Dear Enis,

thanks for the answer. I was not suggesting anything -- just asking.

I just found the answer myself (https://virtualenv.pypa.io/en/stable/)

"a virtualenv uses the system Python’s standard library but contains its own copy of the Python interpreter".

Best,
Matthias

On 01.03.2017 15:27, Enis Afgan wrote:
Hi Matthias,
I'm not sure I understand what you're suggesting here, if anything?
Granted, I haven't used software collections but this problem feels like
it has more to do with it, where the libpython is not installed as part
of the Python install there. Perhaps a manual install of the library
with the software collection enabled would fix this
(http://stackoverflow.com/questions/26597527/how-to-install-libpython2-7-so).
The library cannot just be included into requirements.txt for example.

On Mon, Feb 27, 2017 at 2:27 AM, Matthias Bernt <m.be...@ufz.de
<mailto:m.be...@ufz.de>> wrote:

    Dear galaxy developers,

    Is it expected that the virtualenv in .venv/ does include the python
    binary but does not include the python shared libraries?

    Some more details:

    I have installed galaxy on CentOS 6.8 which includes the required
    python 2.7 only via software collections. For the installation of
    galaxy I have enabled the software collection by calling "source
    /opt/rh/python27/enable" (which sets PATH, LD_LIBRARY_PATH, MANPATH,
    XDG_DATA_DIRS, and PKG_CONFIG_PATH).

    Currently I was trying to run the ansible role ansible-galaxy-tools
    from https://github.com/galaxyproject/ansible-galaxy-tools
    <https://github.com/galaxyproject/ansible-galaxy-tools> which runs
    "/home/galaxy/galaxy/.venv/bin/python manage_bootstrap_user.py ..."
    and gives me
    /home/galaxy/galaxy/.venv/bin/python: error while loading shared
    libraries: libpython2.7.so.1.0: cannot open shared object file: No
    such file or directory.

    This python call would work if I again "source
    /opt/rh/python27/enable". But then the venv python binary is used
    with the library of the system. Intuitively I would expect that the
    library and binary belong together.

    Cheers,
    Matthias

    --

    -------------------------------------------
    Matthias Bernt
    Bioinformatics Service
    Molekulare Systembiologie (MOLSYB)
    Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
    Helmholtz Centre for Environmental Research GmbH - UFZ
    Permoserstraße 15, 04318 Leipzig, Germany
    Phone +49 341 235 482296 <tel:%2B49%20341%20235%20482296>,
    m.be...@ufz.de <mailto:m.be...@ufz.de>, www.ufz.de <http://www.ufz.de>

    Sitz der Gesellschaft/Registered Office: Leipzig
    Registergericht/Registration Office: Amtsgericht Leipzig
    Handelsregister Nr./Trade Register Nr.: B 4703
    Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board:
    MinDirig Wilfried Kraus
    Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
    Prof. Dr. Dr. h.c. Georg Teutsch
    Administrative Geschäftsführerin/ Administrative Managing Director:
    Prof. Dr. Heike Graßmann
    -------------------------------------------


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--

-------------------------------------------
Matthias Bernt
Bioinformatics Service
Molekulare Systembiologie (MOLSYB)
Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
Helmholtz Centre for Environmental Research GmbH - UFZ
Permoserstraße 15, 04318 Leipzig, Germany
Phone +49 341 235 482296,
m.be...@ufz.de, www.ufz.de

Sitz der Gesellschaft/Registered Office: Leipzig
Registergericht/Registration Office: Amtsgericht Leipzig
Handelsregister Nr./Trade Register Nr.: B 4703
Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board: MinDirig Wilfried Kraus
Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
Prof. Dr. Dr. h.c. Georg Teutsch
Administrative Geschäftsführerin/ Administrative Managing Director:
Prof. Dr. Heike Graßmann
-------------------------------------------

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