Nicola Soranzo
437f51c2a6
- Allow specifying Python to use to create virtualenv using GALAXY_PYTHON environment variable. - Integrate Python support docs from https://galaxyproject.org/admin/python/ - Update virtualenv installation to use v16.7.9
1.5 KiB
Supported Python versions
Galaxy's core functionality is currently supported on Python 2.7 (although deprecated) and >=3.5 .
If Galaxy complains about the version of Python you are using, check that
python --version reports a supported version. If this is not the case:
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Completely remove the virtualenv used by Galaxy, e.g. with:
rm -rf /path/to/galaxy/.venv -
Let Galaxy know the path of the correct version of Python.
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If you are using Galaxy >= 20.05, just execute:
export GALAXY_PYTHON=/path/to/python -
If instead you are using an older version of Galaxy, you can manipulate your shell's
$PATHvariable to place the correct version first. This can be done for just Python by creating a new directory, adding a symbolic link to python in there, and putting that directory at the front of$PATH:% mkdir ~/galaxy-python % ln -s /path/to/python ~/galaxy-python/python % export PATH=~/galaxy-python:$PATH
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Start Galaxy again.
N.B. If you have compiled your own Python interpreter from source, please ensure
that the ssl, sqlite3, curses and bz2 modules were built and can be
imported after installation. These "extra" modules are built at the end of the
compilation process and are required by the Galaxy framework. If building on
Linux, you may need to install the appropriate -dev packages for OpenSSL and
Bzip2. You may also need to build Python with shared libraries
(--enable-shared).