Merge pull request #487 from genomic-medicine-sweden/changeplatform

Update RG generation string
nf-core · Jan 25, 2024 · 106ad82 · 106ad82
2 parents 539a739 + f086c5b
commit 106ad82
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflows/raredisease.nf b/workflows/raredisease.nf
@@ -170,7 +170,7 @@ workflow RAREDISEASE {
         .combine( ch_original_input )
         .map { counts, meta, fastq1, fastq2 ->
             new_meta = meta + [num_lanes:counts[meta.id],
-                        read_group:"\'@RG\\tID:"+ fastq1.toString().split('/')[-1] + "\\tPL:ILLUMINA\\tSM:"+meta.id+"\'"]
+                        read_group:"\'@RG\\tID:"+ fastq1.toString().split('/')[-1] + "\\tPL:" + params.platform.toUpperCase() + "\\tSM:" + meta.id + "\'"]
             if (!fastq2) {
                 return [ new_meta + [ single_end:true ], [ fastq1 ] ]
             } else {