File: bloomfilterparser.sh

package info (click to toggle)
bbmap 39.20%2Bdfsg-3
  • links: PTS, VCS
  • area: main
  • in suites: forky, sid
  • size: 26,024 kB
  • sloc: java: 312,743; sh: 18,099; python: 5,247; ansic: 2,074; perl: 96; makefile: 39; xml: 38
file content (59 lines) | stat: -rwxr-xr-x 1,308 bytes parent folder | download | duplicates (3)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
#!/bin/bash

usage(){
echo "
Written by Brian Bushnell
Last modified October 5, 2022

Description:  Parses verbose output from bloomfilter.sh for a specific paper.
Irrelevant for most people, but useful for reproducing published results.
You use it to parse output from bloomfilter.sh and tabulate it.

Usage:  bloomfilterparser.sh in=<input file> out=<output file>

...where the input file is whatever bloomfilter.sh prints to the screen.  E.G.
in=slurm-3249652.out out=summary.txt

You get details of calls to increment() if you add the verbose flag.

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="-Xmx300m"
z="-Xms300m"
set=0

if [ -z "$1" ] || [[ $1 == -h ]] || [[ $1 == --help ]]; then
	usage
	exit
fi

calcXmx () {
	source "$DIR""/calcmem.sh"
	setEnvironment
	parseXmx "$@"
}
calcXmx "$@"

parsebloom() {
	local CMD="java $EA $EOOM $z -cp $CP bloom.ParseBloomFilter $@"
	echo $CMD >&2
	eval $CMD
}

parsebloom "$@"