From 7e60bb584ead914c1f4027dd81d85ce57967048c Mon Sep 17 00:00:00 2001
From: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
Date: Tue, 25 Jun 2024 14:30:05 +0200
Subject: [PATCH 1/2] BUG: cutadapt base quality cutoff arguments have the
 wrong type

---
 src/cutadapt/config.vsh.yaml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

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

From b6f7bb22b0186499aa3dd0622cb7ac91f92db52d Mon Sep 17 00:00:00 2001
From: DriesSchaumont <5946712+DriesSchaumont@users.noreply.github.com>
Date: Tue, 25 Jun 2024 12:34:57 +0000
Subject: [PATCH 2/2] Update CHANGELOG

---
 CHANGELOG.md | 9 ++++++++-
 1 file changed, 8 insertions(+), 1 deletion(-)

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