diff --git a/CHANGELOG.md b/CHANGELOG.md index aee6544440..8a878214d1 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -46,6 +46,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 - [#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 - [#828](https://github.com/nf-core/sarek/pull/817) - Fix issue [#763](https://github.com/nf-core/sarek/issues/763) to run variantcalling when starting form step recalibration +- [#837](https://github.com/nf-core/sarek/pull/837) - Fix Freebayes config selector after subworkflow renaming ### Deprecated diff --git a/conf/modules/freebayes.config b/conf/modules/freebayes.config index a36193ec09..5243bf699f 100644 --- a/conf/modules/freebayes.config +++ b/conf/modules/freebayes.config @@ -54,7 +54,7 @@ process { // PAIR_VARIANT_CALLING if (params.tools && params.tools.split(',').contains('freebayes')) { - withName: '.*:PAIR_VARIANT_CALLING:RUN_FREEBAYES_SOMATIC:FREEBAYES' { + withName: '.*:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_VARIANT_CALLING_FREEBAYES:FREEBAYES' { ext.args = "--pooled-continuous \ --pooled-discrete \ --genotype-qualities \