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From "Ahmed Abdeen(Home)" <ahmed.elma...@gmail.com>
Subject Re: bioNLP UIMA
Date Wed, 11 Jun 2008 23:29:17 GMT
Dear Marshall,
Thank you for your research, I appreciate it. I ended up removing references
to the missing files from the source code and I got it to compile.Best
wishes,
Ahmed

On Wed, Jun 11, 2008 at 6:09 PM, Marshall Schor <msa@schor.com> wrote:

> Ahmed Abdeen(Home) wrote:
>
>> Hi Marshall,I actually sent my question there and I was told that those
>> files aren't there's to begin with. I was advised to check with uima-users
>> after I posted my question to the uima-developers list.
>>
>>
> I think you would get these files from the universities mentioned.  For
> instance, for some of the missing files below, they have names like
> Standford Parser, and there is a parser available for download from
> http://nlp.stanford.edu/software/lex-parser.shtml which might be that
> parser.
> -Marshall
>
>  Thanks for your response anyways!
>> Ahmed
>>
>> On Wed, Jun 11, 2008 at 3:23 PM, Marshall Schor <msa@schor.com> wrote:
>>
>>
>>
>>> Hello, Ahmed -
>>>
>>> I think this question is best directed to the bioNLP group.
>>> It looks like the build script is not finding many different classes.
>>>  Perhaps there is a "readme" in the distribution you got which gives
>>> instructions on obtaining other Jars from places like Stanford (the
>>> import
>>> of "edu.stanford.nlp. . ." implies this may be coming from Standford
>>> university).
>>>
>>> -Marshall
>>>
>>>
>>> Ahmed Abdeen(Home) wrote:
>>>
>>>
>>>
>>>> Apologies from cross-listing!
>>>>
>>>> Hello,I am trying to compile bioNLP UIMA tools but I am getting the
>>>> following errors:
>>>> Buildfile: build.xml
>>>>
>>>> compile:
>>>>   [javac] Compiling 161 source files to
>>>>
>>>>
>>>> /Users/ahmedabdeenhamed/Projects/bionlp_uima_repository-1.0.1/build/classes
>>>>   [javac]
>>>>
>>>>
>>>> /Users/ahmedabdeenhamed/Projects/bionlp_uima_repository-1.0.1/src/edu/uchsc/ccp/util/external/stanfordparser/StanfordParser_Util.java:48:
>>>> cannot find symbol
>>>>   [javac] symbol  : class TypedDependencyList
>>>>   [javac] location: package edu.stanford.nlp.trees
>>>>   [javac] import edu.stanford.nlp.trees.TypedDependencyList;
>>>>   [javac]                               ^
>>>>   [javac]
>>>>
>>>>
>>>> /Users/ahmedabdeenhamed/Projects/bionlp_uima_repository-1.0.1/src/edu/uchsc/ccp/util/external/stanfordparser/StanfordParser_Util.java:418:
>>>> cannot find symbol
>>>>   [javac] symbol  : class TypedDependencyList
>>>>   [javac] location: class
>>>> edu.uchsc.ccp.util.external.stanfordparser.StanfordParser_Util
>>>>   [javac]         TypedDependencyList tdl = gs.typedDependencies();
>>>>   [javac]         ^
>>>>   [javac]
>>>>
>>>>
>>>> /Users/ahmedabdeenhamed/Projects/bionlp_uima_repository-1.0.1/src/edu/uchsc/ccp/util/external/penn/PennBioTokenizer_Util.java:49:
>>>> cannot find symbol
>>>>   [javac] symbol  : constructor BioTokenizer(java.lang.String)
>>>>   [javac] location: class edu.upenn.cis.tokenizers.BioTokenizer
>>>>   [javac]         bt = new BioTokenizer(tokenizerModelFile);
>>>>   [javac]              ^
>>>>   [javac] Note: Some input files use or override a deprecated API.
>>>>   [javac] Note: Recompile with -Xlint:deprecation for details.
>>>>   [javac] Note: Some input files use unchecked or unsafe operations.
>>>>   [javac] Note: Recompile with -Xlint:unchecked for details.
>>>>   [javac] 3 errors
>>>>
>>>> BUILD FAILED
>>>>
>>>> If you have had experience with bioNLP UIMA and got it to compile,
>>>> please
>>>> let me know. I could use some help.
>>>> Thanks in advance!
>>>> Ahmed
>>>>
>>>>
>>>>
>>>>
>>>>
>>>
>>>
>>
>>
>>
>
>

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