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BUG: cutadapt base quality cutoff arguments have the wrong type #66

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BUG: cutadapt base quality cutoff arguments have the wrong type #66

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BUG: cutadapt base quality cutoff arguments have the wrong type
DriesSchaumont Jun 25, 2024
b6f7bb2
Update CHANGELOG
DriesSchaumont Jun 25, 2024
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9 changes: 8 additions & 1 deletion CHANGELOG.md
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Original file line number Diff line number Diff line change
@@ -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

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4 changes: 2 additions & 2 deletions src/cutadapt/config.vsh.yaml
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Expand Up @@ -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
Expand All @@ -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
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