Hi Gandhi, I have all the code checked out and I am following the instructions given in developer install guide. I don't see anything missing. Can you please help. I am not sure why the threadsafe files are not part of the standard windows distributable. I just need to be able to run the thread safe clinical pipeline. I am trying all this to just get that. Hope you can help. Thanks.
Regards, Sajit On Wed, 17 Apr, 2019, 08:59 gandhi rajan, <[email protected]> wrote: > I m able to see some class not found exception which means some dependency > is missing. Ytex compilation dint had any issue when I last compiled > cTAKES. Ensure you have the code checked out from latest trunk and all > dependencies are in place. > > On Tuesday, April 16, 2019, Sajit Kumar <[email protected]> wrote: > >> Hi Gandhi, >> >> Sorry for the delay in my response. I was facing other issues with cTakes >> that i needed to look at. Please find below the snapshot of the build >> error. Please let me know how to resolve this/ >> >> [INFO] >> [INFO] -------------------< org.apache.ctakes:ctakes-ytex >> >-------------------- >> [INFO] Building Apache cTAKES YTEX 4.0.1-SNAPSHOT >> [48/53] >> [INFO] --------------------------------[ jar >> ]--------------------------------- >> [INFO] >> [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-ytex >> --- >> [INFO] >> [INFO] --- jaxb2-maven-plugin:1.6:xjc (default) @ ctakes-ytex --- >> [INFO] Generating source... >> [INFO] parsing a schema... >> [INFO] >> ------------------------------------------------------------------------ >> [INFO] Reactor Summary for Apache cTAKES 4.0.1-SNAPSHOT: >> [INFO] >> [INFO] Apache cTAKES ...................................... SUCCESS [ >> 22.575 s] >> [INFO] ctakes-gui-res ..................................... SUCCESS [ >> 7.031 s] >> [INFO] Apache cTAKES Resources coreference ................ SUCCESS [ >> 9.224 s] >> [INFO] Apache cTAKES Resources temporal ................... SUCCESS [ >> 1.894 s] >> [INFO] Apache cTAKES Resources relation-extractor ......... SUCCESS [ >> 1.301 s] >> [INFO] Apache cTAKES Resources dictionary-lookup-fast-res . SUCCESS [ >> 9.357 s] >> [INFO] Apache cTAKES Resources core ....................... SUCCESS [ >> 1.481 s] >> [INFO] Apache cTAKES common type system ................... SUCCESS [ >> 21.150 s] >> [INFO] Apache cTAKES utils ................................ SUCCESS [ >> 6.307 s] >> [INFO] Apache cTAKES core ................................. SUCCESS [ >> 31.469 s] >> [INFO] Apache cTAKES dictionary lookup fast ............... SUCCESS [ >> 6.291 s] >> [INFO] Apache cTAKES document preprocessor ................ SUCCESS [ >> 2.744 s] >> [INFO] Apache cTAKES Resources lvg ........................ SUCCESS [ >> 22.646 s] >> [INFO] Apache cTAKES LVG lexical tools .................... SUCCESS [ >> 2.410 s] >> [INFO] Apache cTAKES Resources ne-contexts ................ SUCCESS [ >> 0.653 s] >> [INFO] Apache cTAKES named entity contexts ................ SUCCESS [ >> 4.114 s] >> [INFO] Apache cTAKES Resources assertion .................. SUCCESS [ >> 2.419 s] >> [INFO] Apache cTAKES Resources constituency-parser ........ SUCCESS [ >> 2.386 s] >> [INFO] Apache cTAKES Constituency Parser .................. SUCCESS [ >> 3.270 s] >> [INFO] Apache cTAKES Resources dependency-parser .......... SUCCESS [ >> 40.950 s] >> [INFO] Apache cTAKES Resources pos-tagger ................. SUCCESS [ >> 2.449 s] >> [INFO] Apache cTAKES part-of-speech tagger ................ SUCCESS [ >> 10.470 s] >> [INFO] Apache cTAKES Dependency Parser .................... SUCCESS [ >> 48.173 s] >> [INFO] Apache cTAKES context dependent tokenizer .......... SUCCESS [ >> 6.177 s] >> [INFO] Apache cTAKES Resources ctakes-chunker-res ......... SUCCESS [ >> 2.369 s] >> [INFO] Apache cTAKES chunker .............................. SUCCESS [ >> 3.725 s] >> [INFO] Apache cTAKES Assertion ............................ SUCCESS [ >> 14.576 s] >> [INFO] ctakes-clinical-pipeline-res ....................... SUCCESS [ >> 1.173 s] >> [INFO] Apache cTAKES ctakes-clinical-pipeline ............. SUCCESS [ >> 4.467 s] >> [INFO] Apache cTAKES Relation Extractor ................... SUCCESS [ >> 13.851 s] >> [INFO] Apache cTAKES Temporal Information Extraction ...... SUCCESS >> [02:54 min] >> [INFO] Apache cTAKES CoReference Resolver ................. SUCCESS [ >> 16.710 s] >> [INFO] ctakes-gui ......................................... SUCCESS [ >> 11.218 s] >> [INFO] Apache cTAKES fhir support ......................... SUCCESS [ >> 6.980 s] >> [INFO] Apache cTAKES Resources dictionary-lookup .......... SUCCESS [ >> 22.809 s] >> [INFO] Apache cTAKES dictionary lookup .................... SUCCESS [ >> 4.770 s] >> [INFO] Apache cTAKES Resources drug-ner ................... SUCCESS [ >> 1.422 s] >> [INFO] Apache cTAKES Drug NER ............................. SUCCESS [ >> 8.732 s] >> [INFO] Apache cTAKES Resources side-effect ................ SUCCESS [ >> 1.497 s] >> [INFO] Apache cTAKES Side Effects ......................... SUCCESS [ >> 4.015 s] >> [INFO] Apache cTAKES Resources smoking-status ............. SUCCESS [ >> 1.446 s] >> [INFO] Apache cTAKES Smoking Status ....................... SUCCESS [ >> 4.992 s] >> [INFO] Apache cTAKES Resources assertion-zoner ............ SUCCESS [ >> 1.386 s] >> [INFO] Apache cTAKES Assertion's zoner .................... SUCCESS [ >> 3.186 s] >> [INFO] ctakes-examples-res ................................ SUCCESS [ >> 2.084 s] >> [INFO] ctakes-examples .................................... SUCCESS [ >> 5.038 s] >> [INFO] Apache cTAKES Resources ctakes-ytex-res ............ SUCCESS [ >> 1.863 s] >> [INFO] Apache cTAKES YTEX ................................. FAILURE [ >> 11.041 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: 11:07 min >> [INFO] Finished at: 2019-04-16T15:15:55+05:30 >> [INFO] >> ------------------------------------------------------------------------ >> --------------------------------------------------- >> constituent[0]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../conf/logging/ >> constituent[1]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/animal-sniffer-annotations-1.14.jar >> constituent[2]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/aopalliance-1.0.jar >> constituent[3]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/cdi-api-1.0.jar >> constituent[4]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/checker-compat-qual-2.0.0.jar >> constituent[5]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/commons-cli-1.4.jar >> constituent[6]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/commons-io-2.5.jar >> constituent[7]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/commons-lang3-3.8.1.jar >> constituent[8]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/error_prone_annotations-2.1.3.jar >> constituent[9]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/guava-25.1-android.jar >> constituent[10]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/guice-4.2.1-no_aop.jar >> constituent[11]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/j2objc-annotations-1.1.jar >> constituent[12]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/jansi-1.17.1.jar >> constituent[13]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/javax.inject-1.jar >> constituent[14]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/jcl-over-slf4j-1.7.25.jar >> constituent[15]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/jsr250-api-1.0.jar >> constituent[16]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/jsr305-3.0.2.jar >> constituent[17]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-artifact-3.6.0.jar >> constituent[18]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-builder-support-3.6.0.jar >> constituent[19]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-compat-3.6.0.jar >> constituent[20]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-core-3.6.0.jar >> constituent[21]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-embedder-3.6.0.jar >> constituent[22]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-model-3.6.0.jar >> constituent[23]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-model-builder-3.6.0.jar >> constituent[24]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-plugin-api-3.6.0.jar >> constituent[25]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-repository-metadata-3.6.0.jar >> constituent[26]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-api-1.3.1.jar >> constituent[27]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-connector-basic-1.3.1.jar >> constituent[28]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-impl-1.3.1.jar >> constituent[29]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-provider-3.6.0.jar >> constituent[30]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-spi-1.3.1.jar >> constituent[31]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-transport-wagon-1.3.1.jar >> constituent[32]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-resolver-util-1.3.1.jar >> constituent[33]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-settings-3.6.0.jar >> constituent[34]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-settings-builder-3.6.0.jar >> constituent[35]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-shared-utils-3.2.1.jar >> constituent[36]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/maven-slf4j-provider-3.6.0.jar >> constituent[37]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/org.eclipse.sisu.inject-0.3.3.jar >> constituent[38]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/org.eclipse.sisu.plexus-0.3.3.jar >> constituent[39]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/plexus-cipher-1.7.jar >> constituent[40]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/plexus-component-annotations-1.7.1.jar >> constituent[41]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/plexus-interpolation-1.25.jar >> constituent[42]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/plexus-sec-dispatcher-1.4.jar >> constituent[43]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/plexus-utils-3.1.0.jar >> constituent[44]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/slf4j-api-1.7.25.jar >> constituent[45]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/wagon-file-3.2.0.jar >> constituent[46]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/wagon-http-3.2.0-shaded.jar >> constituent[47]: >> file:/E:/MyProjects/MAVEN_HOME/apache-maven-3.6.0/bin/../lib/wagon-provider-api-3.2.0.jar >> --------------------------------------------------- >> Exception in thread "main" 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:137) >> at >> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:210) >> at >> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:156) >> at >> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:148) >> 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:56) >> at >> org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:128) >> at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:305) >> at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:192) >> at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:105) >> at org.apache.maven.cli.MavenCli.execute(MavenCli.java:956) >> at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:288) >> at org.apache.maven.cli.MavenCli.main(MavenCli.java:192) >> 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:567) >> at >> org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:289) >> at >> org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:229) >> at >> org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:415) >> at >> org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:356) >> 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.newInstanceWithCaller(Constructor.java:500) >> at >> java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:481) >> at com.sun.tools.xjc.reader.Ring.get(Ring.java:102) >> ... 29 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) >> ... 35 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.newInstanceWithCaller(Constructor.java:500) >> at >> java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:481) >> at com.sun.tools.xjc.reader.Ring.get(Ring.java:102) >> ... 38 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:3143) >> at java.base/java.lang.Class.getConstructor0(Class.java:3348) >> at >> java.base/java.lang.Class.getDeclaredConstructor(Class.java:2559) >> 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) >> ... 44 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) >> ... 51 more >> >> On Thu, Apr 11, 2019 at 9:06 AM gandhi rajan <[email protected]> >> wrote: >> >>> Hi Sajit, >>> >>> Could you post the error trace so that it will easy to figure out the >>> problem. >>> >>> On Thursday, April 11, 2019, Sajit Kumar <[email protected]> >>> wrote: >>> >>>> Hi Gandhi, >>>> >>>> I tried building ctakes on my local computer. I used the maven build >>>> command to build it. The build fails for the ctakes ytex module. Any >>>> suggestions to fix it. Thank you, >>>> >>>> Regards, >>>> Sajit >>>> >>>> On Mon, Apr 8, 2019 at 9:24 PM gandhi rajan <[email protected]> >>>> wrote: >>>> >>>>> Hi Sajit, I m able to find the thread safe pipeline in the latest >>>>> source code in SVN under >>>>> >>>>> https://svn.apache.org/repos/asf/ctakes/trunk/ctakes-clinical-pipeline-res/src/main/resources/org/apache/ctakes/clinical/pipeline/ >>>>> >>>>> You can rebuild the latest code if it's not available in cTAKES 4.0 >>>>> >>>>> >>>>> Monday, April 8, 2019, Sajit Kumar <[email protected]> wrote: >>>>> >>>>>> Hi Gandhi, >>>>>> >>>>>> I did go and check Sean's mail on Thread Safe >>>>>> DefaultClinicialPipeline. >>>>>> >>>>>> https://markmail.org/message/clv3wgrztgh2swjd >>>>>> >>>>>> It mentions of a new ThreadSafe pipeline file suffixed with Ts. I >>>>>> didn't find it the apache ctakes directory. I also tried manually >>>>>> including >>>>>> the "threads" command in the piper file and i got a error message saying >>>>>> unknown command. Can you please tell me if its available in cTakes >>>>>> version >>>>>> 4.0 on Windows. Looking forward to hearing from you. Thanks for your >>>>>> help. >>>>>> >>>>>> Regards, >>>>>> Sajit >>>>>> >>>>>> On Sun, Apr 7, 2019 at 10:50 PM gandhi rajan <[email protected]> >>>>>> wrote: >>>>>> >>>>>>> Hi Sajit, >>>>>>> >>>>>>> As far as I know you can curtail default clinical pipeline as per >>>>>>> your needs and it does support batch processing too. Please refer >>>>>>> earlier >>>>>>> mail chains from Sean regarding thread safe default clinical pipeline. >>>>>>> >>>>>>> On Sunday, April 7, 2019, Sajit Kumar <[email protected]> >>>>>>> wrote: >>>>>>> >>>>>>>> Hi, >>>>>>>> >>>>>>>> I am trying to batch process the clinical notes from MIMIC >>>>>>>> database. I tried using the CPE tool provided with cTakes for this.I am >>>>>>>> only interested in extracting the CUIs from the notes. So i created a >>>>>>>> CPE >>>>>>>> file using CuisOnlyUMLSProcessor as the CAS Consumer. The XML >>>>>>>> output using FileWriterCasConsumer works without a problem. >>>>>>>> >>>>>>>> However, I wanted the output as XMI instead of the XML as provided >>>>>>>> by the standard templates. For this i tried using the writer xml's >>>>>>>> provided >>>>>>>> in \desc\ctakes-core\desc\cas_consumer directory. I also tried >>>>>>>> changing the >>>>>>>> implementation name in these files to >>>>>>>> org.apache.uima.tools.components.XmiWriterCasConsumer. >>>>>>>> I get exceptions and am not able to generate a XMI output. >>>>>>>> >>>>>>>> I have seen people suggesting to use the Default Clinical pipeline >>>>>>>> to do a batch processing. However, this has 2 drawbacks. I am stuck >>>>>>>> using >>>>>>>> the standard processors and end up with lot of details that i dont >>>>>>>> need. >>>>>>>> Also the CPE configuration file provides a multi-threading option >>>>>>>> thereby >>>>>>>> help speed up the process. I have close to 200K files to process. >>>>>>>> >>>>>>>> Please help to resolve this issue. Thank you. >>>>>>>> >>>>>>>> Regards, >>>>>>>> Sajit >>>>>>>> >>>>>>> >>>>>>> >>>>>>> -- >>>>>>> Regards, >>>>>>> Gandhi >>>>>>> >>>>>>> "The best way to find urself is to lose urself in the service of >>>>>>> others !!!" >>>>>>> >>>>>>> >>>>> >>>>> -- >>>>> Regards, >>>>> Gandhi >>>>> >>>>> "The best way to find urself is to lose urself in the service of >>>>> others !!!" >>>>> >>>>> >>> >>> -- >>> Regards, >>> Gandhi >>> >>> "The best way to find urself is to lose urself in the service of others >>> !!!" >>> >>> > > -- > Regards, > Gandhi > > "The best way to find urself is to lose urself in the service of others > !!!" > >
