Skip to content

D
Downsampling
Commit c6d7d2ee authored by Anne-Sophie Denommé-Pichon's avatar Anne-Sophie Denommé-Pichon
Browse files
Options

Remove loop in the wrapper

parent 0eb1e881
Hide whitespace changes
Inline Side-by-side
Showing with 7 additions and 14 deletions
downsampling.sh → wrapper_downsampling.sh
View file @ c6d7d2ee
...@@ -10,19 +10,12 @@ DSR=10 ...@@ -10,19 +10,12 @@ DSR=10
set -x set -x
for i in $(seq 20) mkdir -p "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}"
do
(
mkdir -p "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}"
/user1/gad/an1770de/Scripts/bam_downsampling.py \ /user1/gad/an1770de/Scripts/bam_downsampling.py \
-i "${INPUT}" \ -i "${INPUT}" \
-o "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam" \ -o "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam" \
-d "${DSR}" \ -d "${DSR}" \
-l "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.log" -l "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.log"
samtools index "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam" samtools index "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam"
) &
done
wait
Markdown is supported
0% or
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment