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D
Downsampling
Commit c6d7d2ee authored by Anne-Sophie Denommé-Pichon's avatar Anne-Sophie Denommé-Pichon
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Remove loop in the wrapper

parent 0eb1e881
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Showing with 7 additions and 14 deletions
downsampling.sh → wrapper_downsampling.sh
View file @ c6d7d2ee
......@@ -10,19 +10,12 @@ DSR=10
set -x
for i in $(seq 20)
do
(
mkdir -p "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}"
mkdir -p "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}"
/user1/gad/an1770de/Scripts/bam_downsampling.py \
-i "${INPUT}" \
-o "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam" \
-d "${DSR}" \
-l "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.log"
/user1/gad/an1770de/Scripts/bam_downsampling.py \
-i "${INPUT}" \
-o "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam" \
-d "${DSR}" \
-l "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.log"
samtools index "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam"
) &
done
wait
samtools index "${DSDIR}/${DIJEN}_downsampling_${DSR}_${i}/${DIJEN}_downsampling_${DSR}_${i}.bam"
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