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Published 20 hours ago • verified publisher icon snakemake-workflows

Error in code

Open bhimbbiswa opened this issue 2 years ago • 0 comments

Hi. I got the following error when I ran this pipeline. Can you please look at the code as this is a code error?

check "--outSAMtype" command. The second one (not first).

subprocess.CalledProcessError: Command 'set -euo pipefail;  STAR --outSAMtype BAM SortedByCoordinate --quantMode GeneCounts --sjdbGTFfile resources/genome.gtf --outSAMtype BAM Unsorted --runThreadN 10 --genomeDir resources/star_genome --readFilesIn /lustre7/home/bhimbiswa/Domestication_genes/Old/Matsumoto_2021/DRR238202.fastq   --outFileNamePrefix results/star/DRR238202-1/ --outStd Log  > logs/star/DRR238202-1.log 2>&1' returned non-zero exit status 102.

Can you please help in troubleshooting this error These are the logs of snakemake run, and star.

DRR238202-1.log

snakemake.txt

bhimbbiswa avatar Apr 28 '22 04:04 bhimbbiswa