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Update DKFZ configuration and add GPU support#1125

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abidabrar merged 2 commits into
nf-core:masterfrom
abidabrar:master
Jun 4, 2026
Merged

Update DKFZ configuration and add GPU support#1125
abidabrar merged 2 commits into
nf-core:masterfrom
abidabrar:master

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@abidabrar

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Updates the existing DKFZ / ODCF institutional config. This is not a new profile. dkfz is already registered in nfcore_custom.config and .github/workflows/main.yml, original author @kubranarci.

What changed

  • Dynamic LSF queue selection by requested time/memory (short/medium/long/verylong/highmem).
  • GPU support
  • /omics bind-mount for containers.
  • Replaced deprecated max_* params with process.resourceLimits.
  • Rewrote docs/dkfz.md (queues, GPU usage, LSF submission script).

Checklist

  • PR targets the master branch
  • Config file in conf/ (conf/dkfz.config)
  • Documentation in docs/ (docs/dkfz.md)
  • Profile in nfcore_custom.config (pre-existing)
  • Profile in .github/workflows/main.yml (pre-existing)
  • OPTIONAL: added to .github/CODEOWNERS

Comment thread conf/dkfz.config
Comment thread conf/dkfz.config
Comment thread conf/dkfz.config
@abidabrar abidabrar merged commit 399a4c5 into nf-core:master Jun 4, 2026
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2 participants