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ExtensionCrawler
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Improved sge script.

This commit is contained in:
Michael Herzberg 2017-08-24 08:56:02 +01:00
parent 9950984e27
commit a81c53f9ca
4 changed files with 11 additions and 6 deletions
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2
sge/create-db.sge
View File

@ -10,4 +10,4 @@ set -o nounset
printenv
"$BASEDIR/ExtensionCrawler/create-db" -a "$ARCHIVE" -n $SGE_TASK_ID -N $SGE_TASK_LAST "$BASEDIR/out"
"$BASEDIR/ExtensionCrawler/create-db" -a "$ARCHIVE" -n $SGE_TASK_ID -N $MAX_SGE_TASK_ID "$BASEDIR/out"

5
sge/create-db.sh
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@ -3,11 +3,9 @@ set -o nounset
set -o errexit
ARCHIVE=${1:-$(ssh sharc.shef.ac.uk find /shared/brucker_research1/Shared/BrowserExtensions/.snapshot -maxdepth 1 -name \"D*\" | sort -r | head -n1)}
TARGETBASEDIR=${2:-'/data/$USER'}
echo "Using archive $ARCHIVE"
TARGETDIR="${TARGETBASEDIR}/create-db-$(date +%Y%m%d-%H%M%S)"
TARGETDIR="${2:-/data/\$USER}/create-db-$(date +%Y%m%d-%H%M%S)"
BASEDIR=$( cd $(dirname "$0"); cd ..; pwd -P )
echo "Creating dirs ..."
@ -22,6 +20,7 @@ echo "Starting job ..."
ssh sharc.shef.ac.uk \
ARCHIVE=\"$ARCHIVE\" \
BASEDIR=\"$TARGETDIR\" \
MAX_SGE_TASK_ID=256 \
qsub \
-V \
-t 1-256 \

2
sge/grepper.sge
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@ -7,4 +7,4 @@ set -o nounset
printenv
"$BASEDIR/ExtensionCrawler/grepper" -a "/shared/brucker_research1/Shared/BrowserExtensions" -n $SGE_TASK_ID -N $SGE_TASK_LAST "$PATTERN" | bzip2 > "$BASEDIR/out/$SGE_TASK_ID.bz2"
"$BASEDIR/ExtensionCrawler/grepper" -a "$ARCHIVE" -n $SGE_TASK_ID -N $MAX_SGE_TASK_ID "$PATTERN" | bzip2 > "$BASEDIR/out/$SGE_TASK_ID.bz2"

8
sge/grepper.sh
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@ -3,8 +3,12 @@ set -o nounset
set -o errexit
PATTERN=$1
ARCHIVE=${2:-$(ssh sharc.shef.ac.uk find /shared/brucker_research1/Shared/BrowserExtensions/.snapshot -maxdepth 1 -name \"D*\" | sort -r | head -n1)}
echo "Using archive $ARCHIVE"
TARGETDIR="${3:-/data/\$USER}/grepper-$(date +%Y%m%d-%H%M%S)"
BASEDIR=$( cd $(dirname "$0"); cd ..; pwd -P )
TARGETDIR='/data/$USER/grepper-'$(date +%Y%m%d-%H%M%S)
echo "Creating dirs ..."
ssh sharc.shef.ac.uk mkdir -p $TARGETDIR/ExtensionCrawler
@ -16,8 +20,10 @@ rsync -zr "$BASEDIR/" sharc.shef.ac.uk:"$TARGETDIR/ExtensionCrawler"
echo "Starting job ..."
ssh sharc.shef.ac.uk \
ARCHIVE=\"$ARCHIVE\" \
BASEDIR=\"$TARGETDIR\" \
PATTERN=\"$PATTERN\" \
MAX_SGE_TASK_ID=256 \
qsub \
-V \
-t 1-256 \