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collect cnvkit reference to not be consumed #817

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Nov 8, 2022
Merged

collect cnvkit reference to not be consumed #817

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1 change: 1 addition & 0 deletions CHANGELOG.md
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Expand Up @@ -39,6 +39,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- [#794](https://github.com/nf-core/sarek/pull/794) - Fix publishing for unzipped reference files
- [#807](https://github.com/nf-core/sarek/pull/807) - Fix read group when uBAMs are provided (see issue [#732](https://github.com/nf-core/sarek/issues/732))
- [#814](https://github.com/nf-core/sarek/pull/814) - Fix readgroups when using DragMap together with FreeBayes or Mutect2 (see issue [#780](https://github.com/nf-core/sarek/issues/780))
- [#817](https://github.com/nf-core/sarek/pull/817) - Fix CNVKit run on tumor-only sample to be run on all samples

### Deprecated

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2 changes: 1 addition & 1 deletion subworkflows/local/prepare_reference_cnvkit/main.nf
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Expand Up @@ -27,7 +27,7 @@ workflow PREPARE_REFERENCE_CNVKIT {

emit:
versions = ch_versions
cnvkit_reference = CNVKIT_REFERENCE.out.cnn
cnvkit_reference = CNVKIT_REFERENCE.out.cnn.collect()
}