adding "-trim" to the nextseq cmd in conf. see nf-core#429

cmatKhan · Oct 21, 2024 · 750d806 · 750d806
1 parent 43369af
commit 750d806
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/conf/modules.config b/conf/modules.config
@@ -135,7 +135,7 @@ if (!params.skip_trimming) {
             ext.args   = {
                 [
                     '--fastqc',
-                    params.trim_nextseq > 0 ? "--nextseq ${params.trim_nextseq}" : '',
+                    params.trim_nextseq > 0 ? "--nextseq-trim ${params.trim_nextseq}" : '',
                     params.clip_r1 > 0 ? "--clip_r1 ${params.clip_r1}" : '',
                     params.clip_r2 > 0 ? "--clip_r2 ${params.clip_r2}" : '',
                     params.three_prime_clip_r1 > 0 ? "--three_prime_clip_r1 ${params.three_prime_clip_r1}" : '',