Python

There are 2 version of python installed on KewHPC are 2.7.18 and 3.7.9

Installed Modules

Many commonly used python modules have been centrally installed. If you need any others ask Matt Clarke to install them centrally, or install to a personal local lib in /data/users_area.

Python 2.7 Modules

Package Version
biopython 1.76
mysql-connector-python 8.0.21
numpy 1.16.6
pip 19.2.3
protobuf 3.13.0
scipy 1.2.3
setuptools 41.2.0
six 1.15.0

Python 3.7 Modules

Package Version
amas 1.0
appdirs 1.4.4
attrs 21.2.0
biopython 1.78
certifi 2020.6.20
cffi 1.14.2
chardet 3.0.4
cryptography 3.1
cutadapt 2.10
cycler 0.10.0
demes 0.1.2
distlib 0.3.1
dnaio 0.4.2
epydoc 3.0.1
ete3 3.1.2
filelock 3.0.12
GetOrganelle 1.7.1
idna 2.10
importlib-metadata 3.7.2
joblib 0.16.0
jsonschema 3.2.0
kiwisolver 1.2.0
matplotlib 3.3.1
mpmath 1.1.0
msprime 1.0.1
mysql 0.0.2
mysql-connector 2.2.9
mysql-connector-python 8.0.21
mysqlclient 2.0.3
newick 1.3.0
numpy 1.19.2
pandas 1.1.2
Pillow 7.2.0
pip 20.1.1
pipenv 2020.11.15
protobuf 3.13.0
psutil 5.7.2
pycparser 2.20
pyOpenSSL 19.1.0
pyparsing 2.4.7
pyrsistent 0.18.0
python-dateutil 2.8.1
pytz 2020.1
radinitio 1.1.1
requests 2.24.0
ruamel.yaml 0.17.10
ruamel.yaml.clib 0.2.6
scikit-learn 0.23.2
scipy 1.5.2
seaborn 0.11.0
setuptools 47.1.0
six 1.15.0
sklearn 0.0
svgwrite 1.4.1
sympy 1.6.2
threadpoolctl 2.1.0
tqdm 4.48.2
TREESHRINK 1.3.5
tskit 0.3.6
typing-extensions 3.7.4.3
urllib3 1.25.10
virtualenv 20.4.2
virtualenv-clone 0.5.4
xopen 0.8.4
zipp 3.4.1