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galaxyproject / ephemeris

Library for managing Galaxy plugins - tools, index data, and workflows.
https://ephemeris.readthedocs.org/
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Catch failures on requests to the installed repo list when doing post-timeout spinning on installation in shed-tools #97

Closed natefoo closed 6 years ago

natefoo commented 6 years ago

I was frequently getting stuff like this:

(ephemeris)nate@weyerbacher% shed-tools install -t diffbind-upgrade.yaml -g https://test-installer.galaxyproject.org/ -v
Storing log file in: /tmp/ephemeris_pPBMw4
(1/1) Installing repository diffbind from bgruening to section "peak_calling" at revision c97a786e8fb5 (TRT: 0:00:58.435025)
Timeout during install of diffbind, extending wait to 1h
Traceback (most recent call last):
  File "/home/nate/.virtualenvs/ephemeris/bin/shed-tools", line 11, in <module>
    sys.exit(main())
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/ephemeris/shed_tools.py", line 937, in main
    install_tool_manager.install_repositories()
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/ephemeris/shed_tools.py", line 728, in install_repositories
    success = wait_for_install(repository=repository, tool_shed_client=self.tsc, timeout=3600)
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/ephemeris/shed_tools.py", line 543, in wait_for_install
    finished = install_done(repository, tool_shed_client)
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/ephemeris/shed_tools.py", line 536, in install_done
    installed_repo_list = tool_shed_client.get_repositories()
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/bioblend/galaxy/toolshed/__init__.py", line 36, in get_repositories
    return self._get()
  File "/home/nate/.virtualenvs/ephemeris/local/lib/python2.7/site-packages/bioblend/galaxy/client.py", line 128, in _get
    status_code=r.status_code)
bioblend.ConnectionError: GET: error 502: '<html>\r\n<head><title>502 Bad Gateway</title></head>\r\n<body bgcolor="white">\r\n<center><h1>502 Bad Gateway</h1></center>\r\n<hr><center>nginx/1.12.2</center>\r\n</body>\r\n</html>\r\n', 0 attempts left: <html>
<head><title>502 Bad Gateway</title></head>
<body bgcolor="white">
<center><h1>502 Bad Gateway</h1></center>
<hr><center>nginx/1.12.2</center>
</body>
</html>

(ephemeris)nate@weyerbacher%