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#!/bin/bash
usage(){
echo "
Written by Brian Bushnell
Last modified October 10, 2018
Description: Merges .pgm files.
Usage: mergepgm.sh in=x.pgm,y.pgm out=z.pgm
File parameters:
in=<file,file> A pgm file or comma-delimited list of pgm files.
out=<file> Output filename.
normalize=f Merge proportionally to base counts, so small models
have equal weight to large models. Normalization happens
before applying the @ multiplier.
@ symbol Input filenames in the form of 'x.pgm@0.1' will have
a multiplier applied to that model prior to merging.
Please contact Brian Bushnell at bbushnell@lbl.gov if you encounter any problems.
"
}
#This block allows symlinked shellscripts to correctly set classpath.
pushd . > /dev/null
DIR="${BASH_SOURCE[0]}"
while [ -h "$DIR" ]; do
cd "$(dirname "$DIR")"
DIR="$(readlink "$(basename "$DIR")")"
done
cd "$(dirname "$DIR")"
DIR="$(pwd)/"
popd > /dev/null
#DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )/"
CP="$DIR""current/"
z="-Xmx200m"
z2="-Xms200m"
set=0
if [ -z "$1" ] || [[ $1 == -h ]] || [[ $1 == --help ]]; then
usage
exit
fi
calcXmx () {
source "$DIR""/calcmem.sh"
setEnvironment
parseXmx "$@"
}
calcXmx "$@"
function mergepgm() {
local CMD="java $EA $EOOM $z -cp $CP prok.PGMTools $@"
echo $CMD >&2
eval $CMD
}
mergepgm "$@"
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