Ok, downgrading UIMA fixed this... its just a weird error message since it says UIMA v. 3 or higher is required... But this seems to work fine with UIMA v. 2x :)
On Tue, Aug 17, 2021 at 10:08 PM Finan, Sean < sean.fi...@childrens.harvard.edu> wrote: > > Without a little more information I cannot tell you exactly why you are > getting that exact error. > > ctakes 4.0.0.1 was built with UIMA v2. Trying to use a newer version of > uima and/or uimafit will (frequently) not work. > > Any declared dependency on ctakes, such as you have for core and > clinical-pipeline (which includes core) will import the required uima, > uimafit and other dependencies. No additional declaration of dependency is > required. > > If you absolutely require uima 3 for some reason then I don't think that I > can help you. You may want to ask the uima lists about mixing versions or > equivalent v2 solutions for your goals. > > Sean > > > ________________________________________ > From: Benjamin hansen <benjaminkakke...@gmail.com> > Sent: Tuesday, August 17, 2021 3:35 PM > To: dev@ctakes.apache.org > Subject: UIMA version 3 or later JCas required [EXTERNAL] > > * External Email - Caution * > > > Hello, I am trying to compile some of the examples from the ctakes example > directory using maven. Specifically I am trying to compile the example > called: HelloWorldAggregatePipeline > > I am using ctakes v. 4.0.0.1 and uima fit v. 3.0.2 and i am getting the > following error when i run > > mvn package > > and then > > mvn exec:java -Dexec.mainClass=com.myproj.app.HelloWorldAggregatePipeline > > > > Caused by: org.apache.uima.cas.CASRuntimeException: The JCas cannot be > initialized. The following errors occurred: > > JCas Class "org.apache.uima.jcas.tcas.DocumentAnnotation", loaded from > > "jar:file:/Users/myuser/.m2/repository/org/apache/uima/uimaj-document-annotation/2.9.0/uimaj-document-annotation-2.9.0.jar!/org/apache/uima/jcas/tcas/DocumentAnnotation.class", > is missing required constructor; likely cause is wrong version (UIMA > version 3 or later JCas required). > > > I don't understand why i am getting this error when i am using uima fit v. > 3.0.2. > > My pom.xml file is seen below > > > Can anyone help me fix this please? > > > > > > <?xml version="1.0" encoding="UTF-8"?> > > <project xmlns=" > https://urldefense.com/v3/__http://maven.apache.org/POM/4.0.0__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKwy3Wlow$ > " xmlns:xsi=" > > https://urldefense.com/v3/__http://www.w3.org/2001/XMLSchema-instance__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKjIAjSAA$ > " xsi:schemaLocation=" > > https://urldefense.com/v3/__http://maven.apache.org/POM/4.0.0__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKwy3Wlow$ > > https://urldefense.com/v3/__http://maven.apache.org/xsd/maven-4.0.0.xsd__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKdagS9L8$ > "> > <modelVersion>4.0.0</modelVersion> > > <groupId>com.myproj.app</groupId> > <artifactId>myproj</artifactId> > <version>1.0-SNAPSHOT</version> > > <name>myproj</name> > <!-- FIXME change it to the project's website --> > <url> > https://urldefense.com/v3/__http://www.example.com__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKGoYVPsc$ > </url> > > <properties> > <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding> > <maven.compiler.source>1.7</maven.compiler.source> > <maven.compiler.target>1.7</maven.compiler.target> > </properties> > > <dependencies> > <dependency> > <groupId>junit</groupId> > <artifactId>junit</artifactId> > <version>4.11</version> > <scope>test</scope> > </dependency> > <!-- > https://urldefense.com/v3/__https://mvnrepository.com/artifact/org.apache.uima/uimaj-core__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKtcT3VO8$ > --> > <dependency> > <groupId>org.apache.uima</groupId> > <artifactId>uimaj-core</artifactId> > <version>3.2.0</version> > </dependency> > <!-- > https://urldefense.com/v3/__https://mvnrepository.com/artifact/org.apache.uima/uimafit-core__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKQTS5428$ > --> > <dependency> > <groupId>org.apache.uima</groupId> > <artifactId>uimafit-core</artifactId> > <version>3.2.0</version> > </dependency> > <!-- > https://urldefense.com/v3/__https://mvnrepository.com/artifact/org.apache.ctakes/ctakes-core__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKBS6M3xE$ > --> > <dependency> > <groupId>org.apache.ctakes</groupId> > <artifactId>ctakes-core</artifactId> > <version>4.0.0.1</version> > </dependency> > <!-- > > https://urldefense.com/v3/__https://mvnrepository.com/artifact/org.apache.ctakes/ctakes-clinical-pipeline__;!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKXF3_mtI$ > --> > <dependency> > <groupId>org.apache.ctakes</groupId> > <artifactId>ctakes-clinical-pipeline</artifactId> > <version>4.0.0.1</version> > </dependency> > > </dependencies> > > <build> > <pluginManagement> > <!-- lock down plugins versions to avoid using Maven defaults (may be > moved to parent pom) --> > <plugins> > <!-- clean lifecycle, see > > https://urldefense.com/v3/__https://maven.apache.org/ref/current/maven-core/lifecycles.html*clean_Lifecycle__;Iw!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKt7T4VXw$ > --> > <plugin> > <artifactId>maven-clean-plugin</artifactId> > <version>3.1.0</version> > </plugin> > <!-- default lifecycle, jar packaging: see > > https://urldefense.com/v3/__https://maven.apache.org/ref/current/maven-core/default-bindings.html*Plugin_bindings_for_jar_packaging__;Iw!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKvGrH6DM$ > --> > <plugin> > <artifactId>maven-resources-plugin</artifactId> > <version>3.0.2</version> > </plugin> > <plugin> > <artifactId>maven-compiler-plugin</artifactId> > <version>3.8.0</version> > </plugin> > <plugin> > <artifactId>maven-surefire-plugin</artifactId> > <version>2.22.1</version> > </plugin> > <plugin> > <artifactId>maven-jar-plugin</artifactId> > <version>3.0.2</version> > </plugin> > <plugin> > <artifactId>maven-install-plugin</artifactId> > <version>2.5.2</version> > </plugin> > <plugin> > <artifactId>maven-deploy-plugin</artifactId> > <version>2.8.2</version> > </plugin> > <!-- site lifecycle, see > > https://urldefense.com/v3/__https://maven.apache.org/ref/current/maven-core/lifecycles.html*site_Lifecycle__;Iw!!NZvER7FxgEiBAiR_!_gz7tElyeaTShAFytscJFcJGhRYag_Hgp1bdGfI1KSmdRS05tiRrLBFBwlbg_S6zR_NKzaG43js$ > --> > <plugin> > <artifactId>maven-site-plugin</artifactId> > <version>3.7.1</version> > </plugin> > <plugin> > <artifactId>maven-project-info-reports-plugin</artifactId> > <version>3.0.0</version> > </plugin> > </plugins> > </pluginManagement> > </build> > </project> >
