Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: ab75fe8a37c4aaef2724bb1746f0fb7bb32c6fab https://github.com/galaxyproject/galaxy/commit/ab75fe8a37c4aaef2724bb1746f0f... Author: Nicola Soranzo nicola.soranzo@earlham.ac.uk Date: 2018-11-12 (Mon, 12 Nov 2018)
Changed paths: M lib/galaxy/dependencies/pipfiles/default/Pipfile M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
Log Message: ----------- Update pysam to v0.15.1
For Python 3.7 compatibility.
Reported by @wm75.
Commit: a53629ebae992e685020676f72cbcb55c954b677 https://github.com/galaxyproject/galaxy/commit/a53629ebae992e685020676f72cbc... Author: Nicola Soranzo nicola.soranzo@earlham.ac.uk Date: 2018-11-13 (Tue, 13 Nov 2018)
Changed paths: M scripts/common_startup.sh
Log Message: ----------- Update virtualenv installation to v16.1.0
which bundles `wheel` 0.32.2.
The old virtualenv 13.1.2 included wheel 0.24.0, where tagging is broken for Python >=3.5, producing tracebacks like:
``` Traceback (most recent call last): File "<string>", line 1, in <module> File "/tmp/pip-install-c53eutpg/uwsgi/setup.py", line 138, in <module> 'Programming Language :: Python :: 3.6', File "/tmp/wheel_venv/lib/python3.7/site-packages/setuptools/__init__.py", line 143, in setup return distutils.core.setup(**attrs) File "/usr/lib/python3.7/distutils/core.py", line 148, in setup dist.run_commands() File "/usr/lib/python3.7/distutils/dist.py", line 966, in run_commands self.run_command(cmd) File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/tmp/wheel_venv/lib/python3.7/site-packages/wheel/bdist_wheel.py", line 213, in run archive_basename = self.get_archive_basename() File "/tmp/wheel_venv/lib/python3.7/site-packages/wheel/bdist_wheel.py", line 161, in get_archive_basename impl_tag, abi_tag, plat_tag = self.get_tag() File "/tmp/wheel_venv/lib/python3.7/site-packages/wheel/bdist_wheel.py", line 155, in get_tag assert tag == supported_tags[0] AssertionError ```
This was fixed in wheel 0.25.0. Reported by @wm75.
Also update `urlretrieve` import for Python 3.
Commit: d88f2b63daa91f1fce1ca161f9a9192ce20a5cd5 https://github.com/galaxyproject/galaxy/commit/d88f2b63daa91f1fce1ca161f9a91... Author: John Chilton jmchilton@gmail.com Date: 2018-11-13 (Tue, 13 Nov 2018)
Changed paths: M lib/galaxy/dependencies/pipfiles/default/Pipfile M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt M scripts/common_startup.sh
Log Message: ----------- Merge pull request #7008 from nsoranzo/python3.7
Fixes for Python 3.7
Compare: https://github.com/galaxyproject/galaxy/compare/0395fcabf083...d88f2b63daa9 **NOTE:** This service has been marked for deprecation: https://developer.github.com/changes/2018-04-25-github-services-deprecation/
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