Skip to content
Snippets Groups Projects
Verified Commit 9b59f32d authored by Laurent Modolo's avatar Laurent Modolo
Browse files

fix sample_reads.nf

parent d671e35f
No related branches found
No related tags found
No related merge requests found
......@@ -122,14 +122,9 @@ process SAMPLE_READS {
"""
SAMPLE_SIZE=\$(cat $sample_size | tr -d '\\n')
CURRENT_READ_NUMBER=\$(cat $read_number | tr -d '\\n')
zcat ${reads} | head -n \$(cat $sample_size | tr -d '\\n') | gzip -c > sample_${reads}
READ_NUMBER=\$(zcat sample_${reads} | wc -l)
if [\$SAMPLE_SIZE -eq \$CURRENT_READ_NUMBER]; then
ln -s ${reads} sample_${reads}
READ_NUMBER=\$(cat $sample_size | tr -d '\\n')
else
zcat ${reads} | head -n \$(cat $sample_size | tr -d '\\n') | gzip -c > sample_${reads}
READ_NUMBER=\$(zcat sample_${reads} | wc -l)
fi
if [\$SAMPLE_SIZE -ne \$READ_NUMBER]; then
exit 1
fi
......
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment