Raise error if primer template is invalid if not using db

main.nf

@@ -23,6 +23,19 @@ if (params.use_db) {
 
 workflow {
 
+ // check that index template file is valid if not using db
+ if (!params.use_db) {
+ new File(params.index_template_file).readLines().each { line ->
+ if (line.split(",").size() < 3) {
+ error("""
+ Index template invalid! Must be comma-separated file
+ containing index_name, direction (F/R) and sequence.
+ If intending to use the Genomics database instead,
+ set use_db to true. """)
+ }
+ }
+ }
+
  Channel.fromPath("${params.input_dir}/*.{fq,fastq}{,.gz}")
  .ifEmpty {
  error("""