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IMP
IMP_manuscript_analysis
Commits
5aeb5a4f
Commit
5aeb5a4f
authored
Oct 10, 2016
by
Shaman Narayanasamy
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parent
a1d1bfe8
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1
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prodigal_analysis/launcher_naive.sh
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5aeb5a4f
#!/bin/bash -l
#OARSUB="oarsub --notify "mail:shaman.narayanasamy@uni.lu" -t bigsmp -t idempotent -t besteffort -l core=12/nodes=1,walltime=120"
OARSUB
=
"oarsub --notify "
mail:shaman.narayanasamy@uni.lu
" -t bigmem
-t idempotent -t besteffort
-l core=2/nodes=1,walltime=72"
OARSUB
=
"oarsub --notify "
mail:shaman.narayanasamy@uni.lu
" -t bigmem -l core=2/nodes=1,walltime=72"
declare
-a
SAMPLES
=(
"SM"
"HF1"
"HF2"
"HF3"
"HF4"
"HF5"
"WW1"
"WW2"
"WW3"
"WW4"
"BG"
)
### Repeat for all the data sets
for
S
in
"
${
SAMPLES
[@]
}
"
do
NAIVE_REF
=
"/scratch/users/snarayanasamy/IMP_MS_data/naive_assemblies/
${
S
}
"
NAIVE_REF
=
"/scratch/users/snarayanasamy/IMP_MS_data/naive_assemblies/
${
S
}
/MG_MT_cap3.merged.fa
"
OUTDIR
=
"/scratch/users/snarayanasamy/IMP_MS_data/prodigal_analysis/naive_assemblies/
${
S
}
"
${
OARSUB
}
-n
"
${
S
}
_naive_prodigal"
"./makeGenePredictionsProdigal.sh
$NAIVE_REF
$OUTDIR
"
...
...
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