parabricks topic port

[famosab]

PR checklist

Closes #XXX

• This comment contains a description of changes (with reason).
• If you've fixed a bug or added code that should be tested, add tests!
• If you've added a new tool - have you followed the module conventions in the contribution docs
• If necessary, include test data in your PR.
• Remove all TODO statements.
• Broadcast software version numbers to topic: versions - See version_topics
• Follow the naming conventions.
• Follow the parameters requirements.
• Follow the input/output options guidelines.
• Add a resource label
• Use BioConda and BioContainers if possible to fulfil software requirements.
• Ensure that the test works with either Docker / Singularity. Conda CI tests can be quite flaky:
  • For modules:
    • nf-core modules test <MODULE> --profile docker
    • nf-core modules test <MODULE> --profile singularity
    • nf-core modules test <MODULE> --profile conda
  • For subworkflows:
    • nf-core subworkflows test <SUBWORKFLOW> --profile docker
    • nf-core subworkflows test <SUBWORKFLOW> --profile singularity
    • nf-core subworkflows test <SUBWORKFLOW> --profile conda

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[mashehu]

the gpu snapshot run failed with https://github.com/nf-core/modules/actions/runs/21138538128/job/60786435463?pr=9690#step:13:245

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/applybqsr/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/dbsnp/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bammeth/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/deepvariant/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/genotypegvcf/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/haplotypecaller/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/indexgvcf/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/minimap2/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/mutectcaller/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/rnafq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/starfusion/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/applybqsr/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bammeth/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/fq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/indexgvcf/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/rnafq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/rnafq2bam/tests/main.nf.test

[famosab]

@nf-core-bot update gpu snapshot path: modules/nf-core/parabricks/rnafq2bam/tests/main.nf.test