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From Justin Zhang <justinzhang...@gmail.com>
Subject Re: Invalid UMLS License
Date Mon, 27 Jul 2015 16:01:40 GMT
Hello Sean,

I checked out CTAKES snapshot (last week) in Eclipse following development
installation guide
https://cwiki.apache.org/confluence/display/CTAKES/cTAKES+3.0+Developer+Install+Guide

I launched UIMA_CVD from project "cakes-clinical-pipeline", and loaded AE
AggregatePlaintextFastUMLSProcessor.xml

I still got "ERROR UmlsUserApprover". With my account id and password, I
could login from web (the following link)


https://utslogin.nlm.nih.gov/cas/login?service=https%3A%2F%2Futs.nlm.nih.gov%3A443%2F%2Fj_spring_cas_security_check%3Bjsessionid%3D366912C5528E774DD06D6A87A1B77342

The error message was copied below. Any suggestions? Thanks

log4j: reset attribute= "false".

log4j: Threshold ="null".

log4j: Retreiving an instance of org.apache.log4j.Logger.

log4j: Setting [ProgressAppender] additivity to [false].

log4j: Level value for ProgressAppender is  [INFO].

log4j: ProgressAppender level set to INFO

log4j: Class name: [org.apache.log4j.ConsoleAppender]

log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"

log4j: Setting property [conversionPattern] to [%m].

log4j: Adding appender named [noEolAppender] to category [ProgressAppender].

log4j: Retreiving an instance of org.apache.log4j.Logger.

log4j: Setting [ProgressDone] additivity to [false].

log4j: Level value for ProgressDone is  [INFO].

log4j: ProgressDone level set to INFO

log4j: Class name: [org.apache.log4j.ConsoleAppender]

log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"

log4j: Setting property [conversionPattern] to [%m%n].

log4j: Adding appender named [eolAppender] to category [ProgressDone].

log4j: Level value for root is  [INFO].

log4j: root level set to INFO

log4j: Class name: [org.apache.log4j.ConsoleAppender]

log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"

log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss}
%5p %c{1} - %m%n].

log4j: Adding appender named [consoleAppender] to category [root].

27 Jul 2015 10:39:05  INFO LvgCmdApiResourceImpl - Loading NLM Norm and Lvg
with config file =
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties

27 Jul 2015 10:39:05  INFO LvgCmdApiResourceImpl -   config file absolute
path =
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/data/config/lvg.properties

27 Jul 2015 10:39:05  INFO LvgCmdApiResourceImpl - cwd =
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-clinical-pipeline

27 Jul 2015 10:39:05  INFO LvgCmdApiResourceImpl - cd
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-lvg-res/target/classes/org/apache/ctakes/lvg/

27 Jul 2015 10:39:05  INFO LvgCmdApiResourceImpl - cd
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-clinical-pipeline

27 Jul 2015 10:39:06  INFO ClearNLPDependencyParserAE - using Morphy
analysis? true

Loading configuration.

Loading feature templates.

Loading lexica.

Loading model:

........................................................................................

27 Jul 2015 10:39:15  INFO Chunker - Chunker model file:
org/apache/ctakes/chunker/models/chunker-model.zip

27 Jul 2015 10:39:17  INFO ContextDependentTokenizerAnnotator - Finite
state machines loaded.

27 Jul 2015 10:39:17  INFO ConstituencyParser - Initializing parser...

27 Jul 2015 10:39:19  INFO ContextAnnotator - SCOPE ORDER: [1, 3]

27 Jul 2015 10:39:19  INFO NegationContextAnalyzer - initBoundaryData()
called for ContextInitializer

27 Jul 2015 10:39:20  INFO DrugMentionAnnotator - Finite state machines
loaded.

27 Jul 2015 10:39:20  INFO POSTagger - POS tagger model file:
org/apache/ctakes/postagger/models/mayo-pos.zip

27 Jul 2015 10:39:20  INFO AbstractJCasTermAnnotator - Using dictionary
lookup window type: org.apache.ctakes.typesystem.type.textspan.Sentence

27 Jul 2015 10:39:20  INFO AbstractJCasTermAnnotator - Exclusion tagset
loaded: CC CD DT EX IN LS MD PDT POS PP PP$ PRP PRP$ RP TO VB VBD VBG VBN
VBP VBZ WDT WP WPS WRB

27 Jul 2015 10:39:20  INFO AbstractJCasTermAnnotator - Using minimum term
text span: 3

27 Jul 2015 10:39:21  INFO DictionaryDescriptorParser - Parsing dictionary
specifications:
/Users/justin/App/eclipse_mars/workspace_eclipse_mars/ctakes/ctakes-dictionary-lookup-fast-res/target/classes/org/apache/ctakes/dictionary/lookup/fast/cTakesHsql.xml

27 Jul 2015 10:39:21  INFO UmlsUserApprover - Checking UMLS Account at
https://uts-ws.nlm.nih.gov/restful/isValidUMLSUser for user zhangjustin
-Dctakes.umlspw=20aug10! -Djava.util.logging.config.file=/Logger.properties:

.

27 Jul 2015 10:39:21 ERROR UmlsUserApprover -   UMLS Account at
https://uts-ws.nlm.nih.gov/restful/isValidUMLSUser is not valid for user
<myuseraccount> -Dctakes.umlspw=********
-Djava.util.logging.config.file=/Logger.properties with CHANGEME


On Mon, Jul 27, 2015 at 8:32 AM, Finan, Sean <
Sean.Finan@childrens.harvard.edu> wrote:

> Hi Justin,
>
> The UMLS licensing issue has been resolved:
> https://issues.apache.org/jira/browse/CTAKES-359
>
> Any version built after May 12th 2015 should have the fix.
>
> Sean
>
>
> -----Original Message-----
> From: Justin Zhang [mailto:justinzhang.xl@gmail.com]
> Sent: Sunday, July 26, 2015 9:21 AM
> To: user@ctakes.apache.org; dev@ctakes.apache.org
> Subject: Invalid UMLS License
>
> Hello Everyone and Sir Miller, Timothy
>
> Has the UMLS license issue discussed in the following link be resolved?
>
>
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mail-2Darchives.apache.org_mod-5Fmbox_ctakes-2Duser_201505.mbox_-253CE084D8EFE2B03A408B324458C5212E945305DD21-40CHEXMBX3B.CHBOSTON.ORG-253E&d=BQIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=3aIq21IOPN1iyBDOER6I0oZo91kp0ZvFpxVqopVyOjM&s=pwjK4pNoPHvoDDd9sK40bk0-_SOQ7MGiA1TNMLplMwI&e=
>
> --
>
> Thanks,
>
> Justin
>



-- 
Justin

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