sorry about that. I will investigate. -vj
On Mon, Apr 28, 2014 at 11:00 AM, Finan, Sean < [email protected]> wrote: > Hi Vijay, > > I did a checkout this morning and I'm getting compile errors from Maven. > > If I just run mvn compile then I get an error while building ytex claiming > that the package has not been created. Is there a reversed dependency? > > If I run mvn compile package then ytex seems to run through, but there is > an error in the test of ytex-uima (see below). > > Any ideas? > > Thanks, > Sean > > > Running org.apache.ctakes.ytex.uima.annotators.SparseDataExporterTest > ... > 2014-04-28 10:50:43,074 INFO org.hibernate.dialect.Dialect - HHH000400: > Using dialect: org.hibernate.dialect.HSQLDialect > 2014-04-28 10:50:43,112 WARN > org.hibernate.engine.jdbc.spi.SqlExceptionHelper - SQL Error: -22, > SQLState: S0002 > 2014-04-28 10:50:43,112 ERROR > org.hibernate.engine.jdbc.spi.SqlExceptionHelper - Table not found in > statement [select uimatype0_.ui > ma_type_id as uima_typ1_21_, uimatype0_.uima_type_name as uima_typ2_21_, > uimatype0_.table_name as table_na3_21_ from PUBLIC.ref_uima > _type uimatype0_] > ... > Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 6.277 sec > <<< FAILURE! > > Results : > > Tests in error: > test(org.apache.ctakes.ytex.uima.annotators.DBCollectionReaderTest): > Unable to initialize group definition. Group resource name [c > lasspath*:org/apache/ctakes/ytex/uima/beanRefContext.xml], factory key > [ytexApplicationContext]; nested exception is org.springframe > work.beans.factory.BeanCreationException: Error creating bean with name > 'ytexApplicationContext' defined in URL [file:/C:/Spiffy/Dev > /ApacheCtakesTrunk/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/uima/beanRefContext.xml]: > Instantiation of bean failed; > nested exception is org.springframework.beans.BeanInstantiationException: > Could not instantiate bean class [org.springframework.con > text.support.ClassPathXmlApplicationContext]: Constructor threw exception; > nested exception is org.springframework.beans.factory.Bea > nCreationException: Error creating bean with name 'documentMapperService' > defined in class path resource [org/apache/ctakes/ytex/uim > a/beans-uima-mapper.xml]: Invocation of init method failed; nested > exception is org.hibernate.exception.SQLGrammarException: could n > ot prepare statement > org.apache.ctakes.ytex.uima.annotators.DBConsumerTest: Unable to > initialize group definition. Group resource name [classpath*:org/ > apache/ctakes/ytex/uima/beanRefContext.xml], factory key > [ytexApplicationContext]; nested exception is org.springframework.beans.fac > tory.BeanCreationException: Error creating bean with name > 'ytexApplicationContext' defined in URL [file:/C:/Spiffy/Dev/ApacheCtakesT > runk/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/uima/beanRefContext.xml]: > Instantiation of bean failed; nested except > ion is org.springframework.beans.BeanInstantiationException: Could not > instantiate bean class [org.springframework.context.support.C > lassPathXmlApplicationContext]: Constructor threw exception; nested > exception is org.springframework.beans.factory.BeanCreationExcep > tion: Error creating bean with name 'documentMapperService' defined in > class path resource [org/apache/ctakes/ytex/uima/beans-uima-m > apper.xml]: Invocation of init method failed; nested exception is > org.hibernate.exception.SQLGrammarException: could not prepare sta > tement > org.apache.ctakes.ytex.uima.annotators.DBConsumerTest > > testDictionaryLookupIntegrated(org.apache.ctakes.ytex.uima.annotators.DictionaryLookupAnnotatorTest): > Initialization of annotator > class "org.apache.ctakes.ytex.uima.annotators.SegmentRegexAnnotator" > failed. (Descriptor: file:/C:/Spiffy/Dev/ApacheCtakesTrunk/cta > kes-ytex-uima/desc/analysis_engine/SegmentRegexAnnotator.xml) > > testDictionaryLookupSimple(org.apache.ctakes.ytex.uima.annotators.DictionaryLookupAnnotatorTest) > > testDisambiguate(org.apache.ctakes.ytex.uima.annotators.SenseDisambiguatorAnnotatorTest): > Unable to initialize group definition. G > roup resource name > [classpath*:org/apache/ctakes/ytex/uima/beanRefContext.xml], factory key > [ytexApplicationContext]; nested excepti > on is org.springframework.beans.factory.BeanCreationException: Error > creating bean with name 'ytexApplicationContext' defined in URL > > [file:/C:/Spiffy/Dev/ApacheCtakesTrunk/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/uima/beanRefContext.xml]: > Instanti > ation of bean failed; nested exception is > org.springframework.beans.BeanInstantiationException: Could not instantiate > bean class [or > g.springframework.context.support.ClassPathXmlApplicationContext]: > Constructor threw exception; nested exception is org.springframew > ork.beans.factory.BeanCreationException: Error creating bean with name > 'documentMapperService' defined in class path resource [org/a > pache/ctakes/ytex/uima/beans-uima-mapper.xml]: Invocation of init method > failed; nested exception is org.hibernate.exception.SQLGram > marException: could not prepare statement > org.apache.ctakes.ytex.uima.annotators.SparseDataExporterTest: Unable to > initialize group definition. Group resource name [classpa > th*:org/apache/ctakes/ytex/uima/beanRefContext.xml], factory key > [ytexApplicationContext]; nested exception is org.springframework.b > eans.factory.BeanCreationException: Error creating bean with name > 'ytexApplicationContext' defined in URL [file:/C:/Spiffy/Dev/Apach > eCtakesTrunk/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/uima/beanRefContext.xml]: > Instantiation of bean failed; neste > d exception is org.springframework.beans.BeanInstantiationException: Could > not instantiate bean class [org.springframework.context.s > upport.ClassPathXmlApplicationContext]: Constructor threw exception; > nested exception is org.springframework.beans.factory.BeanCreat > ionException: Error creating bean with name 'documentMapperService' > defined in class path resource [org/apache/ctakes/ytex/uima/bean > s-uima-mapper.xml]: Invocation of init method failed; nested exception is > org.hibernate.exception.SQLGrammarException: could not pre > pare statement > > Tests run: 12, Failures: 0, Errors: 7, Skipped: 0 > ... > > [INFO] Apache cTAKES Resources ctakes-ytex-res ........... SUCCESS [ > 1.089 s] > [INFO] Apache cTAKES YTEX ................................ SUCCESS [ > 14.592 s] > [INFO] Apache cTAKES YTEX UIMA ........................... FAILURE [01:34 > min] > [INFO] Apache cTAKES ctakes-clinical-pipeline ............ SKIPPED > [INFO] Apache cTAKES YTEX Web ............................ SKIPPED > > ... > [ERROR] Failed to execute goal > org.apache.maven.plugins:maven-surefire-plugin:2.12:test (default-test) on > project ctakes-ytex-uima: > There are test failures. > > > -----Original Message----- > From: vijay garla [mailto:[email protected]] > Sent: Sunday, April 27, 2014 10:56 PM > To: [email protected] > Subject: ytex merged into trunk > > Hello All, > > I have merged YTEX into trunk, will keep the branch around a little while > then delete it. Some non-ytex related changes (I will gladly change/revert > if there are objections): > * ctakes-temporal does not compile; from the email threads I take it that > this is under development and the compilation failures are to be expected. > I have commented out these modules from the root pom.xml so that ctakes > builds. I wasn't able to use maven profiles to exclude ctakes-temporal, > not sure why. > * default max memory runctakesCPE/CVD.bat: I have increased this to 2G > (was 1G). I do not think it is possible to run cTAKES with less memory > (definitely not in a 64-bit jdk) when loading the assertion models (which > is the 'default' pipeline). > > I will clean up the ytex docs shortly. > > Best, > > VJ >
