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Verified Commit 7ec4f200 authored by Laurent Modolo's avatar Laurent Modolo
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slurm: add abs path to ch-run

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src/mbelari_count.slurm
+ 2
− 2
View file @ 7ec4f200
......@@ -10,9 +10,9 @@
cd /scratch/Bio/lmodolo/kmer_diff/
alias kmdiff="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
KMDIFF="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
WORK=$(pwd)
# kmdiff count
kmdiff count -f ${WORK}/data/sample_mbelari.csv -d ${WORK}/results/mbelari_counts/ -t 32
${KMDIFF} count -f ${WORK}/data/sample_mbelari.csv -d ${WORK}/results/mbelari_counts/ -t 32
src/mlongespiculosa_count.slurm
+ 2
− 2
View file @ 7ec4f200
......@@ -10,8 +10,8 @@
cd /scratch/Bio/lmodolo/kmer_diff/
alias kmdiff="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
KMDIFF="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
WORK=$(pwd)
# kmdiff count
kmdiff count -f ${WORK}/data/sample_mlongespiculosa.csv -d ${WORK}/results/mlongespiculosa_counts/ -t 32
${KMDIFF} count -f ${WORK}/data/sample_mlongespiculosa.csv -d ${WORK}/results/mlongespiculosa_counts/ -t 32
src/mspiculigera_count.slurm
+ 2
− 2
View file @ 7ec4f200
......@@ -11,8 +11,8 @@
cd /scratch/Bio/lmodolo/kmer_diff/
alias kmdiff="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
KMDIFF="/Xnfs/abc/charliecloud_bin/ch-run -b /scratch /Xnfs/abc/charliecloud/img/lbmc%kmdiff+1.0.1 -- kmdiff"
WORK=$(pwd)
# kmdiff count
kmdiff count -f ${WORK}/data/sample_mspiculigera.csv -d ${WORK}/results/mspiculigera_counts/ -t 32
${KMDIFF} count -f ${WORK}/data/sample_mspiculigera.csv -d ${WORK}/results/mspiculigera_counts/ -t 32
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