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Input check filename uniqueness #77

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Input check filename uniqueness #77

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10c1190
Start adding error message, trying to see if can work out how to repo…
jfy133 Feb 6, 2025
2f5f0c1
Add dummy for aa
jfy133 Feb 6, 2025
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19 changes: 19 additions & 0 deletions subworkflows/local/utils_nfcore_createtaxdb_pipeline/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -76,6 +76,25 @@ workflow PIPELINE_INITIALISATION {

ch_samplesheet = Channel.fromList(samplesheetToList(params.input, "assets/schema_input.json"))

// Validate we have unique file names for DNA FASTAs
ch_samplesheet
.filter { meta, fasta_dna, fasta_aa -> fasta_dna }
.map { meta, fasta_dna, fasta_aa ->
fasta_dna.getBaseName(fasta_dna.name.endsWith('.gz') ? 1 : 0)
}
.collect()
.dump(tag: 'post_collect')
.map { fasta_dna ->
if (fasta_dna.size() > fasta_dna.sort().unique().size()) {
// NOT WORKING - rREPORTING FALSE
def notunique = fasta_dna.toList().any { !fasta_dna.toList().sort().unique().contains(it) }
error("[nf-core/createtaxdb] ERROR: All filenames after decompressing must be unique! Check ${notunique}")
}
}

// Validate we have unique file names for AA FASTAs
println('TODO')

emit:
samplesheet = ch_samplesheet
versions = ch_versions
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