Update get_fastq.smk

vanheeringen-lab · Feb 2, 2024 · 4e8c6a7 · 4e8c6a7
1 parent c2542fa
commit 4e8c6a7
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/seq2science/rules/get_fastq.smk b/seq2science/rules/get_fastq.smk
@@ -155,7 +155,7 @@ rule sra2fastq_PE:
 
         # dump to tmp dir
         parallel-fastq-dump -s {input} -O {output.tmpdir} \
-        --threads {threads} --split-e --skip-technical --dumpbase \
+        --threads {threads} --split-3 --skip-technical --dumpbase \
         --readids --clip --read-filter pass --defline-seq '@$ac.$si.$sg/$ri' \
         --defline-qual '+' --gzip >> {log} 2>&1