Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 46c85ffa986ec2211bbda7be4f90ab579d3fff69 https://github.com/galaxyproject/galaxy/commit/46c85ffa986ec2211bbda7be4f90a... Author: mvdbeek <m.vandenbeek@gmail.com> Date: 2017-09-05 (Tue, 05 Sep 2017) Changed paths: M lib/galaxy/datatypes/sniff.py M lib/galaxy/util/checkers.py M lib/galaxy/util/compression_utils.py M lib/tool_shed/util/commit_util.py M tools/data_source/upload.py Log Message: ----------- Allow working with pbzip2 compressed files This adds supprt for uploading and uncompressing pbzip2 compressed files by exchanging the bz2 module with bz2file (recommended as workaround in https://docs.python.org/2/library/bz2.html). The problem was reported by @alpapan in #4538 and this commit should fix #4538. Depends on https://github.com/galaxyproject/starforge/pull/147 for the bz2file wheel. Commit: 4de0ec59f396868c5b56fb139929672c5ac8c3cd https://github.com/galaxyproject/galaxy/commit/4de0ec59f396868c5b56fb1399296... Author: mvdbeek <m.vandenbeek@gmail.com> Date: 2017-09-05 (Tue, 05 Sep 2017) Changed paths: M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt Log Message: ----------- Add bz2file to list of requirements Commit: cccf79ac5f1d4ef8dcd6d66585b5cc7966847bca https://github.com/galaxyproject/galaxy/commit/cccf79ac5f1d4ef8dcd6d66585b5c... Author: mvdbeek <m.vandenbeek@gmail.com> Date: 2017-09-05 (Tue, 05 Sep 2017) Changed paths: M lib/galaxy/datatypes/sniff.py M lib/galaxy/dependencies/__init__.py M lib/galaxy/dependencies/conditional-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt M lib/galaxy/util/checkers.py M lib/galaxy/util/compression_utils.py M lib/tool_shed/util/commit_util.py M tools/data_source/upload.py Log Message: ----------- Make bz2file dependency conditional on python being below version 3.3 Commit: 8c4716e71d600711021041fc31bc8b02972c24c4 https://github.com/galaxyproject/galaxy/commit/8c4716e71d600711021041fc31bc8... Author: mvdbeek <m.vandenbeek@gmail.com> Date: 2017-09-05 (Tue, 05 Sep 2017) Changed paths: M lib/galaxy/dependencies/__init__.py M lib/galaxy/dependencies/conditional-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt Log Message: ----------- Use environment markers to select bz2file when python is < 3.3 Commit: 486f436e76b0d3c67514a0d676a85002e5b82f1e https://github.com/galaxyproject/galaxy/commit/486f436e76b0d3c67514a0d676a85... Author: Nicola Soranzo <nsoranzo@tiscali.it> Date: 2017-09-06 (Wed, 06 Sep 2017) Changed paths: M lib/galaxy/datatypes/sniff.py M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt M lib/galaxy/util/checkers.py M lib/galaxy/util/compression_utils.py M lib/tool_shed/util/commit_util.py M tools/data_source/upload.py Log Message: ----------- Merge pull request #4559 from mvdbeek/use_bzip2file Allow working with pbzip2 compressed files Compare: https://github.com/galaxyproject/galaxy/compare/3aacbdffd63c...486f436e76b0