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List of modules maintained in our production Python versions

The following table provides a list of all supported/maintained Python module versions, per Python version. The table concerns the biotin{2,3}.hpc.uio.no production servers. Please use these production Python versions for your research. If you need to install a module in one of those versions, ask the NCMM IT team to do it for you.

Note: Python 2.7.x modules will have limited support from Dec 31st 2019, as Python 2.7.x will reach the end of its support life (EOL) as outlined here. It is therefore important that you start using Python 3 now.

Library/module Python 2.7.5 Python 3.5.1
scl enable rh-python35 bash
Python 3.6.3
scl enable rh-python36 bash
cython 0.23.4 0.25.2 0.29.13
numpy 1.14.2 1.14.0 1.17.0
scipy 1.0.1 1.0.0 1.3.0
matplotlib 2.2.2 2.0.2 3.1.1
pandas 0.22.0 0.20.2 0.25.0
biopython 1.71 1.69 1.74
intervene 0.6.2 0.6.2 0.6.4
kipoi - 0.2.9 -
macs2 2.1.1 - -
patsy 0.4.0 0.4.1 0.5.1
python-dateutil 1.11.0 1.11.0 1.11.0
pymongo 3.5.1 3.5.0 3.5.1
pyparsing 2.2.0 2.4.2 2.4.2
pysam 0.8.3 0.12.0 0.15.3
pytorch - - 1.2.0
pybedtools 0.7.9 0.7.9 0.8.0
pybigwig - 0.3.4 0.3.17
rpy2 2.7.3 3.0.4 3.0.5
snakemake - 5.5.4 5.5.4
deepTools 2.4.0_2 2.5.3_2 3.3.0
htseq 0.6.1 0.8.0 0.11.2
seaborn 0.8.1 0.8.0 0.9.0
statsmodels 0.6.1 0.8.0 0.10.1
xgboost 0.71 0.60 0.90