See
<https://builds.apache.org/job/ctakes-trunk-Java-1.9/3/display/redirect?page=changes>
Changes:
[tmill] Add script for extracting markables from a corpus for analysis.
------------------------------------------
[...truncated 952.02 KB...]
[INFO] Reactor Summary:
[INFO]
[INFO] Apache cTAKES ...................................... SUCCESS [ 5.651 s]
[INFO] ctakes-gui-res ..................................... SUCCESS [ 4.714 s]
[INFO] Apache cTAKES Resources core ....................... SUCCESS [ 2.681 s]
[INFO] Apache cTAKES common type system ................... SUCCESS [ 8.743 s]
[INFO] Apache cTAKES utils ................................ SUCCESS [ 4.417 s]
[INFO] Apache cTAKES core ................................. SUCCESS [ 29.072 s]
[INFO] ctakes-gui ......................................... SUCCESS [ 5.142 s]
[INFO] Apache cTAKES Resources pos-tagger ................. SUCCESS [ 3.368 s]
[INFO] Apache cTAKES part-of-speech tagger ................ SUCCESS [ 5.857 s]
[INFO] Apache cTAKES Resources ctakes-chunker-res ......... SUCCESS [ 3.668 s]
[INFO] Apache cTAKES chunker .............................. SUCCESS [ 3.859 s]
[INFO] Apache cTAKES document preprocessor ................ SUCCESS [ 4.170 s]
[INFO] Apache cTAKES Resources dictionary-lookup .......... SUCCESS [ 10.763 s]
[INFO] Apache cTAKES dictionary lookup .................... SUCCESS [ 5.160 s]
[INFO] Apache cTAKES context dependent tokenizer .......... SUCCESS [ 5.767 s]
[INFO] Apache cTAKES Resources lvg ........................ SUCCESS [ 19.315 s]
[INFO] Apache cTAKES LVG lexical tools .................... SUCCESS [ 5.453 s]
[INFO] Apache cTAKES Resources ne-contexts ................ SUCCESS [ 2.611 s]
[INFO] Apache cTAKES named entity contexts ................ SUCCESS [ 5.249 s]
[INFO] Apache cTAKES Resources constituency-parser ........ SUCCESS [ 4.688 s]
[INFO] Apache cTAKES Constituency Parser .................. SUCCESS [ 3.651 s]
[INFO] Apache cTAKES Resources coreference ................ SUCCESS [ 6.281 s]
[INFO] Apache cTAKES Resources temporal ................... SUCCESS [ 2.996 s]
[INFO] Apache cTAKES Resources relation-extractor ......... SUCCESS [ 2.632 s]
[INFO] Apache cTAKES Resources dictionary-lookup-fast-res . SUCCESS [ 3.422 s]
[INFO] Apache cTAKES dictionary lookup fast ............... SUCCESS [ 3.568 s]
[INFO] Apache cTAKES Resources assertion .................. SUCCESS [ 4.080 s]
[INFO] Apache cTAKES Resources dependency-parser .......... SUCCESS [ 19.329 s]
[INFO] Apache cTAKES Dependency Parser .................... SUCCESS [ 39.603 s]
[INFO] Apache cTAKES Assertion ............................ SUCCESS [ 7.050 s]
[INFO] ctakes-clinical-pipeline-res ....................... SUCCESS [ 2.523 s]
[INFO] Apache cTAKES ctakes-clinical-pipeline ............. SUCCESS [ 7.689 s]
[INFO] Apache cTAKES Relation Extractor ................... SUCCESS [ 11.563 s]
[INFO] Apache cTAKES Temporal Information Extraction ...... FAILURE [ 25.287 s]
[INFO] Apache cTAKES CoReference Resolver ................. SKIPPED
[INFO] Apache cTAKES Resources drug-ner ................... SUCCESS [ 2.682 s]
[INFO] Apache cTAKES Drug NER ............................. SUCCESS [ 8.002 s]
[INFO] Apache cTAKES Resources side-effect ................ SUCCESS [ 2.724 s]
[INFO] Apache cTAKES Side Effects ......................... SUCCESS [ 7.383 s]
[INFO] Apache cTAKES Resources smoking-status ............. SUCCESS [ 2.717 s]
[INFO] Apache cTAKES Smoking Status ....................... SUCCESS [ 7.483 s]
[INFO] Apache cTAKES Resources assertion-zoner ............ SUCCESS [ 2.699 s]
[INFO] Apache cTAKES Assertion's zoner .................... SUCCESS [ 13.752 s]
[INFO] ctakes-examples-res ................................ SUCCESS [ 2.554 s]
[INFO] ctakes-examples .................................... SKIPPED
[INFO] Apache cTAKES Resources ctakes-ytex-res ............ SUCCESS [ 2.570 s]
[INFO] Apache cTAKES YTEX ................................. FAILURE [ 2.038 s]
[INFO] Apache cTAKES YTEX UIMA ............................ SKIPPED
[INFO] Apache cTAKES YTEX Web ............................. SKIPPED
[INFO] Apache cTAKES Distribution ......................... SKIPPED
[INFO] Apache cTAKES Regression-test ...................... SKIPPED
[INFO] Apache cTAKES template filler ...................... SKIPPED
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 07:11 min
[INFO] Finished at: 2017-09-29T19:17:44Z
[INFO] Final Memory: 77M/256M
[INFO] ------------------------------------------------------------------------
java.lang.reflect.InvocationTargetException
at
java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at
java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:564)
at
org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:289)
at
org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:229)
at jenkins.maven3.agent.Maven35Main.launch(Maven35Main.java:176)
at
java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at
java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:564)
at hudson.maven.Maven3Builder.call(Maven3Builder.java:139)
at hudson.maven.Maven3Builder.call(Maven3Builder.java:70)
at hudson.remoting.UserRequest.perform(UserRequest.java:153)
at hudson.remoting.UserRequest.perform(UserRequest.java:50)
at hudson.remoting.Request$2.run(Request.java:336)
at
hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:68)
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at
java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1167)
at
java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:641)
at java.base/java.lang.Thread.run(Thread.java:844)
Caused by: java.lang.Error: java.lang.reflect.InvocationTargetException
at com.sun.tools.xjc.reader.Ring.get(Ring.java:113)
at
com.sun.tools.xjc.reader.xmlschema.BGMBuilder.<init>(BGMBuilder.java:147)
at
com.sun.tools.xjc.reader.xmlschema.BGMBuilder.build(BGMBuilder.java:117)
at com.sun.tools.xjc.ModelLoader.annotateXMLSchema(ModelLoader.java:425)
at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:174)
at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:119)
at com.sun.tools.xjc.Driver.run(Driver.java:333)
at
org.codehaus.mojo.jaxb2.AbstractXjcMojo.execute(AbstractXjcMojo.java:316)
at
org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:134)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:208)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:154)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:146)
at
org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:117)
at
org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:81)
at
org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build(SingleThreadedBuilder.java:51)
at
org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:128)
at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:309)
at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:194)
at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:107)
at
org.jvnet.hudson.maven3.launcher.Maven35Launcher.main(Maven35Launcher.java:130)
... 21 more
Caused by: java.lang.reflect.InvocationTargetException
at
java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native
Method)
at
java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at
java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at
java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:488)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:102)
... 40 more
Caused by: java.lang.Error: java.lang.reflect.InvocationTargetException
at com.sun.tools.xjc.reader.Ring.get(Ring.java:113)
at
com.sun.tools.xjc.reader.xmlschema.BindingComponent.getClassSelector(BindingComponent.java:65)
at
com.sun.tools.xjc.reader.xmlschema.ColorBinder.<init>(ColorBinder.java:62)
at
com.sun.tools.xjc.reader.xmlschema.BindGreen.<init>(BindGreen.java:63)
... 45 more
Caused by: java.lang.reflect.InvocationTargetException
at
java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native
Method)
at
java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at
java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at
java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:488)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:102)
... 48 more
Caused by: java.lang.NoClassDefFoundError:
javax/activation/MimeTypeParseException
at java.base/java.lang.Class.getDeclaredConstructors0(Native Method)
at
java.base/java.lang.Class.privateGetDeclaredConstructors(Class.java:3110)
at java.base/java.lang.Class.getConstructor0(Class.java:3315)
at java.base/java.lang.Class.getDeclaredConstructor(Class.java:2510)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:100)
at
com.sun.tools.xjc.reader.xmlschema.DefaultClassBinder.<init>(DefaultClassBinder.java:98)
at
com.sun.tools.xjc.reader.xmlschema.ClassSelector.<init>(ClassSelector.java:214)
... 53 more
Caused by: java.lang.ClassNotFoundException:
javax.activation.MimeTypeParseException
at
org.codehaus.plexus.classworlds.strategy.SelfFirstStrategy.loadClass(SelfFirstStrategy.java:50)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.unsynchronizedLoadClass(ClassRealm.java:271)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:247)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:239)
... 60 more
Sending e-mails to: [email protected]
ERROR: Failed to parse POMs
java.io.IOException: java.lang.reflect.InvocationTargetException
at hudson.maven.Maven3Builder.call(Maven3Builder.java:179)
at hudson.maven.Maven3Builder.call(Maven3Builder.java:70)
at hudson.remoting.UserRequest.perform(UserRequest.java:153)
at hudson.remoting.UserRequest.perform(UserRequest.java:50)
at hudson.remoting.Request$2.run(Request.java:336)
at
hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:68)
at java.util.concurrent.FutureTask.run(FutureTask.java:264)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1167)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:641)
at java.lang.Thread.run(Thread.java:844)
at ......remote call to Channel to Maven
[/home/jenkins/tools/java/latest1.9/bin/java, -Xmx4g, -Xms256m,
-Dmaven.test.failure.ignore=false, -cp,
/home/jenkins/jenkins-slave/maven35-agent.jar:/home/jenkins/tools/maven/apache-maven-3.5.0/boot/plexus-classworlds-2.5.2.jar:/home/jenkins/tools/maven/apache-maven-3.5.0/conf/logging,
jenkins.maven3.agent.Maven35Main,
/home/jenkins/tools/maven/apache-maven-3.5.0,
/home/jenkins/jenkins-slave/slave.jar,
/home/jenkins/jenkins-slave/maven35-interceptor.jar,
/home/jenkins/jenkins-slave/maven3-interceptor-commons.jar, 42423](Native
Method)
at hudson.remoting.Channel.attachCallSiteStackTrace(Channel.java:1545)
at hudson.remoting.UserResponse.retrieve(UserRequest.java:253)
at hudson.remoting.Channel.call(Channel.java:830)
at hudson.maven.ProcessCache$MavenProcess.call(ProcessCache.java:161)
at
hudson.maven.MavenModuleSetBuild$MavenModuleSetBuildExecution.doRun(MavenModuleSetBuild.java:878)
at
hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:490)
at hudson.model.Run.execute(Run.java:1735)
at hudson.maven.MavenModuleSetBuild.run(MavenModuleSetBuild.java:542)
at hudson.model.ResourceController.execute(ResourceController.java:97)
at hudson.model.Executor.run(Executor.java:405)
Caused by: java.lang.reflect.InvocationTargetException
at jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at
jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:564)
at hudson.maven.Maven3Builder.call(Maven3Builder.java:139)
at hudson.maven.Maven3Builder.call(Maven3Builder.java:70)
at hudson.remoting.UserRequest.perform(UserRequest.java:153)
at hudson.remoting.UserRequest.perform(UserRequest.java:50)
at hudson.remoting.Request$2.run(Request.java:336)
at
hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:68)
at java.util.concurrent.FutureTask.run(FutureTask.java:264)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1167)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:641)
at java.lang.Thread.run(Thread.java:844)
Caused by: java.lang.Exception: java.lang.reflect.InvocationTargetException
at jenkins.maven3.agent.Maven35Main.launch(Maven35Main.java:179)
... 14 more
Caused by: java.lang.reflect.InvocationTargetException
at jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at
jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:564)
at
org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:289)
at
org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:229)
at jenkins.maven3.agent.Maven35Main.launch(Maven35Main.java:176)
... 14 more
Caused by: java.lang.Error: java.lang.reflect.InvocationTargetException
at com.sun.tools.xjc.reader.Ring.get(Ring.java:113)
at
com.sun.tools.xjc.reader.xmlschema.BGMBuilder.<init>(BGMBuilder.java:147)
at
com.sun.tools.xjc.reader.xmlschema.BGMBuilder.build(BGMBuilder.java:117)
at com.sun.tools.xjc.ModelLoader.annotateXMLSchema(ModelLoader.java:425)
at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:174)
at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:119)
at com.sun.tools.xjc.Driver.run(Driver.java:333)
at
org.codehaus.mojo.jaxb2.AbstractXjcMojo.execute(AbstractXjcMojo.java:316)
at
org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:134)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:208)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:154)
at
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:146)
at
org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:117)
at
org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:81)
at
org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build(SingleThreadedBuilder.java:51)
at
org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:128)
at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:309)
at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:194)
at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:107)
at
org.jvnet.hudson.maven3.launcher.Maven35Launcher.main(Maven35Launcher.java:130)
... 21 more
Caused by: java.lang.reflect.InvocationTargetException
at
jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at
jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at
jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:488)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:102)
... 40 more
Caused by: java.lang.Error: java.lang.reflect.InvocationTargetException
at com.sun.tools.xjc.reader.Ring.get(Ring.java:113)
at
com.sun.tools.xjc.reader.xmlschema.BindingComponent.getClassSelector(BindingComponent.java:65)
at
com.sun.tools.xjc.reader.xmlschema.ColorBinder.<init>(ColorBinder.java:62)
at
com.sun.tools.xjc.reader.xmlschema.BindGreen.<init>(BindGreen.java:63)
... 45 more
Caused by: java.lang.reflect.InvocationTargetException
at
jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at
jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at
jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:488)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:102)
... 48 more
Caused by: java.lang.NoClassDefFoundError:
javax/activation/MimeTypeParseException
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:3110)
at java.lang.Class.getConstructor0(Class.java:3315)
at java.lang.Class.getDeclaredConstructor(Class.java:2510)
at com.sun.tools.xjc.reader.Ring.get(Ring.java:100)
at
com.sun.tools.xjc.reader.xmlschema.DefaultClassBinder.<init>(DefaultClassBinder.java:98)
at
com.sun.tools.xjc.reader.xmlschema.ClassSelector.<init>(ClassSelector.java:214)
... 53 more
Caused by: java.lang.ClassNotFoundException:
javax.activation.MimeTypeParseException
at
org.codehaus.plexus.classworlds.strategy.SelfFirstStrategy.loadClass(SelfFirstStrategy.java:50)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.unsynchronizedLoadClass(ClassRealm.java:271)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:247)
at
org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:239)
... 60 more
channel stopped
