diff --git a/CHANGELOG.md b/CHANGELOG.md index c89bb9b4..1073eeea 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,4 +1,11 @@ -# biobox unreleased +# biobox x.x.x (unreleased) + +# BUG FIXES + +* `cutadapt`: fix nucleotide quality cutoff argument needed their values specified as + strings instead of integers (PR #66). + +# biobox 0.1.0 ## BREAKING CHANGES diff --git a/src/cutadapt/config.vsh.yaml b/src/cutadapt/config.vsh.yaml index a62f0aa9..73b19f54 100644 --- a/src/cutadapt/config.vsh.yaml +++ b/src/cutadapt/config.vsh.yaml @@ -269,7 +269,7 @@ argument_groups: dark cycles appearing as high-quality G bases. - name: --quality_cutoff alternatives: [-q] - type: string + type: integer description: | Trim low-quality bases from 5' and/or 3' ends of each read before adapter removal. Applied to both reads if data is @@ -278,7 +278,7 @@ argument_groups: trimmed with the first cutoff, the 3' end with the second. - name: --quality_cutoff_r2 alternatives: [-Q] - type: string + type: integer description: | Quality-trimming cutoff for R2. Default: same as for R1 - name: --quality_base