csp2: CSP2/CSP2_env/env-d9b9114564458d9d-741b3de822f2aaca6c6caa4325c4afce/opt/bbmap-39.01-1/processspeed.sh annotate

planemo upload commit 2e9511a184a1ca667c7be0c6321a36dc4e3d116d

rev	line source
jpayne@69	1 #!/bin/bash
jpayne@69	2
jpayne@69	3 usage(){
jpayne@69	4 echo "
jpayne@69	5 Written by Brian Bushnell
jpayne@69	6 Last modified December 6, 2016
jpayne@69	7
jpayne@69	8 Description: Summarizes results of Linux time command.
jpayne@69	9
jpayne@69	10 Usage: processspeed.sh <file>
jpayne@69	11
jpayne@69	12 Please contact Brian Bushnell at bbushnell@lbl.gov if you encounter any problems.
jpayne@69	13 "
jpayne@69	14 }
jpayne@69	15
jpayne@69	16 #This block allows symlinked shellscripts to correctly set classpath.
jpayne@69	17 pushd . > /dev/null
jpayne@69	18 DIR="${BASH_SOURCE[0]}"
jpayne@69	19 while [ -h "$DIR" ]; do
jpayne@69	20 cd "$(dirname "$DIR")"
jpayne@69	21 DIR="$(readlink "$(basename "$DIR")")"
jpayne@69	22 done
jpayne@69	23 cd "$(dirname "$DIR")"
jpayne@69	24 DIR="$(pwd)/"
jpayne@69	25 popd > /dev/null
jpayne@69	26
jpayne@69	27 #DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )/"
jpayne@69	28 CP="$DIR""current/"
jpayne@69	29
jpayne@69	30 z="-Xmx120m"
jpayne@69	31 set=0
jpayne@69	32
jpayne@69	33 if [ -z "$1" ] \|\| [[ $1 == -h ]] \|\| [[ $1 == --help ]]; then
jpayne@69	34 usage
jpayne@69	35 exit
jpayne@69	36 fi
jpayne@69	37
jpayne@69	38 calcXmx () {
jpayne@69	39 source "$DIR""/calcmem.sh"
jpayne@69	40 setEnvironment
jpayne@69	41 parseXmx "$@"
jpayne@69	42 }
jpayne@69	43 calcXmx "$@"
jpayne@69	44
jpayne@69	45 processspeed() {
jpayne@69	46 local CMD="java $EA $EOOM $z -cp $CP driver.ProcessSpeed2 $@"
jpayne@69	47 # echo $CMD >&2
jpayne@69	48 eval $CMD
jpayne@69	49 }
jpayne@69	50
jpayne@69	51 processspeed "$@"

Mercurial > repos > rliterman > csp2