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From "Miller, Timothy" <Timothy.Mil...@childrens.harvard.edu>
Subject Re: [VOTE] Release Apache cTAKES 3.2.2 (rc2)
Date Thu, 28 May 2015 17:36:24 GMT
+1, let's get this fix into the wild.
Tim

On 05/28/2015 12:14 PM, Kim Ebert wrote:

[ ] +1 Release the packages as Apache cTAKES 3.2.2

The next release we really should solve the "URI is not hierarchical" issue. We really need
to solve this issue as it appears to be the most common support issue / barrier to entry into
the cTAKEs environment.

It also appears that accessing the resources through the JAR files all the time can slow down
the processing of records.

I don't want to hold up the important bug fix though.


[IMAT Solutions]<https://urldefense.proofpoint.com/v2/url?u=http-3A__imatsolutions.com&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=Heup-IbsIg9Q1TPOylpP9FE4GTK-OqdTDRRNQXipowRLRjx0ibQrHEo8uYx6674h&m=HziVnY8lVPjmyOWhbmmtpQ8BnQrI2oKBCmCn2-rcQ4c&s=1YSEtWDD2rAu_TXbnSPooTo41UX8ZE8QMPg3nfyA5OU&e=>
Kim Ebert
Software Engineer
[Office:] 208.971.1509
kim.ebert@imatsolutions.com<mailto:greg.hubert@imatsolutions.com>
On 05/27/2015 11:58 AM, Pei Chen wrote:
Hi,
Just a friendly reminder, we need 3 binding +1 votes to wrap this up.

I would suggest not letting any old outstanding bugs/features be a show stopper in getting
this patch out.

--Pei


On Tue, May 19, 2015 at 12:23 PM, Kim Ebert <kim.ebert@imatsolutions.com<mailto:kim.ebert@imatsolutions.com>>
wrote:
mvn install

It does look like mvn clean compile test works.

[IMAT Solutions]<https://urldefense.proofpoint.com/v2/url?u=http-3A__imatsolutions.com&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=Heup-IbsIg9Q1TPOylpP9FE4GTK-OqdTDRRNQXipowRLRjx0ibQrHEo8uYx6674h&m=HziVnY8lVPjmyOWhbmmtpQ8BnQrI2oKBCmCn2-rcQ4c&s=1YSEtWDD2rAu_TXbnSPooTo41UX8ZE8QMPg3nfyA5OU&e=>
Kim Ebert
Software Engineer
[Office:] 208.971.1509<tel:208.971.1509>
kim.ebert@imatsolutions.com<mailto:greg.hubert@imatsolutions.com>
On 05/18/2015 04:08 PM, Chen, Pei wrote:
Kim,
Thanks for helping with the testing.  Just curious- which mvn cmd did you use?
All of the unit tests pass for me when I do a:
$ svn co https://svn.apache.org/repos/asf/ctakes/tags/ctakes-3.2.2-rc2<https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_tags_ctakes-2D3.2.2-2Drc2&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=Heup-IbsIg9Q1TPOylpP9FE4GTK-OqdTDRRNQXipowRLRjx0ibQrHEo8uYx6674h&m=HziVnY8lVPjmyOWhbmmtpQ8BnQrI2oKBCmCn2-rcQ4c&s=5IrwkjyP9w9ep7L4mDHp3N6iQEgYX0hjSzv8YVnQqM8&e=>
$mvn clean compile test

-------------------------------------------------------
T E S T S
-------------------------------------------------------

Results :

Tests run: 0, Failures: 0, Errors: 0, Skipped: 0

[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO]
[INFO] Apache cTAKES ..................................... SUCCESS [4.605s]
[INFO] Apache cTAKES common type system .................. SUCCESS [1:56.910s]
[INFO] Apache cTAKES utils ............................... SUCCESS [22.507s]
[INFO] Apache cTAKES Resources core ...................... SUCCESS [9.048s]
[INFO] Apache cTAKES core ................................ SUCCESS [2:26.837s]
[INFO] Apache cTAKES Resources pos-tagger ................ SUCCESS [14.414s]
[INFO] Apache cTAKES part-of-speech tagger ............... SUCCESS [1:12.710s]
[INFO] Apache cTAKES Resources ctakes-chunker-res ........ SUCCESS [15.176s]
[INFO] Apache cTAKES chunker ............................. SUCCESS [44.090s]
[INFO] Apache cTAKES document preprocessor ............... SUCCESS [36.772s]
[INFO] Apache cTAKES Resources dictionary-lookup ......... SUCCESS [19:49.802s]
[INFO] Apache cTAKES dictionary lookup ................... SUCCESS [51.745s]
[INFO] Apache cTAKES context dependent tokenizer ......... SUCCESS [22.713s]
[INFO] Apache cTAKES Resources lvg ....................... SUCCESS [33:32.726s]
[INFO] Apache cTAKES LVG lexical tools ................... SUCCESS [25.485s]
[INFO] Apache cTAKES Resources ne-contexts ............... SUCCESS [4.875s]
[INFO] Apache cTAKES named entity contexts ............... SUCCESS [52.822s]
[INFO] Apache cTAKES Resources constituency-parser ....... SUCCESS [31.723s]
[INFO] Apache cTAKES Constituency Parser ................. SUCCESS [49.930s]
[INFO] Apache cTAKES Resources coreference ............... SUCCESS [40.765s]
[INFO] Apache cTAKES Resources relation-extractor ........ SUCCESS [6.843s]
[INFO] Apache cTAKES Resources dependency-parser ......... SUCCESS [3:38.324s]
[INFO] Apache cTAKES Dependency Parser ................... SUCCESS [2:55.101s]
[INFO] Apache cTAKES Relation Extractor .................. SUCCESS [4:13.231s]
[INFO] Apache cTAKES CoReference Resolver ................ SUCCESS [2:48.639s]
[INFO] Apache cTAKES Resources drug-ner .................. SUCCESS [5.803s]
[INFO] Apache cTAKES Drug NER ............................ SUCCESS [2:09.480s]
[INFO] Apache cTAKES Resources side-effect ............... SUCCESS [6.312s]
[INFO] Apache cTAKES Side Effects ........................ SUCCESS [3:29.121s]
[INFO] Apache cTAKES Resources smoking-status ............ SUCCESS [8.847s]
[INFO] Apache cTAKES Smoking Status ...................... SUCCESS [4:16.791s]
[INFO] Apache cTAKES Resources assertion ................. SUCCESS [32.465s]
[INFO] Apache cTAKES Assertion ........................... SUCCESS [4:17.697s]
[INFO] Apache cTAKES Resources assertion-zoner ........... SUCCESS [6.570s]
[INFO] Apache cTAKES Assertion's zoner ................... SUCCESS [38.498s]
[INFO] Apache cTAKES Resources temporal .................. SUCCESS [13.800s]
[INFO] Apache cTAKES Resources ctakes-ytex-res ........... SUCCESS [15.047s]
[INFO] Apache cTAKES YTEX ................................ SUCCESS [1:28.368s]
[INFO] Apache cTAKES YTEX UIMA ........................... SUCCESS [6:21.701s]
[INFO] Apache cTAKES Resources dictionary-lookup-fast-res  SUCCESS [1:17.128s]
[INFO] Apache cTAKES dictionary lookup fast .............. SUCCESS [45.434s]
[INFO] Apache cTAKES ctakes-clinical-pipeline ............ SUCCESS [3:09.888s]
[INFO] Apache cTAKES Temporal Information Extraction ..... SUCCESS [37:52.578s]
[INFO] Apache cTAKES YTEX Web ............................ SUCCESS [1:43.959s]
[INFO] Apache cTAKES Distribution ........................ SUCCESS [13.147s]
[INFO] Apache cTAKES Regression-test ..................... SUCCESS [3:43.301s]
[INFO] Apache cTAKES template filler ..................... SUCCESS [1:30.666s]
[INFO] ctakes-examples ................................... SUCCESS [1:45.199s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 2:36:05.908s
[INFO] Finished at: Mon May 18 18:04:53 EDT 2015
[INFO] Final Memory: 72M/244M
[INFO] ------------------------------------------------------------------------

I think there’s a long outstanding issue where you would need to –DskipTests=true during
package/install phase because that unit test can’t read lvg from a resource jar... I think
that issue is still outstanding; not sure if folks would like to address it for this particular
patch release.

--Pei

From: Kim Ebert [mailto:kim.ebert@perfectsearchcorp.com]
Sent: Monday, May 18, 2015 2:59 PM
To: dev@ctakes.apache.org<mailto:dev@ctakes.apache.org>
Subject: Re: [VOTE] Release Apache cTAKES 3.2.2 (rc2)


[ ] -1 Do not release the packages because...
Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 0.83 sec <<< FAILURE!

Results :

Tests in error:
  TestClearNLPPipeLine(org.apache.ctakes.dependency.parser.ae.util.TestClearNLPAnalysisEngines):
URI is not hierarchical
[IMAT Solutions]<https://urldefense.proofpoint.com/v2/url?u=http-3A__imatsolutions.com&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=SLBMkQmi7n1iTY_1eb1WRhe2PmFhbT9yh51nijDPvyI&e=>
Kim Ebert
Software Engineer
[Office:]208.971.1509<tel:208.971.1509>
kim.ebert@imatsolutions.com<mailto:greg.hubert@imatsolutions.com>
On 05/13/2015 08:37 AM, Pei Chen wrote:

This is a call for a vote on releasing the following candidate (rc2) as

Apache cTAKES 3.2.2.



The major change since rc1 was to include the fix for CTAKES-359 - UMLS

Authentication failing despite correct username and password.



For more detailed information on the changes/release notes, please visit:

https://issues.apache.org/jira/secure/ReleaseNote.jspa?projectId=12313621&version=12328717<https://urldefense.proofpoint.com/v2/url?u=https-3A__issues.apache.org_jira_secure_ReleaseNote.jspa-3FprojectId-3D12313621-26version-3D12328717&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=0q8GepmP-AIzXsYOFAKzAJu4QaOaIPtE9ViFGYf5AdE&e=>



The release was made using the cTAKES release process documented here:

http://svn.apache.org/repos/asf/ctakes/site/backup/content/ctakes-release-guide.mdtext<https://urldefense.proofpoint.com/v2/url?u=http-3A__svn.apache.org_repos_asf_ctakes_site_backup_content_ctakes-2Drelease-2Dguide.mdtext&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=cNTzigd32BmHzDhNb0pc7_Pky08MEtMVhqTZwpuLP1E&e=>



The candidate is available at:

https://dist.apache.org/repos/dist/dev/ctakes/ctakes-3.2.2-rc2/apache-ctakes-3.2.2-src.tar.gz<https://urldefense.proofpoint.com/v2/url?u=https-3A__dist.apache.org_repos_dist_dev_ctakes_ctakes-2D3.2.2-2Drc2_apache-2Dctakes-2D3.2.2-2Dsrc.tar.gz&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=Xh_RsG-SLQfGIK9Mm5Wikv06-ntVracmEF0nTR4YHUI&e=>

/.zip



The tag to be voted on:

http://svn.apache.org/repos/asf/ctakes/tags/ctakes-3.2.2-rc2<https://urldefense.proofpoint.com/v2/url?u=http-3A__svn.apache.org_repos_asf_ctakes_tags_ctakes-2D3.2.2-2Drc2&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=PYB1Ysr91TLwULgR4JFUX7HX9WhwWGLzsIxBHsLyHgs&e=>

The MD5 checksum of the tarball can be found at:

https://dist.apache.org/repos/dist/dev/ctakes/ctakes-3.2.2-rc2/apache-ctakes-3.2.2-src.tar.gz.md5<https://urldefense.proofpoint.com/v2/url?u=https-3A__dist.apache.org_repos_dist_dev_ctakes_ctakes-2D3.2.2-2Drc2_apache-2Dctakes-2D3.2.2-2Dsrc.tar.gz.md5&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=MVx9tZTThRbARCWwhF6H8gGzoq2Lxt0YNIHegaVudQY&e=>

/.zip.md5



The signature of the tarball can be found at:

https://dist.apache.org/repos/dist/dev/ctakes/ctakes-3.2.2-rc2/apache-ctakes-3.2.2-src.tar.gz.asc<https://urldefense.proofpoint.com/v2/url?u=https-3A__dist.apache.org_repos_dist_dev_ctakes_ctakes-2D3.2.2-2Drc2_apache-2Dctakes-2D3.2.2-2Dsrc.tar.gz.asc&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=2Q67800RBncc6aNG4pYiWEoEUb651gpFoOXXMlNHJLM&e=>

/.zip.asc



Apache cTAKES' KEYS file, containing the PGP keys used to sign the release:

https://dist.apache.org/repos/dist/release/ctakes/KEYS<https://urldefense.proofpoint.com/v2/url?u=https-3A__dist.apache.org_repos_dist_release_ctakes_KEYS&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=Z2mFjX2pyjO3sFfi6q2LxZRjc_uh6E_HMS5kEC1QaFg&e=>



Please vote on releasing these packages as Apache cTAKES 3.2.2. The vote is

open for at least the next 72 hours.



The vote passes if at least three binding +1 votes are cast.

[ ] +1 Release the packages as Apache cTAKES 3.2.2

[ ] -1 Do not release the packages because...



Also, the convenience binary can be found at:

https://dist.apache.org/repos/dist/dev/ctakes/ctakes-3.2.2-rc2/apache-ctakes-3.2.2-bin.tar.gz.md5<https://urldefense.proofpoint.com/v2/url?u=https-3A__dist.apache.org_repos_dist_dev_ctakes_ctakes-2D3.2.2-2Drc2_apache-2Dctakes-2D3.2.2-2Dbin.tar.gz.md5&d=BQMDaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=7L5MUxlkhMYDS-BUpfA2NU3vIPZgSwZqSyMm4dfICQg&s=yC9TgSVlyFJd1Q5HyUaNPdp7tTevjTbONipoSLql72I&e=>

/.zip








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