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Adjust for the fact that zipped empty files have file size > 0 #72

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Merged
matrulda merged 2 commits into from
Feb 23, 2026
Merged

Adjust for the fact that zipped empty files have file size > 0 #72

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0dbceb1
Adjust for the fact that zipped empty files have file size > 0
matrulda Feb 20, 2026
0c9f0a5
Add comment about empty gzip file size
matrulda Feb 20, 2026
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2 changes: 1 addition & 1 deletion main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -89,7 +89,7 @@ def get_project_and_reads(run_folder) {
Channel
.fromPath("${run_folder}/${params.demultiplexer_outdir}/**.fastq.gz")
.filter { file -> file.name =~ /.*_[^I]\d_001\.fastq\.gz$/ }
.filter { file -> file.size() > 0 }
.filter { file -> file.size() > 100 }
.ifEmpty { error "Error: No fastq files found under ${run_folder}/!" }
.map { file ->
file.toString().indexOf('Undetermined') > 0 ?
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Binary file modified ...a/230825_M04034_0043_000000000-L6NVV/Unaligned/AB-1234/EmptyFastq_S1_L001_R1_001.fastq.gz
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Binary file modified ...a/230825_M04034_0043_000000000-L6NVV/Unaligned/AB-1234/EmptyFastq_S1_L001_R2_001.fastq.gz
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