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Posted to dev@ctakes.apache.org by "Bleeker, Troy C." <Bl...@mayo.edu> on 2013/01/18 18:33:54 UTC

cTAKES 3.0 maven compile issue

On Windows and Eclipse my checkout gabbed everything necessary, compiled , and I could run the GUIs.

On Ubuntu Linux I checked out OK, but I get this error at this time.

[INFO] Apache cTAKES ..................................... FAILURE [2.701s]
[INFO] Apache cTAKES common type system .................. SKIPPED
[INFO] Apache cTAKES utils ............................... SKIPPED
[INFO] Apache cTAKES core ................................ SKIPPED
[INFO] Apache cTAKES part-of-speech tagger ............... SKIPPED
[INFO] Apache cTAKES chunker ............................. SKIPPED
[INFO] Apache cTAKES document preprocessor ............... SKIPPED
[INFO] Apache cTAKES dictionary lookup ................... SKIPPED
[INFO] Apache cTAKES context dependent tokenizer ......... SKIPPED
[INFO] Apache cTAKES LVG lexical tools ................... SKIPPED
[INFO] Apache cTAKES named entity contexts ............... SKIPPED
[INFO] Apache cTAKES Constituency Parser ................. SKIPPED
[INFO] Apache cTAKES Dependency Parser ................... SKIPPED
[INFO] Apache cTAKES Assertion's zoner ................... SKIPPED
[INFO] Apache cTAKES Assertion ........................... SKIPPED
[INFO] Apache cTAKES ctakes-clinical-pipeline ............ SKIPPED
[INFO] Apache cTAKES Relation Extractor .................. SKIPPED
[INFO] Apache cTAKES CoReference Resolver ................ SKIPPED
[INFO] Apache cTAKES Drug NER ............................ SKIPPED
[INFO] Apache cTAKES Side Effects ........................ SKIPPED
[INFO] Apache cTAKES Smoking Status ...................... SKIPPED
[INFO] Apache cTAKES Pad Term Spotter .................... SKIPPED
[INFO] Apache cTAKES Temporal Information Extraction ..... SKIPPED
[INFO] Apache cTAKES Distribution ........................ SKIPPED
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 5.264s
[INFO] Finished at: Fri Jan 18 17:17:16 UTC 2013
[INFO] Final Memory: 11M/59M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-remote-resources-plugin:1.3:process (default) on project ctakes: Error finding remote resources manifests: /vol1/cTAKES-3.0/target/maven-shared-archive-resources/META-INF/NOTICE (No such file or directory) -> [Help 1]
org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.apache.maven.plugins:maven-remote-resources-plugin:1.3:process (default) on project ctakes: Error finding remote resources manifests
        at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:217)
        at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153)
        at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145)
        at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84)
        at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59)
        at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183)
        at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161)
        at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320)
        at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156)
        at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537)
        at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196)
        at org.apache.maven.cli.MavenCli.main(MavenCli.java:141)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:616)
        at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:290)
        at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:230)
        at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:409)
        at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:352)
Caused by: org.apache.maven.plugin.MojoExecutionException: Error finding remote resources manifests
        at org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.processResourceBundles(ProcessRemoteResourcesMojo.java:1220)
        at org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.execute(ProcessRemoteResourcesMojo.java:518)
        at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101)
        at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209)
        ... 19 more
Caused by: java.io.FileNotFoundException: /vol1/cTAKES-3.0/target/maven-shared-archive-resources/META-INF/NOTICE (No such file or directory)
        at java.io.FileOutputStream.open(Native Method)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:209)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:160)
        at java.io.FileWriter.<init>(FileWriter.java:90)
        at org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.processResourceBundles(ProcessRemoteResourcesMojo.java:1128)

Thanks
Troy Bleeker * Senior Business Analyst CBAP(r) * Biomedical Statistics and Informatics
Phone: 507-293-1574 * Fax: 507-284-0360 * bleeker.troy@mayo.edu
Mayo Clinic * 200 First Street SW * Rochester, MN 55905 * www.mayoclinic.org

RE: cTAKES 3.0 maven compile issue

Posted by "Bleeker, Troy C." <Bl...@mayo.edu>.
Actually I did an "svn co" to get cTAKES. It was a .tar.gz for Maven that I downloaded. However, turns out I did have a permissions issue. Root owned everything, due to how I set up the volume, but then I was trying to compile with the default Ubuntu user. On to the next issue. Thanks.

I'll be back for more help if need be. :)

-----Original Message-----
From: ctakes-dev-return-1063-Bleeker.Troy=mayo.edu@incubator.apache.org [mailto:ctakes-dev-return-1063-Bleeker.Troy=mayo.edu@incubator.apache.org] On Behalf Of Coarr, Matt
Sent: Friday, January 18, 2013 2:13 PM
To: ctakes-dev@incubator.apache.org
Subject: Re: cTAKES 3.0 maven compile issue

Hmm, it might be a permissions or ownership issue since you mentioned that you grabbed the source from a .tar.gz file.

Try:

chown -R yourusername:yourgroup /path_to_your_working_copy

Then check to make sure the owner has RW permissons on all the files and RWX on all the directories.

(If that doesn't work and if you have the necessary network access, try checking a clean copy out of subversion.)

Matt

From: <Bleeker>, "Troy C." <Bl...@mayo.edu>>
Reply-To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Date: Friday, January 18, 2013 15:02
To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Subject: RE: cTAKES 3.0 maven compile issue

Thanks, but it's not that. You're right in that email formatting caused that. My original note has it correct.

Re: cTAKES 3.0 maven compile issue

Posted by "Coarr, Matt" <mc...@mitre.org>.
Hmm, it might be a permissions or ownership issue since you mentioned that you grabbed the source from a .tar.gz file.

Try:

chown -R yourusername:yourgroup /path_to_your_working_copy

Then check to make sure the owner has RW permissons on all the files and RWX on all the directories.

(If that doesn't work and if you have the necessary network access, try checking a clean copy out of subversion.)

Matt

From: <Bleeker>, "Troy C." <Bl...@mayo.edu>>
Reply-To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Date: Friday, January 18, 2013 15:02
To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Subject: RE: cTAKES 3.0 maven compile issue

Thanks, but it's not that. You're right in that email formatting caused that. My original note has it correct.

RE: cTAKES 3.0 maven compile issue

Posted by "Bleeker, Troy C." <Bl...@mayo.edu>.
Thanks, but it's not that. You're right in that email formatting caused that. My original note has it correct.

-----Original Message-----
From: ctakes-dev-return-1061-Bleeker.Troy=mayo.edu@incubator.apache.org [mailto:ctakes-dev-return-1061-Bleeker.Troy=mayo.edu@incubator.apache.org] On Behalf Of Finan, Sean
Sent: Friday, January 18, 2013 1:33 PM
To: ctakes-dev@incubator.apache.org
Subject: RE: cTAKES 3.0 maven compile issue

This may just be a problem in how your email came across the wire, but check the path in the error:

/vol1/cTAKES-3.0/target/maven- shared-archive-resources/META-INF/NOTICE (No such file or directory)

And notice "maven-[SPACE]shared-archive-resources"

I've checked my trunk, .plxarc, etc. and it looks ok.

-----Original Message-----
From: Coarr, Matt [mailto:mcoarr@mitre.org] 
Sent: Friday, January 18, 2013 2:29 PM
To: ctakes-dev@incubator.apache.org
Subject: Re: cTAKES 3.0 maven compile issue

You've probably already done this, but if you're behind a corporate firewall that forces you to use a proxy, you can set that up in ~/.m2/settings.xml.

curl will use a environment variable $http_proxy or $all_proxy, maven will not use this environment variable.

Here is my settings.xml:

<settings xmlns="http://maven.apache.org/SETTINGS/1.0.0"
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://maven.apache.org/SETTINGS/1.0.0
                      http://maven.apache.org/xsd/settings-1.0.0.xsd">
  <proxies>
    <proxy>
      <id>mitre_proxy</id>
      <active>true</active>
      <protocol>http</protocol>
      <host>proxy.mycompany.com</host>
      <port>80</port>
      <nonProxyHosts>*.mycompany.com|localhost|127.0.0.1</nonProxyHosts>
    </proxy>
  </proxies>
</settings>

Matt


From: <Bleeker>, "Troy C." <Bl...@mayo.edu>>
Reply-To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Date: Friday, January 18, 2013 14:19
To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Subject: RE: cTAKES 3.0 maven compile issue

Let's see, so 46GB available on the drive that I put cTAKES on.
I used wget http://apache.mirrors.pair.com/maven/maven-3/3.0.4/binaries/apache-maven-3.0.4-bin.tar.gz to download Maven before any of the checkouts or compiles so Internet access, check.
Command used was
mvn clean compile package

Thanks
Troy

RE: cTAKES 3.0 maven compile issue

Posted by "Finan, Sean" <Se...@childrens.harvard.edu>.
This may just be a problem in how your email came across the wire, but check the path in the error:

/vol1/cTAKES-3.0/target/maven- shared-archive-resources/META-INF/NOTICE (No such file or directory)

And notice "maven-[SPACE]shared-archive-resources"

I've checked my trunk, .plxarc, etc. and it looks ok.

-----Original Message-----
From: Coarr, Matt [mailto:mcoarr@mitre.org] 
Sent: Friday, January 18, 2013 2:29 PM
To: ctakes-dev@incubator.apache.org
Subject: Re: cTAKES 3.0 maven compile issue

You've probably already done this, but if you're behind a corporate firewall that forces you to use a proxy, you can set that up in ~/.m2/settings.xml.

curl will use a environment variable $http_proxy or $all_proxy, maven will not use this environment variable.

Here is my settings.xml:

<settings xmlns="http://maven.apache.org/SETTINGS/1.0.0"
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://maven.apache.org/SETTINGS/1.0.0
                      http://maven.apache.org/xsd/settings-1.0.0.xsd">
  <proxies>
    <proxy>
      <id>mitre_proxy</id>
      <active>true</active>
      <protocol>http</protocol>
      <host>proxy.mycompany.com</host>
      <port>80</port>
      <nonProxyHosts>*.mycompany.com|localhost|127.0.0.1</nonProxyHosts>
    </proxy>
  </proxies>
</settings>

Matt


From: <Bleeker>, "Troy C." <Bl...@mayo.edu>>
Reply-To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Date: Friday, January 18, 2013 14:19
To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Subject: RE: cTAKES 3.0 maven compile issue

Let's see, so 46GB available on the drive that I put cTAKES on.
I used wget http://apache.mirrors.pair.com/maven/maven-3/3.0.4/binaries/apache-maven-3.0.4-bin.tar.gz to download Maven before any of the checkouts or compiles so Internet access, check.
Command used was
mvn clean compile package

Thanks
Troy

Re: cTAKES 3.0 maven compile issue

Posted by "Coarr, Matt" <mc...@mitre.org>.
You've probably already done this, but if you're behind a corporate firewall that forces you to use a proxy, you can set that up in ~/.m2/settings.xml.

curl will use a environment variable $http_proxy or $all_proxy, maven will not use this environment variable.

Here is my settings.xml:

<settings xmlns="http://maven.apache.org/SETTINGS/1.0.0"
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://maven.apache.org/SETTINGS/1.0.0
                      http://maven.apache.org/xsd/settings-1.0.0.xsd">
  <proxies>
    <proxy>
      <id>mitre_proxy</id>
      <active>true</active>
      <protocol>http</protocol>
      <host>proxy.mycompany.com</host>
      <port>80</port>
      <nonProxyHosts>*.mycompany.com|localhost|127.0.0.1</nonProxyHosts>
    </proxy>
  </proxies>
</settings>

Matt


From: <Bleeker>, "Troy C." <Bl...@mayo.edu>>
Reply-To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Date: Friday, January 18, 2013 14:19
To: "ctakes-dev@incubator.apache.org<ma...@incubator.apache.org>" <ct...@incubator.apache.org>>
Subject: RE: cTAKES 3.0 maven compile issue

Let's see, so 46GB available on the drive that I put cTAKES on.
I used wget http://apache.mirrors.pair.com/maven/maven-3/3.0.4/binaries/apache-maven-3.0.4-bin.tar.gz to download Maven before any of the checkouts or compiles so Internet access, check.
Command used was
mvn clean compile package

Thanks
Troy

RE: cTAKES 3.0 maven compile issue

Posted by "Bleeker, Troy C." <Bl...@mayo.edu>.
Let's see, so 46GB available on the drive that I put cTAKES on.
I used wget http://apache.mirrors.pair.com/maven/maven-3/3.0.4/binaries/apache-maven-3.0.4-bin.tar.gz to download Maven before any of the checkouts or compiles so Internet access, check.
Command used was   
mvn clean compile package

Thanks
Troy
-----Original Message-----
From: ctakes-dev-return-1052-Bleeker.Troy=mayo.edu@incubator.apache.org [mailto:ctakes-dev-return-1052-Bleeker.Troy=mayo.edu@incubator.apache.org] On Behalf Of Chen, Pei
Sent: Friday, January 18, 2013 12:00 PM
To: ctakes-dev@incubator.apache.org
Subject: RE: cTAKES 3.0 maven compile issue

Hi Troy,
Quite strange that it worked for you on Windows, but not on Ubuntu.
Did you try again with mvn clean compile?  Does the Ubuntu machine have access to the web to download 3rd party libs?  Enough disk space in the target directory?

--Pei

> -----Original Message-----
> From: Bleeker, Troy C. [mailto:Bleeker.Troy@mayo.edu]
> Sent: Friday, January 18, 2013 12:35 PM
> To: ctakes-dev@incubator.apache.org
> Subject: cTAKES 3.0 maven compile issue
> 
> On Windows and Eclipse my checkout gabbed everything necessary, 
> compiled , and I could run the GUIs.
> 
> On Ubuntu Linux I checked out OK, but I get this error at this time.
> 
> [INFO] Apache cTAKES ..................................... FAILURE 
> [2.701s] [INFO] Apache cTAKES common type system .................. 
> SKIPPED [INFO] Apache cTAKES utils ............................... 
> SKIPPED [INFO] Apache cTAKES core ................................ 
> SKIPPED [INFO] Apache cTAKES part-of-speech tagger ............... SKIPPED [INFO] Apache cTAKES chunker .............................
> SKIPPED [INFO] Apache cTAKES document preprocessor ............... 
> SKIPPED [INFO] Apache cTAKES dictionary lookup ................... 
> SKIPPED [INFO] Apache cTAKES context dependent tokenizer ......... 
> SKIPPED [INFO] Apache cTAKES LVG lexical tools ................... 
> SKIPPED [INFO] Apache cTAKES named entity contexts ............... 
> SKIPPED [INFO] Apache cTAKES Constituency Parser ................. 
> SKIPPED [INFO] Apache cTAKES Dependency Parser ................... SKIPPED [INFO] Apache cTAKES Assertion's zoner ...................
> SKIPPED [INFO] Apache cTAKES Assertion ........................... 
> SKIPPED [INFO] Apache cTAKES ctakes-clinical-pipeline ............ 
> SKIPPED [INFO] Apache cTAKES Relation Extractor .................. 
> SKIPPED [INFO] Apache cTAKES CoReference Resolver ................ 
> SKIPPED [INFO] Apache cTAKES Drug NER ............................ 
> SKIPPED [INFO] Apache cTAKES Side Effects ........................ 
> SKIPPED [INFO] Apache cTAKES Smoking Status ...................... 
> SKIPPED [INFO] Apache cTAKES Pad Term Spotter .................... 
> SKIPPED [INFO] Apache cTAKES Temporal Information Extraction ..... SKIPPED [INFO] Apache cTAKES Distribution ........................
> SKIPPED [INFO] 
> ----------------------------------------------------------------------
> --
> [INFO] BUILD FAILURE
> [INFO] 
> ----------------------------------------------------------------------
> --
> [INFO] Total time: 5.264s
> [INFO] Finished at: Fri Jan 18 17:17:16 UTC 2013 [INFO] Final Memory:
> 11M/59M [INFO] 
> ----------------------------------------------------------------------
> -- [ERROR] Failed to execute goal 
> org.apache.maven.plugins:maven-remote-
> resources-plugin:1.3:process (default) on project ctakes: Error 
> finding remote resources manifests: 
> /vol1/cTAKES-3.0/target/maven-shared-
> archive-resources/META-INF/NOTICE (No such file or directory) -> [Help 
> 1]
> org.apache.maven.lifecycle.LifecycleExecutionException: Failed to 
> execute goal 
> org.apache.maven.plugins:maven-remote-resources-plugin:1.3:process
> (default) on project ctakes: Error finding remote resources manifests
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.
> ja
> va:217)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.
> ja
> va:153)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.
> ja
> va:145)
>         at
> org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProjec
> t(Life
> cycleModuleBuilder.java:84)
>         at
> org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProjec
> t(Life
> cycleModuleBuilder.java:59)
>         at
> org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBui
> ld(Lif
> ecycleStarter.java:183)
>         at
> org.apache.maven.lifecycle.internal.LifecycleStarter.execute(Lifecycle
> Starter
> .java:161)
>         at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320)
>         at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156)
>         at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537)
>         at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196)
>         at org.apache.maven.cli.MavenCli.main(MavenCli.java:141)
>         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>         at
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.j
> ava:57)
>         at
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAcces
> sorImpl.java:43)
>         at java.lang.reflect.Method.invoke(Method.java:616)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launc
> h
> er.java:290)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java
> :23
> 0)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Lau
> n
> cher.java:409)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:3
> 52
> )
> Caused by: org.apache.maven.plugin.MojoExecutionException: Error 
> finding remote resources manifests
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> processResourceBundles(ProcessRemoteResourcesMojo.java:1220)
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> execute(ProcessRemoteResourcesMojo.java:518)
>         at
> org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(Default
> BuildPluginManager.java:101)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.
> ja
> va:209)
>         ... 19 more
> Caused by: java.io.FileNotFoundException: 
> /vol1/cTAKES-3.0/target/maven- shared-archive-resources/META-INF/NOTICE (No such file or directory)
>         at java.io.FileOutputStream.open(Native Method)
>         at java.io.FileOutputStream.<init>(FileOutputStream.java:209)
>         at java.io.FileOutputStream.<init>(FileOutputStream.java:160)
>         at java.io.FileWriter.<init>(FileWriter.java:90)
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> processResourceBundles(ProcessRemoteResourcesMojo.java:1128)
> 
> Thanks
> Troy Bleeker * Senior Business Analyst CBAP(r) * Biomedical Statistics 
> and Informatics
> Phone: 507-293-1574 * Fax: 507-284-0360 * bleeker.troy@mayo.edu Mayo 
> Clinic * 200 First Street SW * Rochester, MN 55905 * www.mayoclinic.org

RE: cTAKES 3.0 maven compile issue

Posted by "Chen, Pei" <Pe...@childrens.harvard.edu>.
Hi Troy,
Quite strange that it worked for you on Windows, but not on Ubuntu.
Did you try again with mvn clean compile?  Does the Ubuntu machine have access to the web to download 3rd party libs?  Enough disk space in the target directory?

--Pei

> -----Original Message-----
> From: Bleeker, Troy C. [mailto:Bleeker.Troy@mayo.edu]
> Sent: Friday, January 18, 2013 12:35 PM
> To: ctakes-dev@incubator.apache.org
> Subject: cTAKES 3.0 maven compile issue
> 
> On Windows and Eclipse my checkout gabbed everything necessary,
> compiled , and I could run the GUIs.
> 
> On Ubuntu Linux I checked out OK, but I get this error at this time.
> 
> [INFO] Apache cTAKES ..................................... FAILURE [2.701s] [INFO]
> Apache cTAKES common type system .................. SKIPPED [INFO] Apache
> cTAKES utils ............................... SKIPPED [INFO] Apache cTAKES core
> ................................ SKIPPED [INFO] Apache cTAKES part-of-speech tagger
> ............... SKIPPED [INFO] Apache cTAKES chunker .............................
> SKIPPED [INFO] Apache cTAKES document preprocessor ............... SKIPPED
> [INFO] Apache cTAKES dictionary lookup ................... SKIPPED [INFO]
> Apache cTAKES context dependent tokenizer ......... SKIPPED [INFO] Apache
> cTAKES LVG lexical tools ................... SKIPPED [INFO] Apache cTAKES named
> entity contexts ............... SKIPPED [INFO] Apache cTAKES Constituency
> Parser ................. SKIPPED [INFO] Apache cTAKES Dependency Parser
> ................... SKIPPED [INFO] Apache cTAKES Assertion's zoner ...................
> SKIPPED [INFO] Apache cTAKES Assertion ........................... SKIPPED [INFO]
> Apache cTAKES ctakes-clinical-pipeline ............ SKIPPED [INFO] Apache
> cTAKES Relation Extractor .................. SKIPPED [INFO] Apache cTAKES
> CoReference Resolver ................ SKIPPED [INFO] Apache cTAKES Drug NER
> ............................ SKIPPED [INFO] Apache cTAKES Side Effects
> ........................ SKIPPED [INFO] Apache cTAKES Smoking Status
> ...................... SKIPPED [INFO] Apache cTAKES Pad Term Spotter
> .................... SKIPPED [INFO] Apache cTAKES Temporal Information
> Extraction ..... SKIPPED [INFO] Apache cTAKES Distribution ........................
> SKIPPED [INFO] ------------------------------------------------------------------------
> [INFO] BUILD FAILURE
> [INFO] ------------------------------------------------------------------------
> [INFO] Total time: 5.264s
> [INFO] Finished at: Fri Jan 18 17:17:16 UTC 2013 [INFO] Final Memory:
> 11M/59M [INFO] ------------------------------------------------------------------------
> [ERROR] Failed to execute goal org.apache.maven.plugins:maven-remote-
> resources-plugin:1.3:process (default) on project ctakes: Error finding
> remote resources manifests: /vol1/cTAKES-3.0/target/maven-shared-
> archive-resources/META-INF/NOTICE (No such file or directory) -> [Help 1]
> org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute
> goal org.apache.maven.plugins:maven-remote-resources-plugin:1.3:process
> (default) on project ctakes: Error finding remote resources manifests
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.ja
> va:217)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.ja
> va:153)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.ja
> va:145)
>         at
> org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(Life
> cycleModuleBuilder.java:84)
>         at
> org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(Life
> cycleModuleBuilder.java:59)
>         at
> org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(Lif
> ecycleStarter.java:183)
>         at
> org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter
> .java:161)
>         at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320)
>         at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156)
>         at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537)
>         at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196)
>         at org.apache.maven.cli.MavenCli.main(MavenCli.java:141)
>         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>         at
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.j
> ava:57)
>         at
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAcces
> sorImpl.java:43)
>         at java.lang.reflect.Method.invoke(Method.java:616)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launch
> er.java:290)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:23
> 0)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Laun
> cher.java:409)
>         at
> org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:352
> )
> Caused by: org.apache.maven.plugin.MojoExecutionException: Error finding
> remote resources manifests
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> processResourceBundles(ProcessRemoteResourcesMojo.java:1220)
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> execute(ProcessRemoteResourcesMojo.java:518)
>         at
> org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(Default
> BuildPluginManager.java:101)
>         at
> org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.ja
> va:209)
>         ... 19 more
> Caused by: java.io.FileNotFoundException: /vol1/cTAKES-3.0/target/maven-
> shared-archive-resources/META-INF/NOTICE (No such file or directory)
>         at java.io.FileOutputStream.open(Native Method)
>         at java.io.FileOutputStream.<init>(FileOutputStream.java:209)
>         at java.io.FileOutputStream.<init>(FileOutputStream.java:160)
>         at java.io.FileWriter.<init>(FileWriter.java:90)
>         at
> org.apache.maven.plugin.resources.remote.ProcessRemoteResourcesMojo.
> processResourceBundles(ProcessRemoteResourcesMojo.java:1128)
> 
> Thanks
> Troy Bleeker * Senior Business Analyst CBAP(r) * Biomedical Statistics and
> Informatics
> Phone: 507-293-1574 * Fax: 507-284-0360 * bleeker.troy@mayo.edu Mayo
> Clinic * 200 First Street SW * Rochester, MN 55905 * www.mayoclinic.org