Re: Fw: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

Hi James, That code is defunct and shouldn't be used. I will take it out for the next release. From: James Masanz Sent: Wednesday, May 15, 2024 4:05 PM To: dev@ctakes.apache.org Subject: Re: Fw: Please test the Apache cTAKES 5.1.0 release candidate [EXT

Re: Fw: Please test the Apache cTAKES 5.1.0 release candidate

re ctakes module jars to exist where they can be fetched, and > as ctakes 5.1.0 will not be available through maven central before a > release, the jars must be in your .m2 directory. > > > > > > ____________ > From: Finan, Sean > Sent: Friday, April 26, 2

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

+1 from me. -Dennis From: Savova, Guergana Sent: Wednesday, May 15, 2024 2:26 PM To: dev@ctakes.apache.org Subject: RE: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS

RE: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

+1 from me. --Guergana -Original Message- From: Finan, Sean Sent: Wednesday, May 15, 2024 1:32 PM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

Thanks Tim! From: Miller, Timothy Sent: Wednesday, May 15, 2024 11:38 AM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] * External Email

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

iller, Timothy Sent: Tuesday, May 14, 2024 12:55 PM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS] * External Email - Caution * I can check out and build successfully with mvn from the command line. I ca

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

profile and script match. I will check the wiki instructions and make sure that -exact- details are in there. Sean From: Miller, Timothy Sent: Tuesday, May 14, 2024 12:55 PM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPICIOUS]

Hi Tim, Thanks for testing, I'll look into this. Sean From: Miller, Timothy Sent: Tuesday, May 14, 2024 12:55 PM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] [SUSPI

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS]

: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS] [SUSPICIOUS] * External Email - Caution * What would you recommend for testing? Download the release tag to a clean system and try to do mvn compile and run some tests? Tim From: Finan,

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] [SUSPICIOUS]

What would you recommend for testing? Download the release tag to a clean system and try to do mvn compile and run some tests? Tim From: Finan, Sean Date: Thursday, May 2, 2024 at 6:57 AM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

hrough next Monday evening. > > Before the 6.0.0 release I will put some Release Manager information in > the wiki. The maven release process using a GitHub repo requires a little > trick that took me a long time to figure out, and the pre-release testing > deserves some recorded d

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

> From: Peter Abramowitsch > Sent: Friday, April 26, 2024 11:41 PM > To: dev@ctakes.apache.org > Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate > [EXTERNAL] > > * External Email - Caution * > > > Hi Sean, > > It all compiles, bu

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

t > be able to fetch them from your .m2 directory. > > I haven't been able to duplicate the ytex problems that you see and don't > know what might be causing them. > > Sean > > ________________ > From: gandhi rajan > Sent: Tuesday, April

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

x27;t > know what might be causing them. > > Sean > > > From: gandhi rajan > Sent: Tuesday, April 30, 2024 11:18 AM > To: dev@ctakes.apache.org > Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate > [EXTERNAL] > > * Ext

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] * External Email - Caution * Hi Sean, It all compiles, but one of the jars is missing from the distribution. It's the one I added: ctakes-mastif-zoner which is required if you're going to use the Zone Annotator. It's in

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

ven't been able to duplicate the ytex problems that you see and don't know what might be causing them. Sean From: gandhi rajan Sent: Tuesday, April 30, 2024 11:18 AM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release cand

Fw: Please test the Apache cTAKES 5.1.0 release candidate

: Please test the Apache cTAKES 5.1.0 release candidate Hi all, There is a candidate for version 5.1.0 of Apache cTAKES source code in a staging repository: https://repository.apache.org/content/repositories/staging/org/apache/ctakes/ctakes/5.1.0/ The code is contained within the file: ctakes-5.1.0

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Peter, Thanks for the response. I dont think the generate test action is trying to use mysql but hsql DB. Anyways, I am able to build other modules apart from ytex and ytex-uima module. Sean, did you try building ctakes-web-rest module by any chance? It seems to be broken in my case. On Tue,

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Gandhi, I think the email from Jeff Painter may explain your situation. It's a question of your version of mysql being new. The crucial lines in your trace are: org.apache.ctakes.jdl.AppMain.main(AppMain.java:84) [INFO] [java] Caused by: java.lang.reflect.InaccessibleObjectException: U

Re: Please test the Apache cTAKES 5.1.0 release candidate

HI Peter, Thanks for the insights. I tried to debug from AppMain.java and it eventually fails in "org.apache.ctakes.jdl.data.xml.jaxb.ObjectFactoryBind.(ObjectFactoryBind.java:43)" Attaching the complete stacktrace for reference: [INFO] [java] invoking method [INFO] [java] Exception i

Re: Please test the Apache cTAKES 5.1.0 release candidate

Also, depending on your setup, newer versions of MySQL will break with current code until my PRs are incorporated :-) https://github.com/apache/ctakes/pull/10 https://github.com/apache/ctakes/pull/13 https://github.com/apache/ctakes/pull/14 https://github.com/apache/ctakes/pull/16 #10 adds supp

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

e: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] * External Email - Caution * I think this is the class where Java is exiting with 1 /ctakes-ytex/src/test/java/org/apache/ctakes/jdl/AppMainTest.java btw my environment is MacOS and I notice yours is Windows, so the root cause

Re: Please test the Apache cTAKES 5.1.0 release candidate

I think this is the class where Java is exiting with 1 /ctakes-ytex/src/test/java/org/apache/ctakes/jdl/AppMainTest.java btw my environment is MacOS and I notice yours is Windows, so the root cause why this class is giving you trouble is something I wouldn't be able to help you with. But some deb

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Gandhi This project is an odd one in the sense that when you tell it to skip the tests, it still goes through the effort in building up the db environment that the tests would use. But in any case, for me it does build either way. In the attached log, I've run a maven clean before doing the bu

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

previous build. Sean From: gandhi rajan Sent: Monday, April 29, 2024 7:54 AM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL] * External Email - Caution * Thanks for the insights Peter. I dint make it clear

Re: Please test the Apache cTAKES 5.1.0 release candidate [EXTERNAL]

Hi Peter, Thank you for testing! I will see if I can get the mastif-zoner in the distribution and push a 5.1.1 candidate. From: Peter Abramowitsch Sent: Saturday, April 27, 2024 1:48 AM To: dev@ctakes.apache.org Subject: Re: Please test the Apache cTAKES

Re: Please test the Apache cTAKES 5.1.0 release candidate

Thanks for the insights Peter. I dint make it clear that I did ran the install on ytex module with test case execution toggled off. I used the following command - "mvn -e clean install -Dmaven.test.skip=true" and I still hit the same error. On digging deep, I could find that the build process is t

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Gandhi Your error appears to be at this line C:\Gandhi\Project\ctakes-5.1.0\ctakes-ytex\scripts\data\build.xml:456: Java returned: 1 A test application being run here: AppMain is in charge of loading a temporary mysqldb that is used to test that part of ytex. For me it is working, but if y

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Sean, When I tried to build the complete ctakes suite, i get build failure for ctakes-ytex module with the following error: [ERROR] Failed to execute goal org.apache.maven.plugins:maven-antrun-plugin:3.1.0:run (generate-test-config) on project ctakes-ytex: An Ant BuildException has occured: Th

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi again Sean Perfect Compile Within our context and our pipeline, it runs well. Tried with simple and complex pipelines. I have not used most of the piperRunner/Creator/ scripts. I haven't exercised any of the PBJ stuff yet. I don't use the REST projects or the YTEX DB stuff - we have our own Apa

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Sean, It all compiles, but one of the jars is missing from the distribution. It's the one I added: ctakes-mastif-zoner which is required if you're going to use the Zone Annotator. It's in the master pom, and in the pom of ctakes-distribution, and the jar got built in its projecte, but it's no

Re: Please test the Apache cTAKES 5.1.0 release candidate

Hi Sean I'll do a runthrough. But looking through the commits, except for label changes, it looks as if most of the last code additions & changes were mine from a couple of months ago. I'm planning to put this release (wrapped in our webservice framework) into production in a month or so. Peter

Please test the Apache cTAKES 5.1.0 release candidate

Hi all, There is a candidate for version 5.1.0 of Apache cTAKES source code in a staging repository: https://repository.apache.org/content/repositories/staging/org/apache/ctakes/ctakes/5.1.0/ The code is contained within the file: ctakes-5.1.0-source-release.zip