Glassfish crashes with no error message

glassfishrobot commented 15 years ago

Hello: We are having a strange problem where our NeticaJ webservice causes glassfish V2 [Sun Java System Application Server 9.1_02 (build b04-fcs)] to crash on (os.name = Linux os.version = 2.6.18-92.1.13.el5) and there is no error message printed, nor in the server.log.

Our web service uses NeticaJ in the web method, glassfish V2 as the web application server, and is generated from the NETBeans IDE.

Can you help us please? We do not see this problem when the glassfish is running on Windows XP or on MacIntosh-type Linux.

I have made a minimal example that shows the problem. Have run that and am enclosing the logs. The minimal example is very simple perhaps you could try to duplicate our problem.

The web service uses NeticaJ a very good third-party product which is packaged as NeticaJ.jar, libNetica.a, and libNeticaJ.so. From our experience on windows, we place the libNetica.a, and libNeticaJ.so into glassfish_home/lib, and we declare NeticaJ.jar as a library in our NetBeans IDE so it gets packaged into WEB- INF/lib in the WAR file.

We can't seem to find the problem, but here is what we have noticed so far: 1)Glassfish throws an error upon startup: WARNING: updates.bean.create.failed [Fatal Error] :12:69: The content of elements must consist of well-formed character data or markup. Dec 4, 2008 1:36:25 PM com.sun.enterprise.update.util.ConfigUtil readCatalog

2)After the crash, there are errors in the JVM.log: <dependency_failed type='unique_concrete_method' x='java/util/jar/JarFile getEntry (Ljava/lang/String;)Ljava/util/zip/ZipEntry;' witness='sun/net/www/protocol/jar/URLJarFile' stamp='0.285'/>

Here is the java code for the web method(from Netica Demo): package neticaprob;

import javax.jws.WebMethod; import javax.jws.WebService; import norsys.netica.Environ; import norsys.netica.Net; import norsys.neticaEx.aliases.Node;

/*

@author 183948 */ @WebService() public class NeticaProblemService {

/**

Web service operation */ @WebMethod(operationName = "runNetica") public String runNetica() { try {

System.out.println ("\nWelcome to Netica-J !\n");

Node.setConstructorClass ("norsys.neticaEx.aliases.Node"); //Environ env = new Environ (null);

Net net = new Net();

Node visitAsia = new Node ("VisitAsia", "visit,no_visit", net); Node tuberculosis = new Node ("Tuberculosis", "present,absent", net); Node smoking = new Node ("Smoking", "smoker,nonsmoker", net); Node cancer = new Node ("Cancer", "present,absent", net); Node tbOrCa = new Node ("TbOrCa", "true,false", net); Node xRay = new Node ("XRay", "abnormal,normal", net);

tuberculosis.addLink (visitAsia); cancer.addLink (smoking); tbOrCa.addLink (tuberculosis); tbOrCa.addLink (cancer); xRay.addLink (tbOrCa);

float[] asiaProbs =

{ 0.01F, 0.99F }

; int[] asiaParentStates = null; visitAsia.setCPTable ( asiaParentStates, asiaProbs );

tuberculosis.setCPTable ("visit", 0.05, 0.95); tuberculosis.setCPTable ("no_visit", 0.01, 0.99);

smoking.setCPTable (0.5, 0.5);

cancer.setCPTable ("smoker", 0.1, 0.9); cancer.setCPTable ("nonsmoker", 0.01, 0.99);

tbOrCa.setEquation ("TbOrCa (Tuberculosis, Cancer) = Tuberculosis || Cancer"); tbOrCa.equationToTable (1, false, false);

// TbOrCa abnormal normal xRay.setCPTable ("true", 0.98, 0.02); xRay.setCPTable ("false", 0.05, 0.95);

net.compile();

double belief = tuberculosis.getBelief ("present"); System.out.println ("\nThe probability of tuberculosis is " + belief);

xRay.finding().enterState ("abnormal"); belief = tuberculosis.getBelief ("present"); System.out.println ("\nGiven an abnormal X-ray,\n"+ "the probability of tuberculosis is " + belief);

visitAsia.finding().enterState ("visit"); belief = tuberculosis.getBelief ("present"); System.out.println ("\nGiven an abnormal X-ray and a visit to Asia,\n" + "the probability of tuberculosis is " + belief );

cancer.finding().enterState ("present"); belief = tuberculosis.getBelief ("present"); System.out.println ("\nGiven an abnormal X-ray, Asia visit, and lung cancer,\n" + "the probability of tuberculosis is " + belief

"\n");

return "belief = " + belief;

} catch (Exception e)

{ System.out.println("IKECORESRVC - Could not create Environ object for Netica"); e.printStackTrace(); return "error = " + e.getMessage(); }

}

/**

Web service operation */ @WebMethod(operationName = "helloWorld") public String helloWorld() { //TODO write your implementation code here: return "helloWorld"; }

}

*DATA FROM LOGS*****

1)Get some errors upon starting glassfish from the script:

[gibsonw@kdd /]$ sudo /sbin/service glassfish start Password: Starting GlassfishStarting Domain domain1, please wait. Log redirected to /usr/share/glassfish/domains/domain1/logs/server.log. [Fatal Error] :12:69: The content of elements must consist of well-formed character data or markup. Dec 4, 2008 1:36:25 PM com.sun.enterprise.update.util.ConfigUtil readCatalog WARNING: updates.bean.create.failed [Fatal Error] :12:69: The content of elements must consist of well-formed character data or markup. Dec 4, 2008 1:36:25 PM com.sun.enterprise.update.util.ConfigUtil readCatalog WARNING: updates.bean.create.failed Redirecting output to /usr/share/glassfish/domains/domain1/logs/server.log Domain domain1 is ready to receive client requests. Additional services are being started in background. Domain [domain1] is running [Sun Java System Application Server 9.1_02 (build b04-fcs)] with its configuration and logs at: [/usr/share/glassfish/domains]. Admin Console is available at http://localhost:4848. Use the same port [4848] for "asadmin" commands. User web applications are available at these URLs: [http://localhost:8080 https://localhost:8181](http://localhost:8080 https://localhost:8181). Following web-contexts are available: [/web1 /__wstx-services /WebIKE /IkeCoreService /NeticaOnRedhatProblem ]. Standard JMX Clients (like JConsole) can connect to JMXServiceURL: [service:jmx:rmi:///jndi/rmi://kdd.lanl.gov:8686/jmxrmi] for domain management purposes. Domain listens on at least following ports for connections: [8080 8181 4848 3700 3820 3920 8686 ]. Domain does not support application server clusters and other standalone instances.

[gibsonw@kdd /]$

2)Used Admin WebPage to rotate the logs

3)Used Admin WebPage to "test" the web service by calling web method "runNetica" The method ran correctly then glassfish crashed.

[#|2008-12-04T13:44:14.442-0700|INFO|sun- appserver9.1|javax.enterprise.system.container.ejb|_ThreadID=17;_ThreadName=http SSLWorkerThread-8080-0;jdbc/TimerPool;|EJB5109:EJB Timer Service started successfully for datasource [jdbc/TimerPool]|#]

| #] |

| #] |

compiling code...

| #] |

Welcome to Netica-J !

| #] |

The probability of tuberculosis is 0.010399999096989632|#]

Given an abnormal X-ray, the probability of tuberculosis is 0.09241089969873428|#]

Given an abnormal X-ray and a visit to Asia, the probability of tuberculosis is 0.33771562576293945|#]

Given an abnormal X-ray, Asia visit, and lung cancer, the probability of tuberculosis is 0.05000000074505806

| #]

4)Manually restarted the server. Here is the start-up portion of the server.log: Dec 4, 2008 1:50:52 PM com.sun.enterprise.admin.servermgmt.launch.ASLauncher buildCommand INFO: /usr/java/jdk1.6.0_10/jre/../bin/java -Dcom.sun.aas.instanceRoot=/usr/share/glassfish/domains/domain1 -Dcom.sun.aas.ClassPathPrefix= -Dcom.sun.aas.ClassPathSuffix= -Dcom.sun.aas.ServerClassPath= -Dcom.sun.aas.classloader.appserverChainJars.ee= Dcom.sun.aas.classloader.appserverChainJars=admin-cli.jar,admin-cli ee.jar,j2ee-svc.jar Dcom.sun.aas.classloader.excludesList=admin-cli.jar,appserv-upgrade.jar,sun appserv-ant.jar -Dcom.sun.aas.classloader.optionalOverrideableChain.ee= Dcom.sun.aas.classloader.optionalOverrideableChain=webservices rt.jar,webservices-tools.jar

Dcom.sun.aas.classloader.serverClassPath.ee=/lib/hadbjdbc4.jar,/usr/share/glassf ish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar,/lib/dbstate.jar,/lib/hadbm.jar,/lib/hadbmgt .jar,/lib/mfwk_instrum_tk.jar

Dcom.sun.aas.classloader.serverClassPath=/usr/share/glassfish/lib/install/applic ations/jmsra/imqjmsra.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/lib/a nt/lib/ant.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar Dcom.sun.aas.classloader.sharedChainJars.ee=appserv-se.jar,appserv ee.jar,jesmf-plugin.jar,/lib/dbstate.jar,/lib/hadbjdbc4.jar,jgroups- all.jar,/lib/mfwk_instrum_tk.jar

Dcom.sun.aas.classloader.sharedChainJars=javaee.jar,/usr/java/jdk1.6.0_10/jre/.. /lib/tools.jar,install/applications/jmsra/imqjmsra.jar,com-sun-commons- launcher.jar,com-sun-commons-logging.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/imq/l ib/imqxm.jar,webservices-rt.jar,webservices-tools.jar,mail.jar,appserv- jstl.jar,jmxremote_optional.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt .jar,activation.jar,appserv-rt.jar,appserv-admin.jar,appserv- cmp.jar,/usr/share/glassfish/updatecenter/lib/updatecenter.jar,/usr/share/glassf ish/jbi/lib/jbi.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish /lib/ant/lib/ant.jar,dbschema.jar -Dcom.sun.aas.configName=server-config -Dcom.sun.aas.configRoot=/usr/share/glassfish/config

Dcom.sun.aas.defaultLogFile=/usr/share/glassfish/domains/domain1/logs/server.log -Dcom.sun.aas.domainName=domain1 -Dcom.sun.aas.installRoot=/usr/share/glassfish -Dcom.sun.aas.instanceName=server -Dcom.sun.aas.processLauncher=SE -Dcom.sun.aas.promptForIdentity=true

Dcom.sun.enterprise.config.config_environment_factory_class=com.sun.enterprise.c onfig.serverbeans.AppserverConfigEnvironmentFactory -Dcom.sun.enterprise.overrideablejavaxpackages=javax.help,javax.portlet -Dcom.sun.enterprise.taglibs=appserv-jstl.jar,jsf-impl.jar -Dcom.sun.enterprise.taglisteners=jsf-impl.jar -Dcom.sun.updatecenter.home=/usr/share/glassfish/updatecenter -Ddomain.name=domain1 -Djava.endorsed.dirs=/usr/share/glassfish/lib/endorsed

Djava.ext.dirs=/usr/java/jdk1.6.0_10/jre/../lib/ext:/usr/java/jdk1.6.0_10/jre/.. /jre/lib/ext:/usr/share/glassfish/domains/domain1/lib/ext:/usr/share/glassfish/j avadb/lib

Djava.library.path=/usr/share/glassfish/lib:/usr/share/glassfish/lib:/usr/share/ glassfish/lib:/usr/share/glassfish/lib

Djava.security.auth.login.config=/usr/share/glassfish/domains/domain1/config/log in.conf -Djava.security.policy=/usr/share/glassfish/domains/domain1/config/server.policy -Djava.util.logging.manager=com.sun.enterprise.server.logging.ServerLogManager

Djavax.management.builder.initial=com.sun.enterprise.admin.server.core.jmx.AppSe rverMBeanServerBuilder

Djavax.net.ssl.keyStore=/usr/share/glassfish/domains/domain1/config/keystore.jks

Djavax.net.ssl.trustStore=/usr/share/glassfish/domains/domain1/config/cacerts.jk s -Djdbc.drivers=org.apache.derby.jdbc.ClientDriver -Djmx.invoke.getters=true -Dsun.rmi.dgc.client.gcInterval=3600000 -Dsun.rmi.dgc.server.gcInterval=3600000 -client -XX:+UnlockDiagnosticVMOptions -XX:MaxPermSize=192m -Xmx512m -XX:NewRatio=2 -XX:+LogVMOutput -XX:LogFile=/usr/share/glassfish/domains/domain1/logs/jvm.log -cp /usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/appserv-launch.jar com.sun.enterprise.server.PELaunch start [# | 2008-12-04T13:50:52.665-0700 | INFO | sun- appserver9.1 | javax.enterprise.system.core | _ThreadID=10;_ThreadName=main; | Startin g Sun Java System Application Server 9.1_02 (build b04-fcs) ... | #] |

[#|2008-12-04T13:50:57.137-0700|INFO|sun- appserver9.1|javax.enterprise.system.tools.admin|_ThreadID=12;_ThreadName=Thread -16;service:jmx:rmi:///jndi/rmi://kdd.lanl.gov:8686/jmxrmi;|ADM1504: Here is the JMXServiceURL for the Standard JMXConnectorServer: [service:jmx:rmi:///jndi/rmi://kdd.lanl.gov:8686/jmxrmi]. This is where the remote administrative clients should connect using the standard JMX connectors|#]

5)Here is the JVM Log after start-up: NO ERRORS

- - - Java Virtual Machine [App Server Instance Name: server] Summary **** Operating System Information: Name of the Operating System: Linux Binary Architecture name of the Operating System: i386, Version: 2.6.18- 92.1.13.el5 Number of processors available on the Operating System: 4

General Java Runtime Environment Information for the VM: 16876@kdd.lanl.gov JRE BootClassPath: /usr/share/glassfish/lib/endorsed/activation.jar:/usr/share/glass fish/lib/endorsed/webservices- api.jar:/usr/java/jdk1.6.0_10/jre/lib/resources.jar:/usr/java/jdk1.6.0_10/jre/li b/rt.jar:/usr/java/jdk1.6.0_10/jre/lib/sunrsasign.jar:/usr/java/jdk1.6.0_10/jre/ lib/jsse.jar:/usr/java/jdk1.6.0_10/jre/lib/jce.jar:/usr/java/jdk1.6.0_10/jre/lib /charsets.jar:/usr/java/jdk1.6.0_10/jre/classes JRE ClassPath: /usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/appserv- launch.jar:/usr/share/glassfish/lib/javaee.jar:/usr/java/jdk1.6.0_10/jre/../lib/ tools.jar:/usr/share/glassfish/lib/install/applications/jmsra/imqjmsra.jar:/usr/ share/glassfish/lib/com-sun-commons-launcher.jar:/usr/share/glassfish/lib/com- sun-commons-logging.jar:/usr/share/glassfish/imq/lib/jaxm- api.jar:/usr/share/glassfish/imq/lib/fscontext.jar:/usr/share/glassfish/imq/lib/ imqbroker.jar:/usr/share/glassfish/imq/lib/imqjmx.jar:/usr/share/glassfish/imq/l ib/imqxm.jar:/usr/share/glassfish/lib/webservices- rt.jar:/usr/share/glassfish/lib/webservices- tools.jar:/usr/share/glassfish/lib/mail.jar:/usr/share/glassfish/lib/appserv- jstl.jar:/usr/share/glassfish/lib/jmxremote_optional.jar:/usr/share/glassfish/li b/SUNWjdmk/5.1/lib/jdmkrt.jar:/usr/share/glassfish/lib/activation.jar:/usr/share /glassfish/lib/appserv-rt.jar:/usr/share/glassfish/lib/appserv- admin.jar:/usr/share/glassfish/lib/appserv- cmp.jar:/usr/share/glassfish/updatecenter/lib/updatecenter.jar:/usr/share/glassf ish/jbi/lib/jbi.jar:/usr/share/glassfish/imq/lib/imqjmx.jar:/usr/share/glassfish /lib/ant/lib/ant.jar:/usr/share/glassfish/lib/dbschema.jar:/usr/share/glassfish/ lib/jesmf- plugin.jar:/usr/share/glassfish/lib/jxta.jar:/usr/share/glassfish/lib/appserv- jwsacc.jar:/usr/share/glassfish/lib/appserv- ee.jar:/usr/share/glassfish/lib/toplink-essentials- agent.jar:/usr/share/glassfish/lib/appserv- se.jar:/usr/share/glassfish/lib/shoal- gms.jar:/usr/share/glassfish/lib/NeticaJ.jar:/usr/share/glassfish/lib/j2ee.jar:/ usr/share/glassfish/lib/appserv-ws.jar:/usr/share/glassfish/lib/appserv- tags.jar:/usr/share/glassfish/lib/appserv-deployment- client.jar:/usr/share/glassfish/lib/appserv- launch.jar:/usr/share/glassfish/lib/Pack200Task.jar:/usr/share/glassfish/lib/jma c-api.jar:/usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/appserv- ext.jar:/usr/share/glassfish/lib/jsf-impl.jar:/usr/share/glassfish/lib/toplink- essentials.jar:/usr/share/glassfish: JRE Native Library Path: /usr/share/glassfish/lib:/usr/share/glassfish/lib:/usr/share/glassfish/lib :/usr/share/glassfish/lib JRE name: Java HotSpot(TM) Client VM Vendor: Sun Microsystems Inc. Version: 11.0-b15 List of System Properties for the Java Virtual Machine: catalina.base = /usr/share/glassfish/domains/domain1 catalina.home = /usr/share/glassfish/domains/domain1 catalina.useNaming = false com.sun.aas.ClassPathPrefix = com.sun.aas.ClassPathSuffix = com.sun.aas.ServerClassPath = com.sun.aas.admin.logger.name = javax.enterprise.system.tools.admin com.sun.aas.antLib = /usr/share/glassfish/lib/ant/lib com.sun.aas.antRoot = /usr/share/glassfish/lib/ant com.sun.aas.classloader.appserverChainJars = admin-cli.jar,admin-cli- ee.jar,j2ee-svc.jar com.sun.aas.classloader.appserverChainJars.ee = com.sun.aas.classloader.excludesList = admin-cli.jar,appserv-upgrade.jar,sun- appserv-ant.jar com.sun.aas.classloader.optionalOverrideableChain = webservices- rt.jar,webservices-tools.jar com.sun.aas.classloader.optionalOverrideableChain.ee = com.sun.aas.classloader.serverClassPath = /usr/share/glassfish/lib/install/applications/jmsra/imqjmsra.jar,/usr/share/gl assfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/lib/a nt/lib/ant.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar com.sun.aas.classloader.serverClassPath.ee = /lib/hadbjdbc4.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar,/lib/d bstate.jar,/lib/hadbm.jar,/lib/hadbmgt.jar,/lib/mfwk_instrum_tk.jar com.sun.aas.classloader.sharedChainJars = javaee.jar,/usr/java/jdk1.6.0_10/jre/../lib/tools.jar,install/applications/jmsra /imqjmsra.jar,com-sun-commons-launcher.jar,com-sun-commons- logging.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/imq/l ib/imqxm.jar,webservices-rt.jar,webservices-tools.jar,mail.jar,appserv- jstl.jar,jmxremote_optional.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt .jar,activation.jar,appserv-rt.jar,appserv-admin.jar,appserv- cmp.jar,/usr/share/glassfish/updatecenter/lib/updatecenter.jar,/usr/share/glassf ish/jbi/lib/jbi.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish /lib/ant/lib/ant.jar,dbschema.jar com.sun.aas.classloader.sharedChainJars.ee = appserv-se.jar,appserv- ee.jar,jesmf-plugin.jar,/lib/dbstate.jar,/lib/hadbjdbc4.jar,jgroups- all.jar,/lib/mfwk_instrum_tk.jar com.sun.aas.configName = server-config com.sun.aas.configRoot = /usr/share/glassfish/config com.sun.aas.defaultLogFile = /usr/share/glassfish/domains/domain1/logs/server.log com.sun.aas.derbyRoot = /usr/share/glassfish/javadb com.sun.aas.domainName = domain1 com.sun.aas.domainsRoot = /usr/share/glassfish/domains com.sun.aas.hadbRoot = com.sun.aas.hostName = kdd.lanl.gov com.sun.aas.icuLib = /usr/share/glassfish/lib com.sun.aas.imqBin = /usr/share/glassfish/imq/bin com.sun.aas.imqLib = /usr/share/glassfish/imq/lib com.sun.aas.installRoot = /usr/share/glassfish com.sun.aas.instanceName = server com.sun.aas.instanceRoot = /usr/share/glassfish/domains/domain1 com.sun.aas.jatoRoot = /usr/share/glassfish/lib com.sun.aas.javaRoot = /usr/java/jdk1.6.0_10/jre/.. com.sun.aas.jdmkHome = /usr/share/glassfish/lib/SUNWjdmk/5.1 com.sun.aas.jhelpRoot = /usr/share/glassfish/lib com.sun.aas.mfwkHome = com.sun.aas.nativeLauncher = false com.sun.aas.nativeLauncherLibPrefix = /jre/lib/i386/client com.sun.aas.nssBin = /usr/share/glassfish/lib/admincgi com.sun.aas.nssRoot = /usr/share/glassfish/lib com.sun.aas.perlRoot = %PERL_HOME% com.sun.aas.processLauncher = SE com.sun.aas.promptForIdentity = true com.sun.aas.useNewClassLoader = true com.sun.aas.webServicesLib = /usr/share/glassfish/lib com.sun.aas.webconsoleLib = /usr/share/glassfish/lib com.sun.enterprise.appname = j2ee com.sun.enterprise.config.config_environment_factory_class = com.sun.enterprise.config.serverbeans.AppserverConfigEnvironmentFactory com.sun.enterprise.jaccprovider.property.repository = /usr/share/glassfish/domains/domain1/generated/policy com.sun.enterprise.overrideablejavaxpackages = javax.help,javax.portlet com.sun.enterprise.taglibs = appserv-jstl.jar,jsf-impl.jar com.sun.enterprise.taglisteners = jsf-impl.jar com.sun.jbi.defaultLogLevel = INFO com.sun.jbi.domain.name = domain1 com.sun.jbi.domain.root = /usr/share/glassfish/domains/domain1 com.sun.jbi.home = /usr/share/glassfish/jbi com.sun.jbi.instanceName = server com.sun.jbi.isClustered = false com.sun.jbi.platform.installRoot = /usr/share/glassfish com.sun.jbi.platform.instanceRoot = /usr/share/glassfish/domains/domain1 com.sun.updatecenter.home = /usr/share/glassfish/updatecenter common.loader = $

{catalina.home}/common/classes,${catalina.home}

/common/endorsed/*.jar,$

{catalin a.home}/common/lib/*.jar domain.name = domain1 file.encoding = UTF-8 file.encoding.pkg = sun.io file.separator = / java.awt.graphicsenv = sun.awt.X11GraphicsEnvironment java.awt.printerjob = sun.print.PSPrinterJob java.class.path = /usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/appserv- launch.jar:/usr/share/glassfish/lib/javaee.jar:/usr/java/jdk1.6.0_10/jre/../lib/ tools.jar:/usr/share/glassfish/lib/install/applications/jmsra/imqjmsra.jar:/usr/ share/glassfish/lib/com-sun-commons-launcher.jar:/usr/share/glassfish/lib/com- sun-commons-logging.jar:/usr/share/glassfish/imq/lib/jaxm- api.jar:/usr/share/glassfish/imq/lib/fscontext.jar:/usr/share/glassfish/imq/lib/ imqbroker.jar:/usr/share/glassfish/imq/lib/imqjmx.jar:/usr/share/glassfish/imq/l ib/imqxm.jar:/usr/share/glassfish/lib/webservices- rt.jar:/usr/share/glassfish/lib/webservices- tools.jar:/usr/share/glassfish/lib/mail.jar:/usr/share/glassfish/lib/appserv- jstl.jar:/usr/share/glassfish/lib/jmxremote_optional.jar:/usr/share/glassfish/li b/SUNWjdmk/5.1/lib/jdmkrt.jar:/usr/share/glassfish/lib/activation.jar:/usr/share /glassfish/lib/appserv-rt.jar:/usr/share/glassfish/lib/appserv- admin.jar:/usr/share/glassfish/lib/appserv- cmp.jar:/usr/share/glassfish/updatecenter/lib/updatecenter.jar:/usr/share/glassf ish/jbi/lib/jbi.jar:/usr/share/glassfish/imq/lib/imqjmx.jar:/usr/share/glassfish /lib/ant/lib/ant.jar:/usr/share/glassfish/lib/dbschema.jar:/usr/share/glassfish/ lib/jesmf- plugin.jar:/usr/share/glassfish/lib/jxta.jar:/usr/share/glassfish/lib/appserv- jwsacc.jar:/usr/share/glassfish/lib/appserv- ee.jar:/usr/share/glassfish/lib/toplink-essentials- agent.jar:/usr/share/glassfish/lib/appserv- se.jar:/usr/share/glassfish/lib/shoal- gms.jar:/usr/share/glassfish/lib/NeticaJ.jar:/usr/share/glassfish/lib/j2ee.jar:/ usr/share/glassfish/lib/appserv-ws.jar:/usr/share/glassfish/lib/appserv- tags.jar:/usr/share/glassfish/lib/appserv-deployment- client.jar:/usr/share/glassfish/lib/appserv- launch.jar:/usr/share/glassfish/lib/Pack200Task.jar:/usr/share/glassfish/lib/jma c-api.jar:/usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/appserv- ext.jar:/usr/share/glassfish/lib/jsf-impl.jar:/usr/share/glassfish/lib/toplink- essentials.jar:/usr/share/glassfish: java.class.version = 50.0 java.endorsed.dirs = /usr/share/glassfish/lib/endorsed java.ext.dirs = /usr/java/jdk1.6.0_10/jre/../lib/ext:/usr/java/jdk1.6.0_10/jre/../jre/lib/ext: /usr/share/glassfish/domains/domain1/lib/ext:/usr/share/glassfish/javadb/lib java.home = /usr/java/jdk1.6.0_10/jre java.io.tmpdir = /tmp java.library.path = /usr/share/glassfish/lib:/usr/share/glassfish/lib:/usr/share/glassfish/lib:/us r/share/glassfish/lib java.nio.channels.spi.SelectorProvider = com.sun.enterprise.server.ss.provider.ASSelectorProvider java.runtime.name = Java(TM) SE Runtime Environment java.runtime.version = 1.6.0_10-b33 java.security.auth.login.config = /usr/share/glassfish/domains/domain1/config/login.conf java.security.policy = /usr/share/glassfish/domains/domain1/config/server.policy java.specification.name = Java Platform API Specification java.specification.vendor = Sun Microsystems Inc. java.specification.version = 1.6 java.util.logging.manager = com.sun.enterprise.server.logging.ServerLogManager java.vendor = Sun Microsystems Inc. java.vendor.url = http://java.sun.com/ java.vendor.url.bug = http://java.sun.com/cgi-bin/bugreport.cgi java.version = 1.6.0_10 java.vm.info = mixed mode java.vm.name = Java HotSpot(TM) Client VM java.vm.specification.name = Java Virtual Machine Specification java.vm.specification.vendor = Sun Microsystems Inc. java.vm.specification.version = 1.0 java.vm.vendor = Sun Microsystems Inc. java.vm.version = 11.0-b15 javax.management.builder.initial = com.sun.enterprise.admin.server.core.jmx.AppServerMBeanServerBuilder javax.net.ssl.keyStore = /usr/share/glassfish/domains/domain1/config/keystore.jks javax.net.ssl.keyStorePassword = changeit javax.net.ssl.trustStore = /usr/share/glassfish/domains/domain1/config/cacerts.jks javax.net.ssl.trustStorePassword = changeit javax.rmi.CORBA.PortableRemoteObjectClass = com.sun.corba.ee.impl.javax.rmi.PortableRemoteObject javax.rmi.CORBA.StubClass = com.sun.corba.ee.impl.javax.rmi.CORBA.StubDelegateImpl javax.rmi.CORBA.UtilClass = com.sun.corba.ee.impl.javax.rmi.CORBA.Util javax.security.jacc.PolicyConfigurationFactory.provider = com.sun.enterprise.security.provider.PolicyConfigurationFactoryImpl javax.xml.parsers.DocumentBuilderFactory = com.sun.org.apache.xerces.internal.jaxp.DocumentBuilderFactoryImpl jdbc.drivers = org.apache.derby.jdbc.ClientDriver jmx.invoke.getters = true line.separator =

org.omg.CORBA.ORBClass = com.sun.corba.se.impl.orb.ORBImpl org.omg.CORBA.ORBSingletonClass = com.sun.corba.se.impl.orb.ORBSingleton os.arch = i386 os.name = Linux os.version = 2.6.18-92.1.13.el5 package.access = package.definition = path.separator = : product.name = Sun Java System Application Server 9.1_02 server.loader = ${catalina.home}

/server/classes,$

{catalina.home}/server/lib/*.jar shared.loader = ${catalina.home}

/shared/classes,$

{catalina.home}

/shared/lib/*.jar sun.arch.data.model = 32 sun.boot.class.path = /usr/share/glassfish/lib/endorsed/activation.jar:/usr/share/glassfish/lib/endo rsed/webservices- api.jar:/usr/java/jdk1.6.0_10/jre/lib/resources.jar:/usr/java/jdk1.6.0_10/jre/li b/rt.jar:/usr/java/jdk1.6.0_10/jre/lib/sunrsasign.jar:/usr/java/jdk1.6.0_10/jre/ lib/jsse.jar:/usr/java/jdk1.6.0_10/jre/lib/jce.jar:/usr/java/jdk1.6.0_10/jre/lib /charsets.jar:/usr/java/jdk1.6.0_10/jre/classes sun.boot.library.path = /usr/java/jdk1.6.0_10/jre/lib/i386 sun.cpu.endian = little sun.cpu.isalist = sun.io.unicode.encoding = UnicodeLittle sun.java.launcher = SUN_STANDARD sun.jnu.encoding = UTF-8 sun.management.compiler = HotSpot Client Compiler sun.os.patch.level = unknown sun.rmi.dgc.client.gcInterval = 3600000 sun.rmi.dgc.server.gcInterval = 3600000 user.country = US user.dir = /usr/share/glassfish/domains/domain1/config user.home = /usr/share/glassfish user.language = en user.name = glassfish user.timezone = America/Denver

6)Here is the JVM Log right after the crash: SHOWS SOME ERRORS <?xml version='1.0' encoding='UTF-8'?>

Java HotSpot(TM) Client VM 11.0-b15 Java HotSpot(TM) Client VM (11.0-b15) for linux-x86 JRE (1.6.0_10-b33), built on Sep 26 2008 01:18:27 by "java_re" with gcc 3.2.1-7a (J2SE release) -Dcom.sun.aas.instanceRoot=/usr/share/glassfish/domains/domain1 - Dcom.sun.aas.ClassPathPrefix= -Dcom.sun.aas.ClassPathSuffix= - Dcom.sun.aas.ServerClassPath= -Dcom.sun.aas.classloader.appserverChainJars.ee= - Dcom.sun.aas.classloader.appserverChainJars=admin-cli.jar,admin-cli-ee.jar,j2ee- svc.jar Dcom.sun.aas.classloader.excludesList=admin-cli.jar,appserv upgrade.jar,sun-appserv-ant.jar - Dcom.sun.aas.classloader.optionalOverrideableChain.ee= - Dcom.sun.aas.classloader.optionalOverrideableChain=webservices- rt.jar,webservices-tools.jar - Dcom.sun.aas.classloader.serverClassPath.ee=/lib/hadbjdbc4.jar,/usr/share/glassf ish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar,/lib/dbstate.jar,/lib/hadbm.jar,/lib/hadbmgt .jar,/lib/mfwk_instrum_tk.jar - Dcom.sun.aas.classloader.serverClassPath=/usr/share/glassfish/lib/install/applic ations/jmsra/imqjmsra.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/lib/a nt/lib/ant.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar - Dcom.sun.aas.classloader.sharedChainJars.ee=appserv-se.jar,appserv-ee.jar,jesmf- plugin.jar,/lib/dbstate.jar,/lib/hadbjdbc4.jar,jgroups- all.jar,/lib/mfwk_instrum_tk.jar - Dcom.sun.aas.classloader.sharedChainJars=javaee.jar,/usr/java/jdk1.6.0_10/jre/.. /lib/tools.jar,install/applications/jmsra/imqjmsra.jar,com-sun-commons- launcher.jar,com-sun-commons-logging.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/imq/l ib/imqxm.jar,webservices-rt.jar,webservices-tools.jar,mail.jar,appserv- jstl.jar,jmxremote_optional.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt .jar,activation.jar,appserv-rt.jar,appserv-admin.jar,appserv- cmp.jar,/usr/share/glassfish/updatecenter/lib/updatecenter.jar,/usr/share/glassf ish/jbi/lib/jbi.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish /lib/ant/lib/ant.jar,dbschema.jar -Dcom.sun.aas.configName=server-config - Dcom.sun.aas.configRoot=/usr/share/glassfish/config - Dcom.sun.aas.defaultLogFile=/usr/share/glassfish/domains/domain1/logs/server.log -Dcom.sun.aas.domainName=domain1 - Dcom.sun.aas.installRoot=/usr/share/glassfish - Dcom.sun.aas.instanceName=server -Dcom.sun.aas.processLauncher=SE - Dcom.sun.aas.promptForIdentity=true - Dcom.sun.enterprise.config.config_environment_factory_class=com.sun.enterprise.c onfig.serverbeans.AppserverConfigEnvironmentFactory - Dcom.sun.enterprise.overrideablejavaxpackages=javax.help,javax.portlet - Dcom.sun.enterprise.taglibs=appserv-jstl.jar,jsf-impl.jar - Dcom.sun.enterprise.taglisteners=jsf-impl.jar - Dcom.sun.updatecenter.home=/usr/share/glassfish/updatecenter - Ddomain.name=domain1 -Djava.endorsed.dirs=/usr/share/glassfish/lib/endorsed - Djava.ext.dirs=/usr/java/jdk1.6.0_10/jre/../lib/ext:/usr/java/jdk1.6.0_10/jre/.. /jre/lib/ext:/usr/share/glassfish/domains/domain1/lib/ext:/usr/share/glassfish/j avadb/lib - Djava.library.path=/usr/share/glassfish/lib:/usr/share/glassfish/lib:/usr/share/ glassfish/lib:/usr/share/glassfish/lib - Djava.security.auth.login.config=/usr/share/glassfish/domains/domain1/config/log in.conf - Djava.security.policy=/usr/share/glassfish/domains/domain1/config/server.policy -Djava.util.logging.manager=com.sun.enterprise.server.logging.ServerLogManager - Djavax.management.builder.initial=com.sun.enterprise.admin.server.core.jmx.AppSe rverMBeanServerBuilder - Djavax.net.ssl.keyStore=/usr/share/glassfish/domains/domain1/config/keystore.jks - Djavax.net.ssl.trustStore=/usr/share/glassfish/domains/domain1/config/cacerts.jk s -Djdbc.drivers=org.apache.derby.jdbc.ClientDriver -Djmx.invoke.getters=true - Dsun.rmi.dgc.client.gcInterval=3600000 -Dsun.rmi.dgc.server.gcInterval=3600000 - XX:+UnlockDiagnosticVMOptions -XX:MaxPermSize=192m -Xmx512m -XX:NewRatio=2 - XX:+LogVMOutput -XX:LogFile=/usr/share/glassfish/domains/domain1/logs/jvm.log com.sun.enterprise.server.PELaunch start SUN_STANDARD java.vm.specification.version=1.0 java.vm.specification.name=Java Virtual Machine Specification java.vm.specification.vendor=Sun Microsystems Inc. java.vm.version=11.0-b15 java.vm.name=Java HotSpot(TM) Client VM java.vm.vendor=Sun Microsystems Inc. java.vm.info=mixed mode, sharing java.ext.dirs=/usr/java/jdk1.6.0_10/jre/../lib/ext:/usr/java/jdk1.6.0_10/jre/../ jre/lib/ext:/usr/share/glassfish/domains/domain1/lib/ext:/usr/share/glassfish/ja vadb/lib java.endorsed.dirs=/usr/share/glassfish/lib/endorsed sun.boot.library.path=/usr/java/jdk1.6.0_10/jre/lib/i386 java.library.path=/usr/share/glassfish/lib:/usr/share/glassfish/lib:/usr/share/g lassfish/lib:/usr/share/glassfish/lib java.home=/usr/java/jdk1.6.0_10/jre java.class.path=/usr/share/glassfish/lib/jhall.jar:/usr/share/glassfish/lib/apps erv-launch.jar sun.boot.class.path=/usr/share/glassfish/lib/endorsed/activation.jar:/usr/share/ glassfish/lib/endorsed/webservices- api.jar:/usr/java/jdk1.6.0_10/jre/lib/resources.jar:/usr/java/jdk1.6.0_10/jre/li b/rt.jar:/usr/java/jdk1.6.0_10/jre/lib/sunrsasign.jar:/usr/java/jdk1.6.0_10/jre/ lib/jsse.jar:/usr/java/jdk1.6.0_10/jre/lib/jce.jar:/usr/java/jdk1.6.0_10/jre/lib /charsets.jar:/usr/java/jdk1.6.0_10/jre/classes com.sun.aas.instanceRoot=/usr/share/glassfish/domains/domain1 com.sun.aas.ClassPathPrefix= com.sun.aas.ClassPathSuffix= com.sun.aas.ServerClassPath= com.sun.aas.classloader.appserverChainJars.ee= com.sun.aas.classloader.appserverChainJars=admin-cli.jar,admin-cli-ee.jar,j2ee- svc.jar com.sun.aas.classloader.excludesList=admin-cli.jar,appserv-upgrade.jar,sun- appserv-ant.jar com.sun.aas.classloader.optionalOverrideableChain.ee= com.sun.aas.classloader.optionalOverrideableChain=webservices- rt.jar,webservices-tools.jar com.sun.aas.classloader.serverClassPath.ee=/lib/hadbjdbc4.jar,/usr/share/glassfi sh/lib/SUNWjdmk/5.1/lib/jdmkrt.jar,/lib/dbstate.jar,/lib/hadbm.jar,/lib/hadbmgt. jar,/lib/mfwk_instrum_tk.jar com.sun.aas.classloader.serverClassPath=/usr/share/glassfish/lib/install/applica tions/jmsra/imqjmsra.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/lib/a nt/lib/ant.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt.jar com.sun.aas.classloader.sharedChainJars.ee=appserv-se.jar,appserv-ee.jar,jesmf- plugin.jar,/lib/dbstate.jar,/lib/hadbjdbc4.jar,jgroups- all.jar,/lib/mfwk_instrum_tk.jar com.sun.aas.classloader.sharedChainJars=javaee.jar,/usr/java/jdk1.6.0_10/jre/../ lib/tools.jar,install/applications/jmsra/imqjmsra.jar,com-sun-commons- launcher.jar,com-sun-commons-logging.jar,/usr/share/glassfish/imq/lib/jaxm- api.jar,/usr/share/glassfish/imq/lib/fscontext.jar,/usr/share/glassfish/imq/lib/ imqbroker.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish/imq/l ib/imqxm.jar,webservices-rt.jar,webservices-tools.jar,mail.jar,appserv- jstl.jar,jmxremote_optional.jar,/usr/share/glassfish/lib/SUNWjdmk/5.1/lib/jdmkrt .jar,activation.jar,appserv-rt.jar,appserv-admin.jar,appserv- cmp.jar,/usr/share/glassfish/updatecenter/lib/updatecenter.jar,/usr/share/glassf ish/jbi/lib/jbi.jar,/usr/share/glassfish/imq/lib/imqjmx.jar,/usr/share/glassfish /lib/ant/lib/ant.jar,dbschema.jar com.sun.aas.configName=server-config com.sun.aas.configRoot=/usr/share/glassfish/config com.sun.aas.defaultLogFile=/usr/share/glassfish/domains/domain1/logs/server.log com.sun.aas.domainName=domain1 com.sun.aas.installRoot=/usr/share/glassfish com.sun.aas.instanceName=server com.sun.aas.processLauncher=SE com.sun.aas.promptForIdentity=true com.sun.enterprise.config.config_environment_factory_class=com.sun.enterprise.co nfig.serverbeans.AppserverConfigEnvironmentFactory com.sun.enterprise.overrideablejavaxpackages=javax.help,javax.portlet com.sun.enterprise.taglibs=appserv-jstl.jar,jsf-impl.jar com.sun.enterprise.taglisteners=jsf-impl.jar com.sun.updatecenter.home=/usr/share/glassfish/updatecenter domain.name=domain1 java.security.auth.login.config=/usr/share/glassfish/domains/domain1/config/logi n.conf java.security.policy=/usr/share/glassfish/domains/domain1/config/server.policy java.util.logging.manager=com.sun.enterprise.server.logging.ServerLogManager javax.management.builder.initial=com.sun.enterprise.admin.server.core.jmx.AppSer verMBeanServerBuilder javax.net.ssl.keyStore=/usr/share/glassfish/domains/domain1/config/keystore.jks javax.net.ssl.trustStore=/usr/share/glassfish/domains/domain1/config/cacerts.jks jdbc.drivers=org.apache.derby.jdbc.ClientDriver jmx.invoke.getters=true sun.rmi.dgc.client.gcInterval=3600000 sun.rmi.dgc.server.gcInterval=3600000 sun.java.launcher=SUN_STANDARD #### Environment Operating System: Linux Platform: Linux #### Affected Versions [9.1peur2]

glassfishrobot commented 6 years ago

Issue Imported From: https://github.com/javaee/glassfish/issues/6874
Original Issue Raised By:@glassfishrobot
Original Issue Assigned To: @yaminikb
Original Issue Closed By:@glassfishrobot

glassfishrobot commented 15 years ago

@glassfishrobot Commented bhaktimehta said: Marking as P2 since this is platform specific. Couple of questions Is this crash always consistent and reproducible? The tester seemed fine and generated the artifacts from the endpoint and seems from your logs it ran too. If you go to your wsdl link and test it manually ie http://kdd.lanl.gov:8080/NeticaOnRedhatProblem/NeticaProblemServiceService?tester does the crash still occur? Pls can you let us know as this will help us debug further

glassfishrobot commented 15 years ago

@glassfishrobot Commented gibsonw said: Reply from Bill Gibson: To answer your questions, yes the crash is consistent and repeatable. The web method runs properly, does all it's print, seems to return, and then the server crashes...as evidenced by the server admin page ceases to work, and/or a call to HelloWorld method from the tester gives page not found. I forgot to upload the three Netica files you will need to duplicate the problem. They are also available from: http://www.norsys.com/netica-j.html under the Linux download button. The three files are in the bin directory of the download.

glassfishrobot commented 15 years ago

@glassfishrobot Commented gibsonw said: Created an attachment (id=2136) Library

glassfishrobot commented 15 years ago

@glassfishrobot Commented gibsonw said: Created an attachment (id=2137) library

glassfishrobot commented 15 years ago

@glassfishrobot Commented gibsonw said: Created an attachment (id=2138) Java jar

glassfishrobot commented 15 years ago

@glassfishrobot Commented gibsonw said: More answers from Bill Gibson: Yes I ran the tester manually, by using the URL as you suggested...Got the crash that way also. I uploaded the netica files now also. Thanks for your help....

glassfishrobot commented 15 years ago

@glassfishrobot Commented sanandal said: "Reclassifying as P4 because this issue is not deemed "must fix" for this v2.1 release whose primary release driver is SailFin. This issue will be scrubbed after this release and will be given the right priority for the next release."

glassfishrobot commented 12 years ago

@glassfishrobot Commented tmueller said: Bulk update to change fix version to "not determined" for all issues still open but with a fix version for a released version.

glassfishrobot commented 12 years ago

@glassfishrobot Commented bhaktimehta said: Closing this issue as I dont think this is relevant wrt current 3.x codebase

glassfishrobot commented 15 years ago

@glassfishrobot Commented File: libnetica.a Attached By: gibsonw

glassfishrobot commented 15 years ago

@glassfishrobot Commented File: libNeticaJ.so Attached By: gibsonw

glassfishrobot commented 15 years ago

@glassfishrobot Commented File: NeticaJ.jar Attached By: gibsonw

glassfishrobot commented 15 years ago

@glassfishrobot Commented Was assigned to bhaktimehta

glassfishrobot commented 7 years ago

@glassfishrobot Commented This issue was imported from java.net JIRA GLASSFISH-6874

glassfishrobot commented 15 years ago

@glassfishrobot Commented Reported by gibsonw

glassfishrobot commented 12 years ago

@glassfishrobot Commented Marked as invalid on Tuesday, March 6th 2012, 3:23:22 pm

eclipse-ee4j / glassfish