Galaxy production server virtualenv

Question: Galaxy production server virtualenv

14 months ago by

jasperkoehorst • 10

Netherlands

jasperkoehorst • 10 wrote:

I might have found a solution: https://github.com/galaxyproject/galaxy-hub/pull/309

I am trying to set up galaxy according to the production server page:

https://galaxyproject.org/admin/config/performance/production-server/

It immeadiatly goes wrong at the second step:

nate@weyerbacher% wget http://bitbucket.org/ianb/virtualenv/raw/tip/virtualenv.py nate@weyerbacher% /usr/bin/python2.7 virtualenv.py --no-site-packages galaxy_env

I get a long error list regarding the virtual env. But I also realised that this code tip is from 2011? Is this still correct?

New python executable in galaxy_env/bin/python2.7
Not overwriting existing python script galaxy_env/bin/python (you must use galaxy_env/bin/python2.7)
Installing setuptools............................................
  Complete output from command /home/galaxy/galaxy_env/bin/python2.7 -c "#!python
\"\"\"Bootstrap setuptoo...




" --always-copy -U setuptools:
  Downloading http://pypi.python.org/packages/2.7/s/setuptools/setuptools-0.6c11-py2.7.egg
Searching for setuptools
Reading http://pypi.python.org/simple/setuptools/
Best match: setuptools 36.5.0
Downloading https://pypi.python.org/packages/a4/c8/9a7a47f683d54d83f648d37c3e180317f80dc126a304c45dc6663246233a/setuptools-36.5.0.zip#md5=704f500dd55f4bd0be905444f3ba892c
Processing setuptools-36.5.0.zip
Running setuptools-36.5.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-0SwZTb/setuptools-36.5.0/egg-dist-tmp-gHdhr1
/usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'long_description_content_type'
  warnings.warn(msg)
/usr/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'src_root'
  warnings.warn(msg)
Traceback (most recent call last):
  File "<string>", line 278, in <module>
  File "<string>", line 213, in main
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 1712, in main
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 1700, in with_ei_usage
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 1716, in <lambda>
  File "/usr/lib/python2.7/distutils/core.py", line 151, in setup
    dist.run_commands()
  File "/usr/lib/python2.7/distutils/dist.py", line 953, in run_commands
    self.run_command(cmd)
  File "/usr/lib/python2.7/distutils/dist.py", line 972, in run_command
    cmd_obj.run()
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 211, in run
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 446, in easy_install
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 476, in install_item
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 655, in install_eggs
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 930, in build_and_install
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/command/easy_install.py", line 919, in run_setup
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/sandbox.py", line 62, in run_setup
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/sandbox.py", line 105, in run
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/sandbox.py", line 64, in <lambda>
  File "setup.py", line 188, in <module>
  File "/usr/lib/python2.7/distutils/core.py", line 111, in setup
    _setup_distribution = dist = klass(attrs)
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/dist.py", line 264, in __init__
  File "/usr/lib/python2.7/distutils/dist.py", line 287, in __init__
    self.finalize_options()
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/setuptools/dist.py", line 297, in finalize_options
  File "/home/galaxy/setuptools-0.6c11-py2.7.egg/pkg_resources.py", line 1959, in load
ImportError: <module 'setuptools.dist'="" from="" '="" home="" galaxy="" setuptools-0.6c11-py2.7.egg="" setuptools="" dist.py'=""> has no 'check_specifier' attribute
----------------------------------------
...Installing setuptools...done.
Traceback (most recent call last):
  File "virtualenv.py", line 1649, in <module>
    main()
  File "virtualenv.py", line 558, in main
    prompt=options.prompt)
  File "virtualenv.py", line 654, in create_environment
    install_setuptools(py_executable, unzip=unzip_setuptools)
  File "virtualenv.py", line 384, in install_setuptools
    _install_req(py_executable, unzip)
  File "virtualenv.py", line 360, in _install_req
    cwd=cwd)
  File "virtualenv.py", line 624, in call_subprocess
    % (cmd_desc, proc.returncode))
OSError: Command /home/galaxy/galaxy_env/bin/python2.7 -c "#!python
\"\"\"Bootstrap setuptoo...




" --always-copy -U setuptools failed with error code 1

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modified 14 months ago by Jennifer Hillman Jackson ♦ 25k • written 14 months ago by jasperkoehorst • 10

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