Smart man karthik. I do have a percent sign in my password. Thank you for your help here, both of you.
Works now! Great tip. On Dec 23, 2013 7:11 PM, "Karthik Sarma" <[email protected]> wrote: > Ah, I think I might know the problem. You probably have a percent sign in > your password. If so, you should replace it with a double percent (%%) in > the batch file, as the % sign is a reserved character in batch files. > > > > > > -- > Karthik Sarma > UCLA Medical Scientist Training Program Class of 20?? > Member, UCLA Medical Imaging & Informatics Lab > Member, CA Delegation to the House of Delegates of the American Medical > Association > [email protected] > gchat: [email protected] > linkedin: www.linkedin.com/in/ksarma > > > On Mon, Dec 23, 2013 at 9:05 PM, Joshua Weiner <[email protected]>wrote: > >> when I run the script I get the following error: ((see below the >> >> >> I run: bin\runctakesCVD.bat >> I get: >> >> C:\apache-ctakes-3.1.00>java -Dctakes.umlsuser=joshuawiener2 >> -Dctakes.umlspw=mypasswordCTAKES_HOMECTAKES_HOMECTAKES_HOME/C:\apache-ctakes-3.1.0/config/log4j.xml >> -Xms512M -Xmx2048M org.apache.uima.tools.cvd.CVD >> Error: Could not find or load main class org.apache.uima.tools.cvd.CVD >> >> >> >> On Mon, Dec 23, 2013 at 10:02 PM, Karthik Sarma <[email protected]>wrote: >> >>> OK, and what is the output when you run the script? >>> >>> >>> >>> >>> >>> -- >>> Karthik Sarma >>> UCLA Medical Scientist Training Program Class of 20?? >>> Member, UCLA Medical Imaging & Informatics Lab >>> Member, CA Delegation to the House of Delegates of the American Medical >>> Association >>> [email protected] >>> gchat: [email protected] >>> linkedin: www.linkedin.com/in/ksarma >>> >>> >>> On Mon, Dec 23, 2013 at 8:59 PM, Joshua Weiner >>> <[email protected]>wrote: >>> >>>> based on the code below I see the home directory as being set to the >>>> current_dir which is C:\apache-ctakes-3.0.1.............. >>>> >>>> I also tried using James code to re-set the directory .. did not work. >>>> >>>> @REM Guess CTAKES_HOME if not defined >>>> set CURRENT_DIR=%cd% >>>> if not "%CTAKES_HOME%" == "" goto gotHome >>>> set CTAKES_HOME=%CURRENT_DIR% >>>> if exist "%CTAKES_HOME%\bin\runctakesCVD.bat" goto okHome >>>> cd .. >>>> set CTAKES_HOME=%cd% >>>> >>>> :gotHome >>>> if exist "%CTAKES_HOME%\bin\runctakesCVD.bat" goto okHome >>>> echo The CTAKES_HOME environment variable is not defined correctly >>>> echo This environment variable is needed to run this program >>>> goto end >>>> >>>> :okHome >>>> cd %CTAKES_HOME% >>>> java -Dctakes.umlsuser=joshuawiener2 -Dctakes.umlspw=56Kmartin% -cp >>>> "%CTAKES_HOME%/lib/*;%CTAKES_HOME%/desc/;%CTAKES_HOME%/resources/" >>>> -Dlog4j.configuration=file:/%CTAKES_HOME%/config/log4j.xml -Xms512M >>>> -Xmx2048M org.apache.uima.tools.cvd.CVD >>>> >>>> :end >>>> >>>> >>>> On Mon, Dec 23, 2013 at 9:55 PM, Karthik Sarma <[email protected]>wrote: >>>> >>>>> What is your CTAKES_HOME set to? >>>>> >>>>> >>>>> >>>>> >>>>> >>>>> -- >>>>> Karthik Sarma >>>>> UCLA Medical Scientist Training Program Class of 20?? >>>>> Member, UCLA Medical Imaging & Informatics Lab >>>>> Member, CA Delegation to the House of Delegates of the American >>>>> Medical Association >>>>> [email protected] >>>>> gchat: [email protected] >>>>> linkedin: www.linkedin.com/in/ksarma >>>>> >>>>> >>>>> On Mon, Dec 23, 2013 at 8:50 PM, Joshua Weiner < >>>>> [email protected]> wrote: >>>>> >>>>>> Where do you see this James? >>>>>> >>>>>> Here is my code... I see the -cp parameter and its arguements right >>>>>> after "mypassword" ... right? >>>>>> >>>>>> :okHome >>>>>> cd %CTAKES_HOME% >>>>>> java -Dctakes.umlsuser=joshuawiener2 -Dctakes.umlspw=mypassword -cp >>>>>> "%CTAKES_HOME%/lib/*;%CTAKES_HOME%/desc/;%CTAKES_HOME%/resources/" >>>>>> -Dlog4j.configuration=file:/%CTAKES_HOME%/config/log4j.xml -Xms512M >>>>>> -Xmx2048M org.apache.uima.tools.cvd.CVD >>>>>> >>>>>> :end >>>>>> >>>>>> >>>>>> On Mon, Dec 23, 2013 at 9:44 PM, Masanz, James J. < >>>>>> [email protected]> wrote: >>>>>> >>>>>>> I see now that the java command in your previous post didn’t >>>>>>> include the -cp parameter and its arguments. >>>>>>> >>>>>>> Please add that back in. >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> *From:* [email protected] [mailto:[email protected]] *On >>>>>>> Behalf Of *Joshua Weiner >>>>>>> *Sent:* Monday, December 23, 2013 8:12 PM >>>>>>> >>>>>>> *To:* [email protected] >>>>>>> *Subject:* Re: Adding UMLS username and password .... >>>>>>> >>>>>>> >>>>>>> >>>>>>> James, >>>>>>> >>>>>>> >>>>>>> >>>>>>> I appreciate your persistence, it means quite a lot. Unfortunately, >>>>>>> even with your latest attempt I still get the same error: >>>>>>> >>>>>>> Error: Could not find or load main class >>>>>>> org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> >>>>>>> I am on windows 8, 8gb of ram. >>>>>>> >>>>>>> >>>>>>> >>>>>>> Thank you for your persistence. >>>>>>> >>>>>>> >>>>>>> Josh >>>>>>> >>>>>>> >>>>>>> >>>>>>> On Mon, Dec 23, 2013 at 9:07 PM, Masanz, James J. < >>>>>>> [email protected]> wrote: >>>>>>> >>>>>>> Try this >>>>>>> >>>>>>> CD C:\apache-ctakes-3.1.0 >>>>>>> >>>>>>> set CTAKES_HOME=C:\apache-ctakes-3.1.0 >>>>>>> >>>>>>> then enter the java command from the command line that you were >>>>>>> entering >>>>>>> >>>>>>> >>>>>>> >>>>>>> Note: in my previous post, it was my mistake of including the >>>>>>> percent signs in the SET command. >>>>>>> >>>>>>> >>>>>>> >>>>>>> I meant to suggest >>>>>>> >>>>>>> set CTAKES_HOME="" >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> *From:* [email protected] [mailto:[email protected]] *On >>>>>>> Behalf Of *Joshua Weiner >>>>>>> *Sent:* Monday, December 23, 2013 7:55 PM >>>>>>> >>>>>>> >>>>>>> *To:* [email protected] >>>>>>> *Subject:* Re: Adding UMLS username and password .... >>>>>>> >>>>>>> >>>>>>> >>>>>>> James, >>>>>>> >>>>>>> >>>>>>> Thank you for your continual prompt responses. Unfortunately, even >>>>>>> after I did set%CTAKES_HOME%="" I still get the following errror: >>>>>>> >>>>>>> >>>>>>> >>>>>>> C:\apache-ctakes-3.1.0>java -Dctakes.umlsuser=joshuawiener2 >>>>>>> =DCtakes.umlspw=mypasswwordCTAKES_HOMECTAKES_HOMECTAKES_HOME/C:\apache-ctakes-3.1.0/config/log4j.xml >>>>>>> -Xmd512M -Xmx2048M org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> Error: Could not find or load main class >>>>>>> org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> >>>>>>> >>>>>>> once again my code in the runctakesCVD.bat file is: >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> :okHome >>>>>>> >>>>>>> cd %CTAKES_HOME% >>>>>>> >>>>>>> java -Dctakes.umlsuser=joshuawiener2 -Dctakes.umlspw=passwordd -cp >>>>>>> "%CTAKES_HOME%/lib/*;%CTAKES_HOME%/desc/;%CTAKES_HOME%/resources/" >>>>>>> -Dlog4j.configuration=file:/%CTAKES_HOME%/config/log4j.xml -Xms512M >>>>>>> -Xmx2048M org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> >>>>>>> >>>>>>> :end >>>>>>> >>>>>>> >>>>>>> >>>>>>> On Mon, Dec 23, 2013 at 8:45 PM, Masanz, James J. < >>>>>>> [email protected]> wrote: >>>>>>> >>>>>>> >>>>>>> >>>>>>> You might try from the command line >>>>>>> >>>>>>> >>>>>>> >>>>>>> echo %CTAKES_HOME% >>>>>>> >>>>>>> >>>>>>> >>>>>>> or even better for debug purposes put it just before the CD >>>>>>> %CTAKES_HOME% line. >>>>>>> >>>>>>> >>>>>>> >>>>>>> It should respond with the parent of the bin, desc, and resources >>>>>>> directory. >>>>>>> >>>>>>> >>>>>>> >>>>>>> If it responds with something else, try clearing %CTAKES_HOME% by >>>>>>> entering the following on the command line and then trying the bat file >>>>>>> again. >>>>>>> >>>>>>> set %CTAKES_HOME%="" >>>>>>> >>>>>>> >>>>>>> >>>>>>> Oh, and you’ll probably want to change -Xmx1024M to be –Xmx2048M or >>>>>>> even larger or you will run into a heap space error for many parts of >>>>>>> cTAKES. >>>>>>> >>>>>>> >>>>>>> >>>>>>> -- James >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> *From:* [email protected] [mailto:[email protected]] *On >>>>>>> Behalf Of *Joshua Weiner >>>>>>> *Sent:* Monday, December 23, 2013 7:36 PM >>>>>>> *To:* [email protected] >>>>>>> *Subject:* Re: Adding UMLS username and password .... >>>>>>> >>>>>>> >>>>>>> >>>>>>> James, >>>>>>> >>>>>>> >>>>>>> Thanks so much for your response. When I remove the brackets I still >>>>>>> get an error, I get: >>>>>>> >>>>>>> >>>>>>> >>>>>>> "Error: could not find or load main class >>>>>>> org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> Thank you so much for your help. I appreciate your dilligence. >>>>>>> >>>>>>> >>>>>>> Sincerely, >>>>>>> >>>>>>> Josh >>>>>>> >>>>>>> >>>>>>> >>>>>>> On Mon, Dec 23, 2013 at 8:32 PM, Masanz, James J. < >>>>>>> [email protected]> wrote: >>>>>>> >>>>>>> Sorry for the confusion, don’t include the brackets, so it should >>>>>>> look like this: >>>>>>> >>>>>>> >>>>>>> >>>>>>> -Dctakes.umlsuser=joshuawiener2 -Dctakes.umlspw=mypassword >>>>>>> >>>>>>> >>>>>>> >>>>>>> *From:* [email protected] [mailto:[email protected]] *On >>>>>>> Behalf Of *Joshua Weiner >>>>>>> *Sent:* Monday, December 23, 2013 7:28 PM >>>>>>> *To:* [email protected] >>>>>>> *Subject:* Adding UMLS username and password .... >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> Hey guys, >>>>>>> >>>>>>> >>>>>>> >>>>>>> I know this is probably a dumb question but I can't for the life of >>>>>>> me figure it out. I finally got a UMLS username and password, but I >>>>>>> don't >>>>>>> think I am updating the BAT files correctly... here is what I did: note >>>>>>> my >>>>>>> username is joshuaweiner2 and my password (for this example) is >>>>>>> mypasswordd >>>>>>> (see below).... I now can't get the CVD to run. >>>>>>> >>>>>>> >>>>>>> Thank you for your help... >>>>>>> >>>>>>> >>>>>>> >>>>>>> :okHome >>>>>>> >>>>>>> cd %CTAKES_HOME% >>>>>>> >>>>>>> java -Dctakes.umlsuser=<joshuawiener2> -Dctakes.umlspw=<mypasswordd> >>>>>>> -cp "%CTAKES_HOME%/lib/*;%CTAKES_HOME%/desc/;%CTAKES_HOME%/resources/" >>>>>>> -Dlog4j.configuration=file:/%CTAKES_HOME%/config/log4j.xml -Xms512M >>>>>>> -Xmx1024M org.apache.uima.tools.cvd.CVD >>>>>>> >>>>>>> >>>>>>> >>>>>>> :end >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> -- >>>>>>> Joshua S. Weiner >>>>>>> >>>>>>> [email protected] >>>>>>> >>>>>>> 201.638.0047 >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> -- >>>>>>> Joshua S. Weiner >>>>>>> >>>>>>> [email protected] >>>>>>> >>>>>>> 201.638.0047 >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> -- >>>>>>> Joshua S. Weiner >>>>>>> >>>>>>> [email protected] >>>>>>> >>>>>>> 201.638.0047 >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> -- >>>>>>> Joshua S. Weiner >>>>>>> >>>>>>> [email protected] >>>>>>> >>>>>>> 201.638.0047 >>>>>>> >>>>>> >>>>>> >>>>>> >>>>>> -- >>>>>> Joshua S. Weiner >>>>>> [email protected] >>>>>> 201.638.0047 >>>>>> >>>>> >>>>> >>>> >>>> >>>> -- >>>> Joshua S. Weiner >>>> [email protected] >>>> 201.638.0047 >>>> >>> >>> >> >> >> -- >> Joshua S. Weiner >> [email protected] >> 201.638.0047 >> > >
