mascotdatfile-3.4.9.jar included

 need some tests

.classpath

@@ -31,8 +31,8 @@
 	<classpathentry kind="lib" path="lib/http/commons-logging-1.0.4.jar"/>
 	<classpathentry kind="lib" path="lib/swt/swt-gtk-linux-x86_64.jar"/>
 	<classpathentry kind="lib" path="lib/cxf-common-utilities-2.2.4.jar"/>
-	<classpathentry kind="lib" path="lib/mascotdatfile-3.3.jar"/>
 	<classpathentry kind="lib" path="lib/ods2csv.jar"/>
 	<classpathentry kind="lib" path="lib/javacsv.jar"/>
+	<classpathentry kind="lib" path="lib/mascotdatfile-3.4.9.jar"/>
 	<classpathentry kind="output" path="bin"/>
 </classpath>

CMakeLists.txt

@@ -8,7 +8,7 @@ SET (Java_JAR_EXECUTABLE "/usr/lib/jvm/java-6-openjdk-amd64/bin/jar")
 SET (Java_JAVAC_EXECUTABLE "/usr/lib/jvm/java-6-openjdk-amd64/bin/javac")
 SET (ANT_EXECUTABLE "/usr/bin/ant")
 
-SET (MASCOT_DAT_FILE_JAR "mascotdatfile-3.3.jar")
+SET (MASCOT_DAT_FILE_JAR "mascotdatfile-3.4.9.jar")
 
 SET (JNLP_HREF "http://pappso.inra.fr/bioinfo/xtandempipeline/xtandempipeline.jnlp")
 SET (JNLP_CODEBASE "http://pappso.inra.fr/downloads/xtandem_pipeline/")

build_ubuntu.xml.cmake

@@ -19,17 +19,6 @@
 	<property name="confDir" location="src/conf/release" />
 	<property name="docDir" location="doc" />
 
-	<target name="updateSharedLibraries">
-
-		<copy file="@CMAKE_SOURCE_DIR@/lib/javacsv.jar" tofile="${share}/xtandempipeline/javacsv.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/ods2csv.jar" tofile="${share}/xtandempipeline/ods2csv.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/libproteomicsvg.jar" tofile="${share}/xtandempipeline/libproteomicsvg.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/libodsstream.jar" tofile="${share}/xtandempipeline/libodsstream.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/PPClient.jar" tofile="${share}/xtandempipeline/PPClient.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/mascotdatfile-3.3.jar" tofile="${share}/xtandempipeline/mascotdatfile-3.3.jar" overwrite="true" />
-		<copy file="@CMAKE_SOURCE_DIR@/lib/cxf-common-utilities-2.2.4.jar" tofile="${share}/xtandempipeline/cxf-common-utilities-2.2.4.jar" overwrite="true" />
-		
-	</target>
 
 
 	<target name="reset">