CellBender

[laraPPr]

• link to support ticket: #2024042260000384
• website: https://github.com/broadinstitute/CellBender/
• installation docs: https://github.com/broadinstitute/CellBender/
• toolchain: 2023a
• easyblock to use: PythonBundle
• required dependencies:
  • ...
• optional dependencies:
  • ...
• notes:
  • current installation on our cluster is broken ( CellBender/0.3.1-foss-2022a)
  • The 0.3.1 version has also been recalled so the user is requesting the 0.3.0 version (negative entries in filtered count matrix? broadinstitute/CellBender#306)
  • The CUDA version CellBender/0.3.1-foss-2022a-CUDA-11.7.0 is also giving the following error: error: no cuda devices found
• effort: (TBD)
• other install methods
  • conda: yes (link?) / no
  • container image: yes (link?) / no
  • pre-built binaries (RHEL8 Linux x86_64): yes (link?) / no
  • easyconfig outside EasyBuild: yes / no

[pavelToman]

• {tools}[foss/2023a] CellBender v0.3.0, jupyter-contrib-nbextensions v0.7.0, pyro-ppl v1.9.0 easybuilders/easybuild-easyconfigs#20551

[boegel]

@pavelToman PR merged, software installed (and modules for CellBender v0.3.1 removed as requested since that version got redacted, cfr. broadinstitute/CellBender#306), so ready for cleanup & closing...