On UPPMAX clusters

Questions

• Can you login to Rackham?

• Did you try and find Python packages at the system?

• Can you load Python and start it, as well as run a short program?

UPPMAX clusters

• Rackham: general purpose

• Snowy: available for UPPMAX projects (not SNIC), have GPU:s

• Bianca: sensitive data, have GPU:s

UPPMAX packages

Some of the ackages included in the python/3.9.5 module

• Jupyter Notebook

• matplotlib

• networkx

• numpy

• Pandas

• Graphviz/0.16

• scipy

• mpi4py

Packages that can be loaded with ‘module load’

• module load bioinfo-tools

  • biopython

  • module load bwa

  • module load hichipper

  • module load HOMER

• module load pysam- module load python_ML_packages

  • sklearn/scikit-learn

  • TensorFlow

  • torch

• module load python_GIS_packages

• module load Graphviz/2.40.1

• vtk/vtkmodules