Hm, does the stack trace you posted match the source?
Line 85, for example, doesn't contain any executable
code.
What would really help here is if you could put together
a test case that we can run. Unless Marshall can see
the issue just from looking at the code, that is really
your best option. Create a test case, zip it up, and
attach it to a Jira issue (with instructions on how to
run and reproduce the problem).
Thanks,
Thilo
ISAO Isaac Saito wrote:
> Thanks Marshall,
> I attach the stack trace and java code below.
>
> <exception>
> Exception in thread "main" java.lang.NullPointerException
> at org.apache.uima.cas.impl.CASImpl.ll_getFSForRef(CASImpl.java:2745)
> at
> jp.ac.keio.dmc.context.srw.types.PersonWikip.getCompany_related(PersonWikip.java:233)
> at
> jp.ac.keio.dmc.context.srw.SRWikipediaMain.extractNeeFromText(SRWikipediaMain.java:120)
> at
> jp.ac.keio.dmc.context.srw.SRWikipediaMain.extractNeeFromWebdoc(SRWikipediaMain.java:85)
> at
> jp.ac.keio.dmc.context.srw.SRWikipediaMain.extractNamedentity(SRWikipediaMain.java:67)
> at
> jp.ac.keio.dmc.context.srw.SRWikipediaMain.<init>(SRWikipediaMain.java:47)
> at
> jp.ac.keio.dmc.context.srw.SRWikipediaMain.main(SRWikipediaMain.java:210)
> </exception>
>
>
> - PersonWikip.java
> I don't attach because it is nothing special that is generated
> automatically after defining Type System Definition on Component
> descriptor editor.
>
>
> - whole code of SRWikipediaMain.java
> # You might feel the code verbose because I paste the whole...
>
> <SRWikipediaMain.java>
> 1: package jp.ac.keio.dmc.context.srw;
> 2:
> 3: import java.io.IOException;
> 4: import java.util.LinkedList;
> 5:
> 6: import jp.ac.keio.dmc.context.srw.types.PersonWikip;
> 7: import jp.ac.keio.dmc.context.util.http.DMCHttpClient;
> 8: import net.lateeye.util.uima.AnalysisEngineUtil;
> 9:
> 10: import org.apache.uima.analysis_engine.AnalysisEngine;
> 11: import org.apache.uima.cas.FSIndex;
> 12: import org.apache.uima.cas.FSIterator;
> 13: import org.apache.uima.jcas.JCas;
> 14: import org.apache.uima.jcas.cas.StringArray;
> 15: import org.apache.uima.util.XMLInputSource;
> 16:
> 17: import com.ibm.omnifind.ne.types.Company;
> 18: import com.ibm.omnifind.ne.types.Org;
> 19:
> 20: public class SRWikipediaMain {
> 21: private static String path_eclipseWorkspace_root =
> "C:/data/app/workspace_eclipse/";
> 22: private static String path_ibmNeeDesc = path_eclipseWorkspace_root
> 23: + "tae_nee_apacheUima/" + "desc/";
> 24: private static String path_srwAeDesc = path_eclipseWorkspace_root
> 25: + "srwikipedia/" + "descriptor/";
> 26: private static String uimaDesc_personWikip = path_srwAeDesc
> 27: + "KeioWikipAnnotatorDescriptor.xml";
> 28: private static String uimaDesc_ibmNee = path_ibmNeeDesc
> 29: + "NamedEntityAnnotatorDescriptor.xml";
> 30: private static String uimaDesc_wikipPersonNee = path_srwAeDesc
> 31: + "WikipPersonNeeAnnotatorDescriptor.xml";
> 32: // private LinkedList<PersonWikip> personList = null;
> 33: private DMCHttpClient dhc = new DMCHttpClient();
> 34:
> 35: public SRWikipediaMain() {
> 36: // extract keio person from wikipedia
> 37: LinkedList<PersonWikip> personList =
> this.extractKeioPersonWikipedia();
> 38:
> 39: // extract NEs using personList
> 40: personList = this.extractNamedentity(personList);
> 41:
> 42: // update 2 RDB
> 43: this.update_SRW_db(personList);
> 44: }
> 45:
> 46: private void update_SRW_db(LinkedList<PersonWikip> persons) {
> 47: // TODO Auto-generated method stub
> 48: }
> 49:
> 50: private LinkedList<PersonWikip> extractNamedentity(
> 51: LinkedList<PersonWikip> persons) {
> 52:
> 53: LinkedList<PersonWikip> newList = new LinkedList<PersonWikip>();
> 54: for (int i = 0; i < persons.size(); i++) {
> 55: PersonWikip person = persons.get(i);
> 56:
> 57: System.out.println("SRWikipediaMain:extractNE: "
> 58: + person.getPersonname().getLex());
> 59:
> 60: person = this.extractNeeFromWebdoc(person,
> person.getUrl_wikip());
> 61:
> 62: // 2007nov19/130s/for saving memory
> 63: // newList.add(person);
> 64: person = null;
> 65: }
> 66: return newList;
> 67: }
> 68:
> 69: private PersonWikip extractNeeFromWebdoc(PersonWikip person, String
> uri) {
> 70:
> 71: String htmlBody = null;
> 72: try {
> 73: htmlBody = this.dhc.doGetBody(uri);
> 74: } catch (IllegalArgumentException e) {
> 75: // occur when the person name is not enclosed by <a>
> tag.
> 76: }
> 77:
> 78: return this.extractNeeFromText(person, htmlBody);
> 79: }
> 80:
> 81: private PersonWikip extractNeeFromText(PersonWikip person, String
> htmlBody) {
> 82: if (htmlBody != null) {
> 83: // read component descriptor for IBM NEE
> 84: XMLInputSource in = null;
> 85: try {
> 86: in = new
> XMLInputSource(SRWikipediaMain.uimaDesc_ibmNee);
> 87: } catch (IOException e) {
> 88: e.printStackTrace();
> 89: }
> 90:
> 91: // give html to analysis engine
> 92: AnalysisEngine ae =
> AnalysisEngineUtil.getAeInstance(in);
> 93: JCas jcas = AnalysisEngineUtil
> 94: .analyzeByAnalysisEngine(ae, htmlBody);
> 95:
> 96: // set firm
> 97: System.out.print(" - firm: ");
> 98:
> 99: FSIndex index =
> jcas.getJFSIndexRepository().getAnnotationIndex(
> 100: Company.type);
> 101: FSIterator compIter = index.iterator();
> 102:
> 103: StringArray compArray = new StringArray(jcas,
> index.size());
> 104: int num_company = 0;
> 105: while (compIter.hasNext()) {
> 106: Company annot = (Company) compIter.next();
> 107: compArray.set(num_company, annot.getLex());
> 108: // TODO remove redundunt values
> 109:
> 110: num_company++;
> 111: }
> 112: person.setCompany_related(compArray);
> 113: System.out.print(person.getCompany_related().toArray()
> + " ");
> 114:
> 115: // set org
> 116: System.out.println("");
> 117: System.out.print(" - org: ");
> 118:
> 119: FSIterator orgIter = jcas.getJFSIndexRepository()
> 120:
> .getAnnotationIndex(Org.type).iterator();
> 121: StringArray orgArray = new StringArray(jcas, 100);
> 122: int order_org = 0;
> 123: while (orgIter.hasNext()) {
> 124: Org annot = (Org) orgIter.next();
> 125: orgArray.set(order_org, annot.getLex());
> 126:
> 127: order_org++;
> 128: }
> 129: person.setCompany_related(orgArray);
> 130: System.out.print(person.getOrg_related().toArray() + "
> ");
> 131:
> 132: // read component descriptor for WikipPerson NEE
> 133: in = null;
> 134: jcas = null;
> 135: try {
> 136: in = new
> XMLInputSource(SRWikipediaMain.uimaDesc_wikipPersonNee);
> 137: } catch (IOException e) {
> 138: e.printStackTrace();
> 139: }
> 140: // give html to analysis engine
> 141: jcas = AnalysisEngineUtil.analyzeByAnalysisEngine(
> 142: AnalysisEngineUtil.getAeInstance(in),
> htmlBody);
> 143:
> 144: // set faculty
> 145: // set schoold graduated
> 146: // set pref. candidate from
> 147: System.out.println("");
> 148: }
> 149:
> 150: // TODO write 2 data base
> 151:
> 152: return person;
> 153: }
> 154:
> 155: private String url_keiopersons_wikipedia =
> "http://ja.wikipedia.org/wiki/%E6%85%B6%E6%87%89%E7%BE%A9%E5%A1%BE%E5%A4%A7%E5%AD%A6%E3%81%AE%E4%BA%BA%E7%89%A9%E4%B8%80%E8%A6%A7";;
> 156:
> 157: private LinkedList<PersonWikip> extractKeioPersonWikipedia() {
> 158:
> 159: XMLInputSource in = null;
> 160: try {
> 161: in = new
> XMLInputSource(SRWikipediaMain.uimaDesc_personWikip);
> 162: } catch (IOException e) {
> 163: e.printStackTrace();
> 164: }
> 165: // create a JCas, given an Analysis Engine (ae)
> 166: AnalysisEngine ae = AnalysisEngineUtil.getAeInstance(in);
> 167: String docBody =
> this.dhc.doGetBody(this.url_keiopersons_wikipedia);
> 168: JCas jcas = AnalysisEngineUtil.analyzeByAnalysisEngine(ae,
> docBody);
> 169:
> 170: LinkedList<PersonWikip> personList =
> this.createPersonList(jcas);
> 171: System.out.println("extractKeioPersonWikipedia: " +
> personList.size());
> 172:
> 173: // 2007nov15/130s/this caused fatal error!!!
> 174: // jcas.reset();
> 175:
> 176: return personList;
> 177: }
> 178:
> 179: private LinkedList<PersonWikip> createPersonList(JCas jcas) {
> 180: LinkedList<PersonWikip> persons = new LinkedList<PersonWikip>();
> 181:
> 182: FSIterator personIter = jcas.getJFSIndexRepository()
> 183:
> .getAnnotationIndex(PersonWikip.type).iterator();
> 184: int counter = 0;
> 185: while (personIter.hasNext()) {
> 186: PersonWikip p = (PersonWikip) personIter.next();
> 187: persons.add(p);
> 188: System.out
> 189:
> .println("SRWikipediaMain:createPersonList: "
> 190: +
> p.getPersonname().getLex() + ", URL: "
> 191: + p.getUrl_wikip());
> 192: counter++;
> 193: }
> 194: return persons;
> 195: }
> 196:
> 197: public static void main(String[] args) {
> 198: new SRWikipediaMain();
> 199: }
> 200: }
> </SRWikipediaMain.java>
>
> Isaac
>
>
> On 11/20/07, Marshall Schor <[EMAIL PROTECTED]> wrote:
>> Can you please post the stack trace so we can see the nesting of method
>> calls leading to the null pointer exception?
>>
>> Thanks. -Marshall
>>
>> ISAO Isaac Saito wrote:
>>> Thilo,
>>>
>>> Thank you for the comment.
>>> I took following steps but the result is the same.
>>>
>>> 1. set /uimaj-2.2.0-incubating-bin/apache-uima/lib as a classpath
>>> 2. clean compiled classes and build
>>>
>>> any comments will be appreciated.
>>>
>>> Isaac
>>>
>>> On 11/20/07, Thilo Goetz <[EMAIL PROTECTED]> wrote:
>>>
>>>> Hi,
>>>>
>>>> this looks like you may be referring to an old version
>>>> of your JCas classes in your classpath. The invocation
>>>> exception may be caused because the old version of the
>>>> Person class doesn't have the company feature yet. Please
>>>> check your classpath and make sure the classes you run
>>>> with are the same ones you compile against.
>>>>
>>>> --Thilo
>>>>
>>>> ISAO Isaac Saito wrote:
>>>>
>>>>> Hi all,
>>>>>
>>>>> Could anybody has a solution to the problem I describe below?
>>>>>
>>>>> Thanks in adv,
>>>>> Isaac
>>>>>
>>>>>
>>>>> - What I Want:
>>>>> set an array of String as a feature and get them
>>>>>
>>>>>
>>>>> - Phenomenon:
>>>>>
>>>>> -- Exception occurs and application terminates after executing
>>>>> System.out.print(person.getCompany_related().toArray())
>>>>>
>>>>> Exception in thread "main" java.lang.NullPointerException
>>>>> at
>>>>> org.apache.uima.cas.impl.CASImpl.ll_getFSForRef(CASImpl.java:2745)
>>>>>
>>>>>
>>>>> -- the content of variable shows "com.sun.jdi.InvocationException
>>>>> occurred invoking method." after executing
>>>>> person.setCompany_related(compArray).
>>>>> This can be seen by using eclipse' debug mode.
>>>>>
>>>>>
>>>>> - java code
>>>>>
>>>>> private void extractNeeFromText(String descpath, String htmlBody,
>>>>> Annotation person) {
>>>>> XMLInputSource in = null;
>>>>> try {
>>>>> in = new XMLInputSource(descpath);
>>>>> } catch (IOException e) {
>>>>> e.printStackTrace();
>>>>> }
>>>>> AnalysisEngine ae = AnalysisEngineUtil.getAeInstance(in);
>>>>> ResourceSpecifier specifier = null;
>>>>> AnalysisEngine ae = null;
>>>>> try {
>>>>> specifier =
>>>>> UIMAFramework.getXMLParser().parseResourceSpecifier(
>>>>> desc);
>>>>> ae = UIMAFramework.produceAnalysisEngine(specifier);
>>>>> } catch (InvalidXMLException e) {
>>>>> e.printStackTrace();
>>>>> } catch (ResourceInitializationException e) {
>>>>> e.printStackTrace();
>>>>> }
>>>>> JCas jcas = AnalysisEngineUtil.analyzeByAnalysisEngine(ae,
>>>>> htmlBody);
>>>>> FSIndex index = jcas.getJFSIndexRepository().getAnnotationIndex(
>>>>> Company.type);
>>>>> StringArray compArray = new StringArray(jcas, index.size());
>>>>> FSIterator compIter = index.iterator();
>>>>> int num_company = 0;
>>>>> while (compIter.hasNext()) {
>>>>> Company annot = (Company) compIter.next();
>>>>> compArray.set(num_company, annot.getLex());
>>>>> // TODO remove redundunt values
>>>>> num_company++;
>>>>> }
>>>>> person.setCompany_related(compArray);
>>>>> System.out.println(person.getCompany_related().toArray());
>>>>> }
>>>>>
>>>>>
>>>>> - type system desctiption
>>>>>
>>>>> <?xml version="1.0" encoding="UTF-8"?>
>>>>> <typeSystemDescription xmlns="http://uima.apache.org/resourceSpecifier";>
>>>>> <name>Person-Wikip_TypeSystemDescriptor</name>
>>>>> <description></description>
>>>>> <version>1.0</version>
>>>>> <vendor>ISAAC</vendor>
>>>>> <imports>
>>>>> <import
>>>>> location="../../tae_nee_apacheUima/desc/NamedEntityTypeSystemDescriptor.xml"/>
>>>>> </imports>
>>>>> <types>
>>>>> <typeDescription>
>>>>> <name>jp.ac.keio.dmc.context.srw.types.PersonWikip</name>
>>>>> <description>w</description>
>>>>> <supertypeName>uima.tcas.Annotation</supertypeName>
>>>>> <features>
>>>>> <featureDescription>
>>>>> <name>company_related</name>
>>>>> <description></description>
>>>>> <rangeTypeName>uima.cas.StringArray</rangeTypeName>
>>>>> </featureDescription>
>>>>> </features>
>>>>> </typeDescription>
>>>>> </types>
>>>>> </typeSystemDescription>
>>>>>
>>>>>
>>>>> - Referred conversation
>>>>> http://www.ibm.com/developerworks/forums/thread.jspa?threadID=129534
>>>>>
>>>
>>>
