Hi Akram, Gandhi has provided some good links, and I agree that you should read that information. In case you haven't found it, there is also a "quick start" manual is on this page: https://cwiki.apache.org/confluence/display/CTAKES/cTAKES+4.0 Under "Documentation", there is a download named "A pamphlet/manual on cTAKES basics". It was meant to have an accompanying human tutor, but it does contain some handy information.
> I can get CVD run on the binary version of cTAKES. -- Excellent! > but I have problem on the Developer version. -- Are you using an IDE? There might be a maven profile listed named "runCVD". You can try to compile ctakes with that profile. >From a command line: "mvn compile -PrunCVD" -- Regardless, if you've already built a binary then at least you can run it there. The CVD is not a ctakes product, but is bundled with uima. So if you change ctakes code CVD will still remain the same. -- https://uima.apache.org/d/uimaj-current/tools.html#ugr.tools.cvd I think that there is a misunderstanding here: >When I try to Load AE on the CVD (Development Version) I get this error -- The CVD is meant to display output from ctakes. -- If you run ctakes to produce an .xmi file(s) then you can load the .xmi file into the CVD and view what ctakes discovered in the document. While the CVD is very good for debugging and roaming details, you can also produce simpler output types such as html and marked text. Other output types might be easier for new users, and they do not require running a second tool (CVD). Sean ________________________________________ From: Akram <as...@yahoo.com.INVALID> Sent: Sunday, December 15, 2019 6:35 AM To: dev@ctakes.apache.org Subject: Re: How does cTAKES work? [EXTERNAL] Warning: Email originated outside Boston Children's. Don't click links/attachments unless you know sender & content seems safe. ********************************************************************** Thanks Gandhi I can get CVD run on the binary version of cTAKES. but I have problem on the Developer version. When I try to Load AE on the CVD (Development Version) I get this error When I try to load : AggregatePlaintextProcessor.xml I get Error : org.apache.uima.resource.ResourceInitializationException: More detailed information in the log file When I try to load : AggregatePlaintextFastUMLSProcessor.xml I get Error : org.apache.uima.resource.ResourceInitializationException: an import could not be resolved. No file with name "org/apache/ctakes/drugner/types/TypeSystem.xml" was found in the class path or data path (Descriptor:file:/D:/cTAKES/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml) More detailed information in the log file P.S. I changed CTAKES_HOME to D:\cTAKES which is the development folder that has all code) How can I fix that? =================================================Error 1: <date>2019-12-15T22:23:11</date> <millis>1576408991483</millis> <sequence>7</sequence> <logger>org.apache.uima</logger> <level>SEVERE</level> <class>org.apache.uima.tools.cvd.MainFrame</class> <method>handleException(527)</method> <thread>24</thread> <message>Exception occurred</message> <exception> <message>org.apache.uima.resource.ResourceInitializationException</message> <frame> <class>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</class> <method>load</method> <line>82</line> </frame> =================================================Error 2: <date>2019-12-15T22:32:54</date> <millis>1576409574952</millis> <sequence>9</sequence> <logger>org.apache.uima</logger> <level>SEVERE</level> <class>org.apache.uima.tools.cvd.MainFrame</class> <method>handleException(527)</method> <thread>24</thread> <message>An import could not be resolved. No file with name "org/apache/ctakes/drugner/types/TypeSystem.xml" was found in the class path or data path. (Descriptor: file:/J:/__cTAKES/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml)</message> <exception> <message>org.apache.uima.resource.ResourceInitializationException: An import could not be resolved. No file with name "org/apache/ctakes/drugner/types/TypeSystem.xml" was found in the class path or data path. (Descriptor: file:/J:/__cTAKES/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml)</message> <frame> <class>org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl</class> <method>initialize</method> <line>165</line> </frame> <frame> <class>org.apache.uima.impl.AnalysisEngineFactory_impl</class> <method>produceResource</method> <line>94</line> </frame> On Sunday, 15 December 2019, 05:46:24 pm AEDT, gandhi rajan <gandhiraja...@gmail.com> wrote: Hi Akram, I would prefer to have a look at the following link: https://urldefense.proofpoint.com/v2/url?u=https-3A__cwiki.apache.org_confluence_display_CTAKES_cTAKES-2B4.0-2BUser-2BInstall-2BGuide&d=DwIFaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=xWsLlr2p_eCQrJQdreWNUdMv0gchC_6EB3QxoTfWeKw&s=qxZURGVbSA4ymygrHulseFwwUMkwDW5dyrRJTsw_1k4&e= And for loading custom dictionaries you gotta look at the following link: https://urldefense.proofpoint.com/v2/url?u=https-3A__cwiki.apache.org_confluence_display_CTAKES_cTAKES-2B4.0-2BDictionaries-2Band-2BModels&d=DwIFaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=xWsLlr2p_eCQrJQdreWNUdMv0gchC_6EB3QxoTfWeKw&s=eQMp1QR1LlSy17WiuET0TT87CkBF-TMbH5on4i7CJiU&e= On Sun, Dec 15, 2019 at 9:19 AM Akram <as...@yahoo.com.invalid> wrote: > Hi > I have 2 questions, and would appreciate the help. > The first question > ================== > I have been trying to get how cTAKES work and not so much luck > I know that we build .piper file through "cTAKES Simple Pipeline > Fabricator" > we get a .piper file > Then the process is not clear > my understanding and I am not sure if I am right here > is that we create a .xml file from the .piper file through > I tried using "cTAKES Pipe File Submitter" > I loaded HelloWorld.piper but I got this error > org.apache.uima.resource.ResourceInitializationException: MESSAGE > LOCALIZATION FAILED: Can't find resource for bundle > java.util.PropertyResourceBundle, key No Analysis Component found for > ContextDependentTokenizerAnnotator > I read Sean's email in the mail archive > and Replaced > add ContextDependentTokenizerAnnotator > with > add org.apache.ctakes.contexttokenizer.ae > .ContextDependentTokenizerAnnotator > but still getting the same error > > The 2nd question > =============== > After creating the .xml the next step will be > Loading the result file in the "CAS Visual Debugger (CVD)" > and build .xmi file > but what is next? > How can I view the the NER values? and where is the coloured screen that > highlight each token in a colour and each NER in a different colour? > and where I train cTAKES to take ICD10 or SNOMED or any other dataset? > > -- Regards, Gandhi "The best way to find urself is to lose urself in the service of others !!!"
