Hello HDF5 and JHDF5 users,
I am trying to get the follow program to work but have not succeeded. Any
suggestion and clarification is much appreciated.
Vang
###################CopyExample.java###############
package ch.systemsx.cisd.hdf5.examples;
import ch.systemsx.cisd.hdf5.HDF5Factory;
import ch.systemsx.cisd.hdf5.IHDF5Reader;
import ch.systemsx.cisd.hdf5.IHDF5Writer;
/**
* Test copying of groups
*/
public class CopyExample
{
public static void main(String[] args)
{
IHDF5Writer writer = HDF5Factory.configure("testcopy.h5").writer();
IHDF5Writer testcopysource =
HDF5Factory.configure("testcopysource.h5").writer();
testcopysource.object().createGroup("/TestGroup");
testcopysource.close();
IHDF5Reader testcpsource =
HDF5Factory.openForReading("testcopysource.h5") ;
testcpsource.object().copy("/TestGroup", writer);
writer.close();
testcpsource.close();
}
}
###################################
Error message:
/usr/lib/jvm/java-7-oracle/bin/java -Didea.launcher.port=7540
-Didea.launcher.bin.path=/home/user/bin/opt/idea-IU-139.659.2/bin
-Dfile.encoding=UTF-8 -classpath
/usr/lib/jvm/java-7-oracle/jre/lib/javaws.jar:/usr/lib/jvm/java-7-oracle/jre/lib/resources.jar:/usr/lib/jvm/java-7-oracle/jre/lib/jfxrt.jar:/usr/lib/jvm/java-7-oracle/jre/lib/deploy.jar:/usr/lib/jvm/java-7-oracle/jre/lib/management-agent.jar:/usr/lib/jvm/java-7-oracle/jre/lib/jce.jar:/usr/lib/jvm/java-7-oracle/jre/lib/jfr.jar:/usr/lib/jvm/java-7-oracle/jre/lib/rt.jar:/usr/lib/jvm/java-7-oracle/jre/lib/plugin.jar:/usr/lib/jvm/java-7-oracle/jre/lib/jsse.jar:/usr/lib/jvm/java-7-oracle/jre/lib/charsets.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/sunec.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/sunjce_provider.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/zipfs.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/sunpkcs11.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/localedata.jar:/usr/lib/jvm/java-7-oracle/jre/lib/ext/dnsns.jar:/home/user/repos
itories/github/TestJHDF5/target/classes:/home/user/.ivy2/cache/org.scala-lang/scala-library/jars/scala-library-2.10.2.jar:/home/user/.ivy2/cache/org.scala-lang/scala-reflect/jars/scala-reflect-2.10.2.jar:/home/user/repositories/github/TestJHDF5/lib/sis-jhdf5-batteries_included.jar:/home/user/.m2/repository/org/slf4j/slf4j-api/1.7.5/slf4j-api-1.7.5.jar:/home/user/.m2/repository/org/slf4j/slf4j-simple/1.7.5/slf4j-simple-1.7.5.jar:/home/user/.m2/repository/org/scala-lang/scala-library/2.10.2/scala-library-2.10.2.jar:/home/user/bin/opt/idea-IU-139.659.2/lib/idea_rt.jar
com.intellij.rt.execution.application.AppMain
ch.systemsx.cisd.hdf5.examples.CopyExample
Exception in thread "main"
ncsa.hdf.hdf5lib.exceptions.HDF5SymbolTableException: Symbol table:Object
already exists ["H5L.c line 1674 in H5L_link_cb(): name already exists"]
at ch.systemsx.cisd.hdf5.hdf5lib.H5.H5Gcreate(Native Method)
at ch.systemsx.cisd.hdf5.hdf5lib.H5GLO.H5Gcreate(H5GLO.java:59)
at ch.systemsx.cisd.hdf5.HDF5.createGroup(HDF5.java:275)
at
ch.systemsx.cisd.hdf5.HDF5ObjectReadWriteInfoProviderHandler.createGroup(HDF5ObjectReadWriteInfoProviderHandler.java:144)
at ch.systemsx.cisd.hdf5.examples.CopyExample.main(CopyExample.java:35)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at com.intellij.rt.execution.application.AppMain.main(AppMain.java:134)
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