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Posted to dev@ctakes.apache.org by "Finan, Sean" <Se...@childrens.harvard.edu> on 2018/11/12 15:28:47 UTC
Re: Compiling Ctakes from Subversion [EXTERNAL]
Hi all,
I have been using 111 - which turned 2 years old last month.
When we first ported ctakes 4.0 to java8 I was using java 8 update 60 - now over 3 years old.
Peter,
what version were you using?
Thanks,
Sean
________________________________________
From: Peter Abramowitsch <pa...@gmail.com>
Sent: Monday, November 12, 2018 9:55 AM
To: dev@ctakes.apache.org
Subject: Re: Compiling Ctakes from Subversion [EXTERNAL]
Thanks Ghandi
Turns out, after a bunch of tests that the older version of jdk8 I was
using (25) must have not been able to link to the generic classes it had
generated. I was prepared to find that my problem was a contaminated maven
cache or some other error of mine, but after a lot of testing, I narrowed
it down to just the java compiler version. On the latest version of 8
(jdk1.8.0_192) it does compile straight through.
Perhaps someone with write access to the Wiki pages should note it in the
developer instructions:
That it needs to be a late version of Java 8. (And not Java 9 or later
until the changes are made to the POM dependencies in ytex that bring back
in in java.activation)
Peter
On Mon, Nov 12, 2018 at 7:17 AM Gandhi Rajan Natarajan <
Gandhi.Natarajan@arisglobal.com> wrote:
> Hi Peter,
>
> I use Java 1.8.0_171. Checked out the source code from -
> https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_trunk&d=DwIFaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=4eP6RBmyPfD_FjXsiov_qLD3CHrI8oN4Q5ogUvU0wxQ&s=jzBD6GNkVI1qBUcXCch0GlnHBrtQn-2MYlG_JC3Iusk&e=
>
> I don’t get any compilation issue in ctakes-temporal module running the
> command - " mvn clean install"
>
> Regards,
> Gandhi
>
> -----Original Message-----
> From: Peter Abramowitsch <pa...@gmail.com>
> Sent: Sunday, November 11, 2018 4:50 PM
> To: dev@ctakes.apache.org
> Subject: Compiling Ctakes from Subversion
>
> I cannot finds a configuration which permits a complete compile of the SVN
> 4.0.1 version of the code
>
> Is anyone having this problem?
>
> When compiling using JAVA 1.8.x you get compile errors in ctakes-temporal
> There are various rather oblique assignments between Generic types, which
> produce errors of this sort.
>
> [ERROR]
>
> /Users/peterabramowitsch/projects/apache/ctakes/trunk2/ctakes-temporal/src/main/java/org/apache/ctakes/temporal/eval/Evaluation_ImplBase.java:[899,45]
> [unchecked] unchecked generic array creation for varargs parameter of type
> Collection<CAP#1>[]
> [ERROR] where CAP#1 is a fresh type-variable:
> CAP#1 extends TOP from capture of ? extends TOP
>
> Then if you try to compile it using JAVA 1.9.x ctakes-temporal compiles
> but now you have a problem with ctakes-ytex which depends on some jaxb
> modules for the hibernate schema generation.
> root cause:
>
> 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.loadClass(ClassRealm.java:244)
> at
>
> org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:230)
> ... 48 more
>
> These are no longer included by default with the JDK Following help out
> on the net, I added this dependencies to that projects's pom.
>
> <dependency>
> <groupId>javax.activation</groupId>
> <artifactId>activation</artifactId>
> <version>1.1.1</version>
> </dependency>
>
> But the problem did not go away.
>
> *So my question is thia: Has anybody been able to compile the current SVN
> version from top to bottom, and if so, exactly what environment are you
> using to do it*
> *Java Version? Mods to POM files, Source Files etc.*
>
> Peter
> This email and any files transmitted with it are confidential and intended
> solely for the use of the individual or entity to whom they are addressed.
> If you are not the named addressee you should not disseminate, distribute
> or copy this e-mail. Please notify the sender or system manager by email
> immediately if you have received this e-mail by mistake and delete this
> e-mail from your system. If you are not the intended recipient you are
> notified that disclosing, copying, distributing or taking any action in
> reliance on the contents of this information is strictly prohibited and
> against the law.
>
Re: Compiling Ctakes from Subversion [EXTERNAL]
Posted by "Finan, Sean" <Se...@childrens.harvard.edu>.
Hi Peter,
no worries - obviously I don't upgrade very frequently.
As for upgrading to jdk9 (10, 11), I am not entirely sure how much refactoring would be required. If anybody else knows or is interested in figuring it out, please write the dev list.
Thanks,
Sean
________________________________________
From: Peter Abramowitsch <pa...@gmail.com>
Sent: Monday, November 12, 2018 1:35 PM
To: dev@ctakes.apache.org
Subject: Re: Compiling Ctakes from Subversion [EXTERNAL]
I feel ashamed to say.....25. I tend to do updates infrequently and jump
forward many versions. To create longer periods of stability. It just
happened that some new code in ctakes-temporal 4.0.1 no longer compiled
under that version. Do you think it will soon be time to move forward off
of eight?
Peter
On Mon, Nov 12, 2018, 4:29 PM Finan, Sean <Sean.Finan@childrens.harvard.edu
wrote:
> Hi all,
>
> I have been using 111 - which turned 2 years old last month.
>
> When we first ported ctakes 4.0 to java8 I was using java 8 update 60 -
> now over 3 years old.
>
> Peter,
> what version were you using?
>
> Thanks,
> Sean
> ________________________________________
> From: Peter Abramowitsch <pa...@gmail.com>
> Sent: Monday, November 12, 2018 9:55 AM
> To: dev@ctakes.apache.org
> Subject: Re: Compiling Ctakes from Subversion [EXTERNAL]
>
> Thanks Ghandi
>
> Turns out, after a bunch of tests that the older version of jdk8 I was
> using (25) must have not been able to link to the generic classes it had
> generated. I was prepared to find that my problem was a contaminated maven
> cache or some other error of mine, but after a lot of testing, I narrowed
> it down to just the java compiler version. On the latest version of 8
> (jdk1.8.0_192) it does compile straight through.
>
> Perhaps someone with write access to the Wiki pages should note it in the
> developer instructions:
> That it needs to be a late version of Java 8. (And not Java 9 or later
> until the changes are made to the POM dependencies in ytex that bring back
> in in java.activation)
>
> Peter
>
> On Mon, Nov 12, 2018 at 7:17 AM Gandhi Rajan Natarajan <
> Gandhi.Natarajan@arisglobal.com> wrote:
>
> > Hi Peter,
> >
> > I use Java 1.8.0_171. Checked out the source code from -
> >
> https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_trunk&d=DwIFaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=4eP6RBmyPfD_FjXsiov_qLD3CHrI8oN4Q5ogUvU0wxQ&s=jzBD6GNkVI1qBUcXCch0GlnHBrtQn-2MYlG_JC3Iusk&e=
> >
> > I don’t get any compilation issue in ctakes-temporal module running the
> > command - " mvn clean install"
> >
> > Regards,
> > Gandhi
> >
> > -----Original Message-----
> > From: Peter Abramowitsch <pa...@gmail.com>
> > Sent: Sunday, November 11, 2018 4:50 PM
> > To: dev@ctakes.apache.org
> > Subject: Compiling Ctakes from Subversion
> >
> > I cannot finds a configuration which permits a complete compile of the
> SVN
> > 4.0.1 version of the code
> >
> > Is anyone having this problem?
> >
> > When compiling using JAVA 1.8.x you get compile errors in
> ctakes-temporal
> > There are various rather oblique assignments between Generic types, which
> > produce errors of this sort.
> >
> > [ERROR]
> >
> >
> /Users/peterabramowitsch/projects/apache/ctakes/trunk2/ctakes-temporal/src/main/java/org/apache/ctakes/temporal/eval/Evaluation_ImplBase.java:[899,45]
> > [unchecked] unchecked generic array creation for varargs parameter of
> type
> > Collection<CAP#1>[]
> > [ERROR] where CAP#1 is a fresh type-variable:
> > CAP#1 extends TOP from capture of ? extends TOP
> >
> > Then if you try to compile it using JAVA 1.9.x ctakes-temporal compiles
> > but now you have a problem with ctakes-ytex which depends on some jaxb
> > modules for the hibernate schema generation.
> > root cause:
> >
> > 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.loadClass(ClassRealm.java:244)
> > at
> >
> >
> org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:230)
> > ... 48 more
> >
> > These are no longer included by default with the JDK Following help out
> > on the net, I added this dependencies to that projects's pom.
> >
> > <dependency>
> > <groupId>javax.activation</groupId>
> > <artifactId>activation</artifactId>
> > <version>1.1.1</version>
> > </dependency>
> >
> > But the problem did not go away.
> >
> > *So my question is thia: Has anybody been able to compile the current
> SVN
> > version from top to bottom, and if so, exactly what environment are you
> > using to do it*
> > *Java Version? Mods to POM files, Source Files etc.*
> >
> > Peter
> > This email and any files transmitted with it are confidential and
> intended
> > solely for the use of the individual or entity to whom they are
> addressed.
> > If you are not the named addressee you should not disseminate, distribute
> > or copy this e-mail. Please notify the sender or system manager by email
> > immediately if you have received this e-mail by mistake and delete this
> > e-mail from your system. If you are not the intended recipient you are
> > notified that disclosing, copying, distributing or taking any action in
> > reliance on the contents of this information is strictly prohibited and
> > against the law.
> >
>
Re: Compiling Ctakes from Subversion [EXTERNAL]
Posted by Peter Abramowitsch <pa...@gmail.com>.
I feel ashamed to say.....25. I tend to do updates infrequently and jump
forward many versions. To create longer periods of stability. It just
happened that some new code in ctakes-temporal 4.0.1 no longer compiled
under that version. Do you think it will soon be time to move forward off
of eight?
Peter
On Mon, Nov 12, 2018, 4:29 PM Finan, Sean <Sean.Finan@childrens.harvard.edu
wrote:
> Hi all,
>
> I have been using 111 - which turned 2 years old last month.
>
> When we first ported ctakes 4.0 to java8 I was using java 8 update 60 -
> now over 3 years old.
>
> Peter,
> what version were you using?
>
> Thanks,
> Sean
> ________________________________________
> From: Peter Abramowitsch <pa...@gmail.com>
> Sent: Monday, November 12, 2018 9:55 AM
> To: dev@ctakes.apache.org
> Subject: Re: Compiling Ctakes from Subversion [EXTERNAL]
>
> Thanks Ghandi
>
> Turns out, after a bunch of tests that the older version of jdk8 I was
> using (25) must have not been able to link to the generic classes it had
> generated. I was prepared to find that my problem was a contaminated maven
> cache or some other error of mine, but after a lot of testing, I narrowed
> it down to just the java compiler version. On the latest version of 8
> (jdk1.8.0_192) it does compile straight through.
>
> Perhaps someone with write access to the Wiki pages should note it in the
> developer instructions:
> That it needs to be a late version of Java 8. (And not Java 9 or later
> until the changes are made to the POM dependencies in ytex that bring back
> in in java.activation)
>
> Peter
>
> On Mon, Nov 12, 2018 at 7:17 AM Gandhi Rajan Natarajan <
> Gandhi.Natarajan@arisglobal.com> wrote:
>
> > Hi Peter,
> >
> > I use Java 1.8.0_171. Checked out the source code from -
> >
> https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_trunk&d=DwIFaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=4eP6RBmyPfD_FjXsiov_qLD3CHrI8oN4Q5ogUvU0wxQ&s=jzBD6GNkVI1qBUcXCch0GlnHBrtQn-2MYlG_JC3Iusk&e=
> >
> > I don’t get any compilation issue in ctakes-temporal module running the
> > command - " mvn clean install"
> >
> > Regards,
> > Gandhi
> >
> > -----Original Message-----
> > From: Peter Abramowitsch <pa...@gmail.com>
> > Sent: Sunday, November 11, 2018 4:50 PM
> > To: dev@ctakes.apache.org
> > Subject: Compiling Ctakes from Subversion
> >
> > I cannot finds a configuration which permits a complete compile of the
> SVN
> > 4.0.1 version of the code
> >
> > Is anyone having this problem?
> >
> > When compiling using JAVA 1.8.x you get compile errors in
> ctakes-temporal
> > There are various rather oblique assignments between Generic types, which
> > produce errors of this sort.
> >
> > [ERROR]
> >
> >
> /Users/peterabramowitsch/projects/apache/ctakes/trunk2/ctakes-temporal/src/main/java/org/apache/ctakes/temporal/eval/Evaluation_ImplBase.java:[899,45]
> > [unchecked] unchecked generic array creation for varargs parameter of
> type
> > Collection<CAP#1>[]
> > [ERROR] where CAP#1 is a fresh type-variable:
> > CAP#1 extends TOP from capture of ? extends TOP
> >
> > Then if you try to compile it using JAVA 1.9.x ctakes-temporal compiles
> > but now you have a problem with ctakes-ytex which depends on some jaxb
> > modules for the hibernate schema generation.
> > root cause:
> >
> > 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.loadClass(ClassRealm.java:244)
> > at
> >
> >
> org.codehaus.plexus.classworlds.realm.ClassRealm.loadClass(ClassRealm.java:230)
> > ... 48 more
> >
> > These are no longer included by default with the JDK Following help out
> > on the net, I added this dependencies to that projects's pom.
> >
> > <dependency>
> > <groupId>javax.activation</groupId>
> > <artifactId>activation</artifactId>
> > <version>1.1.1</version>
> > </dependency>
> >
> > But the problem did not go away.
> >
> > *So my question is thia: Has anybody been able to compile the current
> SVN
> > version from top to bottom, and if so, exactly what environment are you
> > using to do it*
> > *Java Version? Mods to POM files, Source Files etc.*
> >
> > Peter
> > This email and any files transmitted with it are confidential and
> intended
> > solely for the use of the individual or entity to whom they are
> addressed.
> > If you are not the named addressee you should not disseminate, distribute
> > or copy this e-mail. Please notify the sender or system manager by email
> > immediately if you have received this e-mail by mistake and delete this
> > e-mail from your system. If you are not the intended recipient you are
> > notified that disclosing, copying, distributing or taking any action in
> > reliance on the contents of this information is strictly prohibited and
> > against the law.
> >
>