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Fix samplesheet parsing error warnings #322

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merged 2 commits into from
Jun 20, 2024
Merged

Fix samplesheet parsing error warnings #322

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c2daeab
Update SamplesheetParser.groovy
smlmbrt Jun 19, 2024
717a565
fix multiple samplesheet error message
nebfield Jun 20, 2024
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4 changes: 2 additions & 2 deletions lib/SamplesheetParser.groovy
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Original file line number Diff line number Diff line change
Expand Up @@ -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.")
}
}

Expand All @@ -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.")
}
}

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