[galaxyproject/galaxy] 74dfcd: cache deps on the fly when first used
by GitHub 01 Jan '17

01 Jan '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 74dfcd32891b5a24b9c255097f780143cc28a104 https://github.com/galaxyproject/galaxy/commit/74dfcd32891b5a24b9c255097f78… Author: Anthony Bretaudeau <anthony.bretaudeau(a)inria.fr> Date: 2016-12-21 (Wed, 21 Dec 2016) Changed paths: M lib/galaxy/tools/deps/__init__.py Log Message: ----------- cache deps on the fly when first used Commit: 9dbe766e42d3c22d09c5809823b8fec144ac5966 https://github.com/galaxyproject/galaxy/commit/9dbe766e42d3c22d09c5809823b8… Author: Anthony Bretaudeau <anthony.bretaudeau(a)inria.fr> Date: 2016-12-21 (Wed, 21 Dec 2016) Changed paths: M config/galaxy.ini.sample M lib/galaxy/config.py M lib/galaxy/tools/deps/__init__.py Log Message: ----------- add build_cache_on_first_run option Commit: 26ba67083ca8bbf33134a6caa032792a1d27f907 https://github.com/galaxyproject/galaxy/commit/26ba67083ca8bbf33134a6caa032… Author: Anthony Bretaudeau <anthony.bretaudeau(a)inria.fr> Date: 2016-12-21 (Wed, 21 Dec 2016) Changed paths: M lib/galaxy/tools/deps/__init__.py Log Message: ----------- make travis happy Commit: 1a0dde830c3e9f33a02564d824fe0c468b5724cf https://github.com/galaxyproject/galaxy/commit/1a0dde830c3e9f33a02564d824fe… Author: Anthony Bretaudeau <anthony.bretaudeau(a)inria.fr> Date: 2016-12-22 (Thu, 22 Dec 2016) Changed paths: M config/galaxy.ini.sample M lib/galaxy/config.py M lib/galaxy/tools/deps/__init__.py Log Message: ----------- change option name and default value Commit: 408254f935288e8a1be007de3b633285e5ac61a7 https://github.com/galaxyproject/galaxy/commit/408254f935288e8a1be007de3b63… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2017-01-01 (Sun, 01 Jan 2017) Changed paths: M config/galaxy.ini.sample M lib/galaxy/config.py M lib/galaxy/tools/deps/__init__.py Log Message: ----------- Merge pull request #3348 from abretaud/fill_cache Cache depencencies on the fly when first used Compare: https://github.com/galaxyproject/galaxy/compare/9654618a0afd...408254f93528

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[galaxyproject/galaxy] 52e4b6: Remove seemingly unused file sort_gtf.py.
by GitHub 01 Jan '17

01 Jan '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 52e4b6e89e862ce2a9e3897782a0836272be6581 https://github.com/galaxyproject/galaxy/commit/52e4b6e89e862ce2a9e3897782a0… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-12-23 (Fri, 23 Dec 2016) Changed paths: R tools/filters/gff/sort_gtf.py Log Message: ----------- Remove seemingly unused file sort_gtf.py. Added in df28aec040f05f2d97856f5d8c4f07ba2a7e1966 - not used in that commit. Commit: 9654618a0afdaa1e5c6fd63a627800a6025a7bfa https://github.com/galaxyproject/galaxy/commit/9654618a0afdaa1e5c6fd63a6278… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2017-01-01 (Sun, 01 Jan 2017) Changed paths: R tools/filters/gff/sort_gtf.py Log Message: ----------- Merge pull request #3362 from jmchilton/remove_sort Remove seemingly unused file sort_gtf.py. Compare: https://github.com/galaxyproject/galaxy/compare/bb80c842777e...9654618a0afd

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[galaxyproject/galaxy] e350c8: Use a newer conda version by default
by GitHub 01 Jan '17

01 Jan '17

Branch: refs/heads/upgrade_conda Home: https://github.com/galaxyproject/galaxy Commit: e350c8b0517410e65f82e0c1276ef727ac6ae0ec https://github.com/galaxyproject/galaxy/commit/e350c8b0517410e65f82e0c1276e… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2017-01-01 (Sun, 01 Jan 2017) Changed paths: M lib/galaxy/tools/deps/conda_util.py Log Message: ----------- Use a newer conda version by default

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