Update sequence_processing_pipeline/templates/nuqc_job.sh

Co-authored-by: Daniel McDonald <[email protected]>
biocore · Jun 13, 2024 · 1b1b4ef · 1b1b4ef
1 parent e74b369
commit 1b1b4ef
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/sequence_processing_pipeline/templates/nuqc_job.sh b/sequence_processing_pipeline/templates/nuqc_job.sh
@@ -125,7 +125,7 @@ function mux-runner () {
     {{movi_path}} query \
         --index /scratch/movi_hg38_chm13_hprc94 \
         --read <(zcat ${jobd}/seqs.r1.ALIGN.fastq.gz) \
-        --stdout > ${jobd}/seqs.movi.txt
+        --stdout | gzip > ${jobd}/seqs.movi.txt.gz
 
     python {{pmls_path}} <(zcat ${jobd}/seqs.movi.txt.gz) | \
         seqtk subseq ${jobd}/seqs.r1.ALIGN.fastq.gz - | gzip > ${jobd}/seqs.r1.final.fastq.gz