problem when input files end with clean

Fixes #46
rki-mf1 · Nov 25, 2021 · ef4f78e · ef4f78e
1 parent 011481d
commit ef4f78e
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/clean.nf b/clean.nf
@@ -15,6 +15,9 @@ def parameter_diff = params.keySet() - valid_params
 if (parameter_diff.size() != 0){
     exit 1, "ERROR: Parameter(s) $parameter_diff is/are not valid in the pipeline!\n"
 }
+if (params.illumina_single_end.contains('.clean.') || params.illumina.contains('.clean.') || params.nano.contains('.clean.') || params.fasta.contains('.clean.') ) { 
+  exit 1, "ERROR: Input files cannot contain `.clean.`\n" 
+}
 
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