Skip to content

Commit 217f6a0

Browse files
baltzellbaltzell
committed
make it work (on linux)
1 parent 2f22902 commit 217f6a0

File tree

1 file changed

+39
-32
lines changed

1 file changed

+39
-32
lines changed

‎bin/run-clara‎

Lines changed: 39 additions & 32 deletions
Original file line numberDiff line numberDiff line change
@@ -1,63 +1,70 @@
1-
#!/bin/bash
1+
#!/usr/bin/env bash
22

3-
usage="Usage: run-clara -y yamlfile [-i dirorfile] [-o dir] [-t threads] [-n nevents] [-c CLARA_HOME]"
3+
usage="Usage: run-clara -y YAML [-i INP] [-o OUT] [-c CLARA] [-t #] [-n #]"
4+
info="\nOptions:\n
5+
-y path to CLARA YAML steering file\n
6+
-i input HIPO file or directory of *.hipo files (default=.)\n
7+
-o output directory (default=.)\n
8+
-c CLARA installation (default=\$CLARA_HOME)\n
9+
-t number of threads (default=2)\n
10+
-n number of events (default=-1)\n\n
11+
Defaults will use \$CLARA_HOME to read all *.hipo files in \$PWD,\n
12+
with all output written to \$PWD."
413

514
function error() {
6-
echo -e "\n$usage\n\nERROR: $@" && exit 1
15+
echo -e "\n$usage\n\nERROR: $@." && exit 1
716
}
817

918
function abspath() {
1019
[ -d $1 ] && echo $(cd $1 && pwd) && return 0
11-
[ -f $1 ] && echo $(cd $(dirname $1) && pwd)/$1 && return 0
20+
[ -r $1 ] && echo $(cd $(dirname $1) && pwd)/$(basename $1) && return 0
1221
return 1
1322
}
1423

1524
ulimit -u 49152 >& /dev/null
1625
set -e
1726

18-
# Check user options:
27+
# Check user command-line options:
1928
input=.
2029
output=.
2130
threads=2
22-
while getopts i:o:y:t:n:c:h opt
31+
while getopts i:o:c:y:t:n:h opt
2332
do
2433
case $opt in
2534
i) input=$OPTARG ;;
2635
o) output=$OPTARG ;;
27-
y) yaml=$OPTARG ;;
28-
t) threads=$OPTARG ;;
29-
n) nevents="-e $OPTARG" ;;
3036
c) CLARA_HOME=$OPTARG ;;
31-
h) echo $usage && exit 0 ;;
32-
?) error "Unknown option: $1" ;;
37+
y) yaml=$OPTARG && [ -r $yaml ] || error "-y must be a YAML file" ;;
38+
t) threads=$OPTARG && [[ $threads =~ '^[0-9]+$' ]] || error "-t must be an integer, threads" ;;
39+
n) nevents="-e $OPTARG" && [[ $nevents =~ '^[0-9]+$' ]] || error "-n must be an integer, events" ;;
40+
h) echo -e $usage && echo -e $info && exit 0 ;;
3341
esac
3442
done
35-
[ -z ${CLARA_HOME+x} ] && error "CLARA_HOME must be specified."
36-
[ -d $CLARA_HOME ] || error "CLARA_HOME is missing: $CLARA_HOME"
37-
[ -z ${yaml+x} ] && error "-y YAML must be specified."
38-
[ -r $yaml ] || error "YAML file does not exist."
43+
shift $((OPTIND-1))
44+
[ $# -gt 0 ] && error "Unknown arguments: $@"
45+
[ -z ${yaml+x} ] && error "-y YAML must be specified"
46+
[ -z ${CLARA_HOME+x} ] && error "-c must be specified or \$CLARA_HOME set"
47+
[ -d $CLARA_HOME ] || error "Invalid CLARA_HOME: $CLARA_HOME"
3948
[ $threads -eq 0 ] && threads=`grep -c ^processor /proc/cpuinfo`
49+
test -e $input && test -r $input || error "Invalid inputs -i: $input"
4050

41-
# Normalize all user paths:
42-
export CLARA_HOME=$(abspath $CLARA_HOME)
51+
# Create the environment variables and directories required by CLARA:
52+
[ -e $output ] && echo "WARNING: Using existing directory: $output."
53+
mkdir -p -v $output || error "Cannot create -o output directory: $output"
54+
mkdir -p $output/log $output/config $output/data/output
55+
export CLARA_USER_DATA=$output
56+
unset CLARA_MONITOR_FE
57+
58+
# Normalize all paths:
4359
input=$(abspath $input)
4460
output=$(abspath $output)
4561
yaml=$(abspath $yaml)
62+
export CLARA_HOME=$(abspath $CLARA_HOME)
4663

47-
# Set the environment variables and directories required by CLARA:
48-
unset CLARA_MONITOR_FE
49-
export CLARA_USER_DATA=$(mktemp -d $output/run-clara.tmp.XXXXXX)
50-
cd $CLARA_USER_DATA
51-
mkdir -p $CLARA_USER_DATA/log
52-
mkdir -p $CLARA_USER_DATA/config
53-
mkdir -p $CLARA_USER_DATA/data/output
54-
55-
# Generate the required file containing a file list for CLARA:
56-
# (Note, that file list must contain relative paths, not absolute.)
57-
test -e $input || eror "Invalid inputs: $input"
58-
test -d $input && find $input -maxdepth 1 -type f -name '*.hipo' -exec basename {} \; > filelist.txt
59-
test -f $input && echo $(basename $input) > filelist.txt
60-
[ $(cat filelist.txt | wc -l) -gt 0 ] || error "Found no input files."
64+
# Generate the file for CLARA containing a file list (of relative paths, not absolute):
65+
test -d $input && find $input -maxdepth 1 -type f -name '*.hipo' -exec basename {} \; > $CLARA_USER_DATA/filelist.txt
66+
test -f $input && echo $(basename $input) > $CLARA_USER_DATA/filelist.txt
67+
[ $(cat $CLARA_USER_DATA/filelist.txt | wc -l) -gt 0 ] || error "Found no input files."
6168

6269
# Finally, run CLARA:
6370
$CLARA_HOME/lib/clara/run-clara \
@@ -69,5 +76,5 @@ $CLARA_HOME/lib/clara/run-clara \
6976
$nevents \
7077
-s recon \
7178
$yaml \
72-
./filelist.txt
79+
./$CLARA_USER_DATA/filelist.txt
7380

0 commit comments

Comments
 (0)