diff --git a/CHANGELOG.md b/CHANGELOG.md index 0d55a2f8b..f72ba7b16 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -9,7 +9,8 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0. ### `Fixed` -- [#838] Fix --snpcapture_bed files not being picked up by Nextflow +- [#836](https://github.com/nf-core/eager/issues/836) Remove deprecated parameters from test profiles +- [#838](https://github.com/nf-core/eager/issues/836) Fix --snpcapture_bed files not being picked up by Nextflow - Fix PMDtools reference mask not being picked up by Nextflow, and it's use being evaluated against --snpcapture_bed rather than --pmdtools_reference_mask ### `Dependencies` diff --git a/conf/test_full.config b/conf/test_full.config index da2827e77..1c3c5c0f9 100644 --- a/conf/test_full.config +++ b/conf/test_full.config @@ -21,7 +21,6 @@ params { bwaalnl = 1024 run_bam_filtering = true - bam_discard_unmapped = true bam_unmapped_type = 'discard' bam_mapping_quality_threshold = 25 diff --git a/conf/test_stresstest_human.config b/conf/test_stresstest_human.config index f61d1b64e..3d3ed08a9 100644 --- a/conf/test_stresstest_human.config +++ b/conf/test_stresstest_human.config @@ -24,7 +24,6 @@ params { mtnucratio_header = 'ChrM' run_bam_filtering = true - bam_discard_unmapped = true bam_unmapped_type = 'discard' bam_mapping_quality_threshold = 30