bioBakery workflows

[boegel]

• link to support ticket: #2023032260001092
• website: https://huttenhower.sph.harvard.edu/biobakery_workflows
• installation docs: https://github.com/biobakery/biobakery_workflows/wiki/Installing-the-workflows-with-pip
• toolchain: foss/2022a
• easyblock to use: PythonBundle
• required dependencies:
  • [ ] Kneaddata
  • [ ] HUMAnN (see humann-3.6-foss-2022a.eb?)
  • [x] MetaPhlAn
  • [ ] AnADAMA2
• optional dependencies:
  • [ ] biom-format
• notes:
  • use separate easyconfigs for the different dependencies listed with their own pip install command in https://github.com/biobakery/biobakery_workflows/wiki/Installing-the-workflows-with-pip
  • check whether databases can easily be downloaded to a specific directory (not included in the installation), see https://github.com/biobakery/biobakery_workflows#install-databases
• effort: (TBD)
• other install methods
  • conda: yes (https://github.com/biobakery/biobakery_workflows#installation)
  • container image: yes (https://github.com/biobakery/biobakery_workflows#installation)
  • pre-built binaries (RHEL8 Linux x86_64): no
  • easyconfig outside EasyBuild: ???

[deniskristak]

cleaned up, closing