Newer
Older
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
#!/bin/sh -
# This script will start ACT on a UNIX system. This script should
# be left in the same directory as the rest of the ACT
# distribution, so that the java class files can be found. If
# necessary a symbolic link can be made to this script from
# /usr/local/bin/ or elsewhere.
# $Header: //tmp/pathsoft/artemis/act.command,v 1.1 2005-06-20 09:56:09 tjc Exp $
# resolve links - $0 may be a link
PRG=$0
progname=`basename $0`
#PSU_PROD_JAVA_VERSION=1.4.2
#. $PSU_CONFIG_DIR/shell/java_environment.sh
while [ -h "$PRG" ] ; do
ls=`ls -ld "$PRG"`
link=`expr "$ls" : '.*-> \(.*\)$'`
if expr "$link" : '.*/.*' > /dev/null; then
PRG="$link"
else
PRG="`dirname $PRG`/$link"
fi
done
ACT_HOME=`dirname "$PRG"`/.
CLASSPATH=$ACT_HOME:$ACT_HOME/lib/JacORB.jar:$ACT_HOME/lib/jemAlign.jar:$ACT_HOME/lib/jakarta-regexp-1.2.jar:$ACT_HOME/lib/macos.jar:$CLASSPATH
export CLASSPATH
ACT_PROPERTIES="-Dartemis.environment=UNIX"
MEM="-mx150m -ms20m"
if [ "$JVM_FLAGS" = "" ]
then
FLAGS="$MEM -noverify"
else
FLAGS="$MEM -noverify $JVM_FLAGS"
fi
# work-around for OSF JVM core dump problem
if [ `uname` = OSF1 ]
then
FLAGS="$FLAGS -Dsimple_splash_screen=true"
fi
QUIET=no
if [ $# = 0 ]
then
:
else
if [ x$1 = x-h -o x$1 = x--help ]
then
cat <<EOF
usage: $0 [EMBL/GENBANK/SEQUENCE file] [EMBL/GENBANK/SEQUENCE file] [crunch file]
EOF
exit 0
fi
while test $# != 0
do
case $1 in
-options) FLAGS="$FLAGS -Dextra_options=$2"; shift ;;
-D*) FLAGS="$FLAGS $1" ;;
-fast) FLAGS="$FLAGS -fast" ;;
-quiet) QUIET=yes ; FLAGS="$FLAGS -Drun_quietly=true" ;;
-debug) DEBUG=yes ;;
*) break ;;
esac
shift
done
fi
if [ "$JAVA_VM" = "" ]
then
if [ "$DEBUG" = yes ]
then
JAVA=java_g
else
JAVA=java
fi
else
JAVA=$JAVA_VM
fi
if [ $QUIET = no ]
then
echo starting ACT with flags: $FLAGS 1>&2
fi
$JAVA -Dcom.apple.mrj.application.apple.menu.about.name="ACT" $FLAGS $ACT_PROPERTIES uk.ac.sanger.artemis.components.ActMain $*