Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: a3ff1297435721d3f687052382b75a2a2f2f9b25 https://github.com/galaxyproject/galaxy/commit/a3ff1297435721d3f687052382b75... Author: mvdbeek m.vandenbeek@gmail.com Date: 2017-09-19 (Tue, 19 Sep 2017)

Changed paths: M lib/galaxy/jobs/__init__.py

Log Message: ----------- Explicitly write registry.xml when creating a job for the upload tool

Commit: d980dfa162b340423ffd8822ac9dcdf6f1997e80 https://github.com/galaxyproject/galaxy/commit/d980dfa162b340423ffd8822ac9dc... Author: mvdbeek m.vandenbeek@gmail.com Date: 2017-09-19 (Tue, 19 Sep 2017)

Changed paths: M lib/galaxy/jobs/__init__.py

Log Message: ----------- Write registry.xml for all tools that require galaxy's python env

This should cover the upload and data_source tools.

Commit: b7b3ffb1813f31b7811bdbb35602743294356f66 https://github.com/galaxyproject/galaxy/commit/b7b3ffb1813f31b7811bdbb356027... Author: mvdbeek m.vandenbeek@gmail.com Date: 2017-09-19 (Tue, 19 Sep 2017)

Changed paths: M test/unit/jobs/test_job_wrapper.py

Log Message: ----------- Fix unit test failure

Commit: 7fd6813dd7fcf373cc09a3da6fd6f4bf5c8b0863 https://github.com/galaxyproject/galaxy/commit/7fd6813dd7fcf373cc09a3da6fd6f... Author: Martin Cech marten@bx.psu.edu Date: 2017-09-19 (Tue, 19 Sep 2017)

Changed paths: M tox.ini

Log Message: ----------- pin flake8 deps for release

Commit: a25b6e5b0eb5ed97e789e1b4b8643be775a55e05 https://github.com/galaxyproject/galaxy/commit/a25b6e5b0eb5ed97e789e1b4b8643... Author: John Chilton jmchilton@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

Commit: f46a5c1797fb4c1f3fc663addf83ce9a411beac6 https://github.com/galaxyproject/galaxy/commit/f46a5c1797fb4c1f3fc663addf83c... Author: John Chilton jmchilton@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

Commit: ee6b8b1af8c997d874a9ad7213231582b69cf82c https://github.com/galaxyproject/galaxy/commit/ee6b8b1af8c997d874a9ad7213231... Author: Martin Cech marten@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/0e89935460a54fa846dff53041fcf... Author: Nicola Soranzo nsoranzo@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

Commit: 5404f7cda7ca4f3b9a2c423bdd29898fb7d8c911 https://github.com/galaxyproject/galaxy/commit/5404f7cda7ca4f3b9a2c423bdd298... Author: Dannon Baker dannon.baker@gmail.com Date: 2017-09-20 (Wed, 20 Sep 2017)

Changed paths: M templates/display_base.mako M templates/display_common.mako

Log Message: ----------- Small (temporary, mako is going away) layer to support modern routes in old display_base pages (workflow, history, etc).

Commit: 69a87003f70e3925554fcc88fd2080edab619ed1 https://github.com/galaxyproject/galaxy/commit/69a87003f70e3925554fcc88fd208... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-20 (Wed, 20 Sep 2017)

Changed paths: M lib/galaxy/tools/deps/resolvers/modules.py

Log Message: ----------- Fix modules resolver (addition of the resolver_msg property on the base class references name and version attributes that were not defined in the ModuleDependecy).

Commit: c9aead91d75a1e0e636cf08ba725a8c2f8ff300a https://github.com/galaxyproject/galaxy/commit/c9aead91d75a1e0e636cf08ba725a... Author: John Chilton jmchilton@gmail.com Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M templates/display_base.mako M templates/display_common.mako

Log Message: ----------- Merge pull request #4656 from dannon/display_link_fixes

[17.09] Fix links on workflow, history items.

Commit: 5d7b524b5785fcb483dbc7381c871595a070b1b0 https://github.com/galaxyproject/galaxy/commit/5d7b524b5785fcb483dbc7381c871... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/jobs/__init__.py M test/unit/jobs/test_job_wrapper.py

Log Message: ----------- Merge pull request #4644 from mvdbeek/upload_tool_registry_xml_failure

[17.05] BUG: Explicitly write registry.xml when creating a job for the upload tool

Commit: 2ffeedfa723cae9252bda2098918df82daf9cf41 https://github.com/galaxyproject/galaxy/commit/2ffeedfa723cae9252bda2098918d... Author: Nicola Soranzo nsoranzo@tiscali.it Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/tools/deps/resolvers/modules.py

Log Message: ----------- Merge pull request #4663 from natefoo/fix-modules-resolver

[16.07] Fix modules resolver

Commit: e178879c0f9f4351bf0270f1602a60d660a4da04 https://github.com/galaxyproject/galaxy/commit/e178879c0f9f4351bf0270f1602a6... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/tools/deps/resolvers/modules.py

Log Message: ----------- Merge branch 'release_16.07' into release_16.10

Commit: 706a5b2cd2bdac4c30a5b4d86aaf73a9e4ffa291 https://github.com/galaxyproject/galaxy/commit/706a5b2cd2bdac4c30a5b4d86aaf7... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/tools/deps/resolvers/modules.py

Log Message: ----------- Merge branch 'release_16.10' into release_17.01

Commit: cfabe37d69549e919d3fce15cbcca108fdcf1597 https://github.com/galaxyproject/galaxy/commit/cfabe37d69549e919d3fce15cbcca... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/tools/deps/resolvers/modules.py

Log Message: ----------- Merge branch 'release_17.01' into release_17.05

Commit: 4dbadc26e4bb4e40ca04ef746247abc504e98ca2 https://github.com/galaxyproject/galaxy/commit/4dbadc26e4bb4e40ca04ef746247a... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/jobs/__init__.py M lib/galaxy/tools/deps/resolvers/modules.py M test/unit/jobs/test_job_wrapper.py

Log Message: ----------- Merge branch 'release_17.05' into release_17.09

Commit: 41b13f6d855180746576a40e0e209333746a4a8a https://github.com/galaxyproject/galaxy/commit/41b13f6d855180746576a40e0e209... Author: Nate Coraor nate@bx.psu.edu Date: 2017-09-21 (Thu, 21 Sep 2017)

Changed paths: M lib/galaxy/jobs/__init__.py M lib/galaxy/tools/deps/resolvers/modules.py M templates/display_base.mako M templates/display_common.mako M test/unit/jobs/test_job_wrapper.py M tox.ini

Log Message: ----------- Merge branch 'release_17.09' into dev

Compare: https://github.com/galaxyproject/galaxy/compare/00677fc0f62c...41b13f6d8551