Fix samplesheet parsing error warnings (#322)

* Update SamplesheetParser.groovy * fix multiple samplesheet error message --------- Co-authored-by: Benjamin Wingfield <[email protected]>
PGScatalog · Jul 1, 2024 · c13f722 · c13f722
1 parent b0fb148
commit c13f722
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/lib/SamplesheetParser.groovy b/lib/SamplesheetParser.groovy
@@ -168,7 +168,7 @@ class SamplesheetParser {
         def samplesets = rows.collect { row -> row.sampleset }
         def n_samplesets = samplesets.toSet().size()
         if (n_samplesets > 1) {
-            Nextflow.error("${n_samplesets} missing chromosomes detected! Maximum is 1. Check your samplesheet.")
+            Nextflow.error("${n_samplesets} samplesets detected! Maximum is 1. Check your samplesheet.")
         }
     }
 
@@ -177,7 +177,7 @@ class SamplesheetParser {
         def n_bad_name = samplesets.count { it == "reference" | it.contains("_") }
 
         if (n_bad_name != 0) {
-            Nextflow.error("Reserved sampleset name detected. Please don't call your sampleset 'reference'")
+            Nextflow.error("Reserved sampleset name/character detected. DO NOT call your sampleset 'reference' or use underscores ('_') in the name.")
         }
     }