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
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
|
#!/bin/bash
VERSION="0.0.1"
function Usage {
cat <<USAGE
Usage:
`basename $0` [-h ] [-r ] [-j nb_jobs ] command arg_list
Optional arguments:
-h: Shows help
-r: Replace asterix * in the command string with argument
-j: Number of cpu cores to use (default 2)
Examples:
`basename $0` somecommand arg1 arg2 arg3
`basename $0` -j 3 \"somecommand -r -p\" arg1 arg2 arg3
`basename $0` -j 6 -r \"convert -scale 50% * small/small_*\" *.jpg"
In case you terminate this script prematurely by pressing CTRL + C, run
${here}/killme.sh to terminate any remaining processes.
USAGE
exit 0
}
function Help {
cat <<HELP
This is a simple wrapper for running processes in parallel. Tested both on
Mac (Darwin) and Linux (CentOS 5).
Usage:
`basename $0` [-h ] [-r ] [-j nb_jobs ] command arg_list
Optional arguments:
-h: Shows this help
-r: Replace asterix * in the command string with argument
-j: Number of cpu cores to use (default 2)
Examples:
`basename $0` somecommand arg1 arg2 arg3
`basename $0` -j 3 \"somecommand -r -p\" arg1 arg2 arg3
`basename $0` -j 6 -r \"convert -scale 50% * small/small_*\" *.jpg"
In case you terminate this script prematurely by pressing CTRL + C, run
${here}/killme.sh to terminate any remaining processes.
--------------------------------------------------------------------------------------
Original script by Kawakamasu:
http://pebblesinthesand.wordpress.com/category/parallel-computing/
Script adapted by:
Brian Avants, Penn Image Computing And Science Laboratory
N.M. van Strien, http://www.mri-tutorial.com | NTNU MR-Center
--------------------------------------------------------------------------------------
HELP
exit 0
}
function queue {
QUEUE="$QUEUE $1"
NUM=$(($NUM+1))
}
function regeneratequeuelinux {
OLDREQUEUE=$QUEUE
QUEUE=""
NUM=0
for PID in $OLDREQUEUE
do
if [ -d /proc/$PID ] ; then
QUEUE="$QUEUE $PID"
NUM=$(($NUM+1))
fi
done
}
function checkqueuelinux {
OLDCHQUEUE=$QUEUE
for PID in $OLDCHQUEUE
do
if [ ! -d /proc/$PID ] ; then
regeneratequeuelinux # at least one PID has finished
break
fi
done
}
function regeneratequeuemac {
OLDREQUEUE=$QUEUE
QUEUE=""
NUM=0
for PID in $OLDREQUEUE
do
whm=` whoami `
num=` ps U $whm | grep -i "${PID} " | wc -l `
if [ $num = 2 ] ; then
QUEUE="$QUEUE $PID"
NUM=$(($NUM+1))
fi
done
}
function checkqueuemac {
OLDCHQUEUE=$QUEUE
for PID in $OLDCHQUEUE
do
whm=` whoami `
num=` ps U $whm | grep -i "${PID} " | wc -l `
if [ $num = 1 ] ; then
regeneratequeuemac # at least one PID has finished
break
fi
done
}
here=`pwd`
NUM=0
QUEUE=""
MAX_NPROC=2 # default
REPLACE_CMD=0 # no replacement by default
# parse command line
if [ $# -eq 0 ]; then # must be at least one arg
Usage >&2
fi
while getopts j:rh OPT; do # "j:" waits for an argument "h" doesnt
case $OPT in
h) Help ;;
j) MAX_NPROC=$OPTARG ;;
r) REPLACE_CMD=1 ;;
\?) Usage >&2 ;;
esac
done
# Main program
echo Using max $MAX_NPROC parallel threads
if [ $MAX_NPROC -eq 1 ] ; then
echo " Dont use pexec to run 1 process at a time. "
echo " In this case, just run in series. "
exit
fi
shift `expr $OPTIND - 1` # shift input args, ignore processed args
COMMAND=$1
shift
# keep list of started processes
echo "#!/bin/bash" >> ${here}/killme.sh
chmod +x ${here}/killme.sh
for INS in $* # for the rest of the arguments
do
# DEFINE COMMAND
if [ $REPLACE_CMD -eq 1 ]; then
CMD=${COMMAND//"*"/$INS}
else
CMD="$COMMAND $INS" #append args
fi
echo "Running $CMD"
eval "$CMD &"
# DEFINE COMMAND END
PID=$!
echo "kill $PID" >> ${here}/killme.sh
queue $PID
osmac=0
osmac="` uname -a | grep Darwin `"
oslin=0
oslin="`uname -a | grep Linux`"
if [ ${#osmac} -ne 0 ]
then
while [ $NUM -ge $MAX_NPROC ]; do
checkqueuemac
sleep 0.5
done
elif [ ${#oslin} -ne 0 ]
then
while [ $NUM -ge $MAX_NPROC ]; do
checkqueuelinux
sleep 0.5
done
fi
done
wait # wait for all processes to finish before exit
rm ${here}/killme.sh
exit 0
|
