add picard libs

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11842 ee4ac58c-ac51-4696-9907-e4b3aa274f04

Makefile

 # This is a GNU Makefile for Artemis
 
-# $Header: //tmp/pathsoft/artemis/Makefile,v 1.46 2009-08-10 08:09:56 tjc Exp $
+# $Header: //tmp/pathsoft/artemis/Makefile,v 1.47 2009-09-21 15:32:03 tjc Exp $
 
 SHELL=/bin/sh
 
@@ -8,7 +8,7 @@ SHELL=/bin/sh
 
 JAVAC := javac -source 1.5 -target 1.5 $(OPT_FLAGS) $(EXTRA_FLAGS)
 
-REAL_CLASSPATH := CLASSPATH=lib/biojava.jar:lib/jemAlign.jar:lib/j2ssh/j2ssh-core.jar:lib/ibatis/ibatis-2.3.4.726.jar:lib/ibatis/log4j-1.2.14.jar:lib/chado-14-interface.jar:lib/postgresql-8.4-701.jdbc3.jar:.
+REAL_CLASSPATH := CLASSPATH=lib/biojava.jar:lib/jemAlign.jar:lib/j2ssh/j2ssh-core.jar:lib/ibatis/ibatis-2.3.4.726.jar:lib/ibatis/log4j-1.2.14.jar:lib/chado-14-interface.jar:lib/postgresql-8.4-701.jdbc3.jar:lib/picard/picard-1.04.jar:lib/picard/sam-1.04.jar:.
 
 NAMES:= \
 	uk/ac/sanger/artemis/OptionChangeListener \

art

@@ -6,7 +6,7 @@
 # necessary a symbolic link can be made to this script from
 # /usr/local/bin/ or elsewhere.
 
-# $Header: //tmp/pathsoft/artemis/art,v 1.24 2009-08-10 08:12:21 tjc Exp $
+# $Header: //tmp/pathsoft/artemis/art,v 1.25 2009-09-21 15:34:45 tjc Exp $
 
 # resolve links - $0 may be a link
 PRG=$0
@@ -37,6 +37,10 @@ CLASSPATH=$CLASSPATH:$ARTEMIS_HOME/lib/j2ssh/commons-logging.jar:$ARTEMIS_HOME/l
 CLASSPATH=$CLASSPATH:$ARTEMIS_HOME/lib/ibatis/ibatis-2.3.4.726.jar:$ARTEMIS_HOME/lib/ibatis/:$ARTEMIS_HOME/lib/ibatis/log4j-1.2.14.jar:$ARTEMIS_HOME/lib/ibatis/cglib-nodep-2.2.jar:$ARTEMIS_HOME/lib/retrotranslator-runtime-1.1.0.jar
 export CLASSPATH
 
+# picard jars
+CLASSPATH=$CLASSPATH:lib/picard/sam-1.04.jar:lib/picard/picard-1.04.jar
+export CLASSPATH
+
 
 ARTEMIS_PROPERTIES="-Dartemis.environment=UNIX"