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Anne-Sophie Denommé-Pichon
STR
Commits
c7b5da6e
Commit
c7b5da6e
authored
Feb 16, 2020
by
Anne-Sophie Denommé-Pichon
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Handle ehdn outlier analyses on SGE for all patients
parent
35460f6a
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launch_ehdn_outlier.sh
launch_ehdn_outlier.sh
+3
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launch_ehdn_outlier.sh
100644 → 100755
View file @
c7b5da6e
...
...
@@ -13,10 +13,10 @@
## Last revision date: 20200215
## Known bugs: None
CASE
=
dijen001
CASE
=
"
$1
"
DATE
=
"
$(
date
+
"%F_%H-%M-%S"
)
"
OUTPUTDIR
=
"/work/gad/shared/analyse/STR/ExpansionHunterDeNovoOutlier/
$DATE
"
LOGFILE
=
"
$OUTPUTDIR
/
$DATE
.log"
LOGFILE
=
"
$OUTPUTDIR
/
$DATE
.
$CASE
.
log"
# Launch the script on local host with --local option and on SGE with qsub without the --local option
if
[
$#
-eq
1
]
&&
[
"x
$1
"
=
x--local
]
...
...
@@ -25,5 +25,5 @@ then
CASE
=
"
$CASE
"
LOGFILE
=
"
$LOGFILE
"
"
$(
dirname
"
$0
"
)
/wrapper_ehdn_outlier.sh"
else
mkdir
-p
"
$OUTPUTDIR
"
qsub
-pe
smp 1
-q
batch
-
v
CASE
=
"
$CASE
"
,LOGFILE
=
"
$LOGFILE
"
wrapper_ehdn_outlier.sh
qsub
-pe
smp 1
-q
batch
-
N
"ehdn_outlier_
$CASE
"
-sync
y
-v
CASE
=
"
$CASE
"
,LOGFILE
=
"
$LOGFILE
"
"
$(
dirname
"
$0
"
)
/wrapper_ehdn_outlier.sh"
fi
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