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public void setHighLevelMeta ( int i ) { String meta = "<Table>\n" ; meta = meta + "<pageNumInDoc>" + ( i + 1 ) + "</pageNumInDoc>\n" ; m_caption = replaceAllSpecialChracters ( m_caption ) ; meta = meta + "<TableCaption>" + m_caption + "</TableCaption>\n" ; String location = "" ; if ( m_topCaptionLocation ) location = ...
Sets the high - level table metadata
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public void setEmptyMetadataStructureLevel ( int YNum , int cc , List < TextPiece > wordsOfAPage , DocInfo m_docInfo ) { String meta = "" ; meta = "<TableColumnHeading>\n" + "</TableColumnHeading>" + "\n" ; meta = meta + "<TableContent>\n" ; meta = meta + "</TableContent>" + "\n" ; meta = meta + "<TableRowHeading>" + "...
Sets an empty metadata file
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public static String replaceAllSpecialChracters ( String toBeReplaced ) { toBeReplaced = toBeReplaced . replaceAll ( "&" , "&amp;" ) ; toBeReplaced = toBeReplaced . replaceAll ( "<" , "&lt;" ) ; toBeReplaced = toBeReplaced . replaceAll ( ">" , "&gt;" ) ; toBeReplaced = toBeReplaced . replaceAll ( "\"" , "&quot;" ) ; to...
Replaces all special characters in a given string
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public void addPreviousPunctuation ( Parse punct ) { if ( this . prevPunctSet == null ) { this . prevPunctSet = new LinkedHashSet ( ) ; } prevPunctSet . add ( punct ) ; }
Designates that the specifed punctuation should is prior to this parse .
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public void addNextPunctuation ( Parse punct ) { if ( this . nextPunctSet == null ) { this . nextPunctSet = new LinkedHashSet ( ) ; } nextPunctSet . add ( punct ) ; }
Designates that the specifed punctuation follows this parse .
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public void insert ( final Parse constituent ) { Span ic = constituent . span ; if ( span . contains ( ic ) ) { int pi = 0 ; int pn = parts . size ( ) ; for ( ; pi < pn ; pi ++ ) { Parse subPart = ( Parse ) parts . get ( pi ) ; Span sp = subPart . span ; if ( sp . getStart ( ) >= ic . getEnd ( ) ) { break ; } else if (...
Inserts the specified constituent into this parse based on its text span . This method assumes that the specified constituent can be inserted into this parse .
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public double getTagSequenceProb ( ) { if ( parts . size ( ) == 1 && ( ( Parse ) parts . get ( 0 ) ) . type . equals ( ParserME . TOK_NODE ) ) { return ( Math . log ( prob ) ) ; } else if ( parts . size ( ) == 0 ) { System . err . println ( "Parse.getTagSequenceProb: Wrong base case!" ) ; return ( 0.0 ) ; } else { doub...
Returns the probability associed with the pos - tag sequence assigned to this parse .
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public void updateHeads ( HeadRules rules ) { if ( parts != null && parts . size ( ) != 0 ) { for ( int pi = 0 , pn = parts . size ( ) ; pi < pn ; pi ++ ) { Parse c = ( Parse ) parts . get ( pi ) ; c . updateHeads ( rules ) ; } this . head = rules . getHead ( ( Parse [ ] ) parts . toArray ( new Parse [ parts . size ( )...
Computes the head parses for this parse and its sub - parses and stores this information in the parse data structure .
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public boolean isPosTag ( ) { return ( parts . size ( ) == 1 && ( ( Parse ) parts . get ( 0 ) ) . getType ( ) . equals ( ParserME . TOK_NODE ) ) ; }
Indicates wether this parse node is a pos - tag .
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public Parse getCommonParent ( Parse node ) { if ( this == node ) { return parent ; } Set parents = new HashSet ( ) ; Parse cparent = this ; while ( cparent != null ) { parents . add ( cparent ) ; cparent = cparent . getParent ( ) ; } while ( node != null ) { if ( parents . contains ( node ) ) { return node ; } node = ...
Returns the deepest shared parent of this node and the specified node . If the nodes are identical then their parent is returned . If one node is the parent of the other then the parent node is returned .
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protected int countCorrectPairs ( MatchData data ) { Map counter = new HashMap ( ) ; for ( int i = 0 ; i < data . numSources ( ) ; i ++ ) { String src = data . getSource ( i ) ; for ( int j = 0 ; j < data . numInstances ( src ) ; j ++ ) { String id = data . getInstance ( src , j ) . getId ( ) ; if ( id != null ) { IdKe...
Compute number of correct pairs betwn src1 and src2 where src2 > src1
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protected void loadGrams ( DataInputStream input ) throws IOException { gramSet = new HashSet ( ) ; try { while ( true ) { int gramLength = input . readInt ( ) ; int [ ] words = new int [ gramLength ] ; for ( int wi = 0 ; wi < gramLength ; wi ++ ) { words [ wi ] = input . readInt ( ) ; } gramSet . add ( new NGram ( wor...
Loads the contents of the specified input stream into this dictionary .
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public boolean contains ( String [ ] words ) { if ( words . length == 1 ) { return wordMap . contains ( words [ 0 ] ) ; } else { NGram ngram = nGramFactory . createNGram ( words ) ; if ( ngram == null ) { return false ; } else { return gramSet . contains ( ngram ) ; } } }
Returns true if this dictionary contains the n - gram consisting of the specified words .
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public static void main ( String [ ] args ) throws IOException { if ( args . length == 0 ) { System . err . println ( "Usage: Dictionary dictionary_file" ) ; System . exit ( 0 ) ; } Dictionary dict = new Dictionary ( args [ 0 ] ) ; BufferedReader in = new BufferedReader ( new InputStreamReader ( System . in ) ) ; Strin...
Allows a dictionery to be queried for specific n - grams from the command - line from statndard in using space delimited n - grams on a single line .
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public Title getSectionHeading ( ) { if ( Section_Type . featOkTst && ( ( Section_Type ) jcasType ) . casFeat_sectionHeading == null ) jcasType . jcas . throwFeatMissing ( "sectionHeading" , "de.julielab.jules.types.Section" ) ; return ( Title ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ...
getter for sectionHeading - gets the title of the section
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public void setSectionHeading ( Title v ) { if ( Section_Type . featOkTst && ( ( Section_Type ) jcasType ) . casFeat_sectionHeading == null ) jcasType . jcas . throwFeatMissing ( "sectionHeading" , "de.julielab.jules.types.Section" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Section_Type ) jcasType ) . casFeatC...
setter for sectionHeading - sets the title of the section
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public String getSectionId ( ) { if ( Section_Type . featOkTst && ( ( Section_Type ) jcasType ) . casFeat_sectionId == null ) jcasType . jcas . throwFeatMissing ( "sectionId" , "de.julielab.jules.types.Section" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Section_Type ) jcasType ) . casFeatCode_section...
getter for sectionId - gets the id of the section for example as mentioned in the original file or level of the section
20,317
public void setSectionId ( String v ) { if ( Section_Type . featOkTst && ( ( Section_Type ) jcasType ) . casFeat_sectionId == null ) jcasType . jcas . throwFeatMissing ( "sectionId" , "de.julielab.jules.types.Section" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Section_Type ) jcasType ) . casFeatCode_section...
setter for sectionId - sets the id of the section for example as mentioned in the original file or level of the section
20,318
final public void train ( StringWrapperIterator i ) { Set seenTokens = new HashSet ( ) ; while ( i . hasNext ( ) ) { StringWrapper s = ( StringWrapper ) i . next ( ) ; BagOfTokens bag = asBagOfTokens ( i . nextStringWrapper ( ) ) ; for ( Iterator j = bag . tokenIterator ( ) ; j . hasNext ( ) ; ) { Token tokj = ( Token ...
Accumulate statistics on how often each token occurs .
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final public StringWrapper prepare ( String s ) { BagOfTokens bag = new BagOfTokens ( s , tokenizer . tokenize ( s ) ) ; double totalWeight = bag . getTotalWeight ( ) ; for ( Iterator i = bag . tokenIterator ( ) ; i . hasNext ( ) ; ) { Token tok = ( Token ) i . next ( ) ; double freq = bag . getWeight ( tok ) ; bag . s...
Preprocess a string by finding tokens and giving them weights W such that W is the smoothed probability of the token appearing in the document .
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protected double backgroundProb ( Token tok ) { Integer freqInteger = ( Integer ) backgroundFrequency . get ( tok ) ; double freq = freqInteger == null ? 0 : freqInteger . intValue ( ) ; return freq / totalTokens ; }
Probability of token in the background language model
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final public double score ( StringWrapper s , StringWrapper t ) { BagOfTokens sBag = ( BagOfTokens ) s ; BagOfTokens tBag = ( BagOfTokens ) t ; double sum = 0 ; for ( Iterator i = sBag . tokenIterator ( ) ; i . hasNext ( ) ; ) { Token tok = ( Token ) i . next ( ) ; if ( tBag . contains ( tok ) ) { double ps = sBag . ge...
Jensen - Shannon distance between distributions .
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public void prepare ( StringDistance [ ] innerDistances ) { if ( ! fieldsPrepared ) { for ( int i = 0 ; i < size ( ) ; i ++ ) { StringDistance d = innerDistances [ getDistanceLearnerIndex ( i ) ] ; set ( i , d . prepare ( get ( i ) . unwrap ( ) ) ) ; } } }
Prepare each field with the appropriate distance
20,323
public String getMod ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_mod == null ) jcasType . jcas . throwFeatMissing ( "mod" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_mod ) ; }
getter for mod - gets
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public void setMod ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_mod == null ) jcasType . jcas . throwFeatMissing ( "mod" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_mod , v ) ; }
setter for mod - sets
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public String getComment ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_comment == null ) jcasType . jcas . throwFeatMissing ( "comment" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_comment ) ; }
getter for comment - gets
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public void setComment ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_comment == null ) jcasType . jcas . throwFeatMissing ( "comment" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_comment , v )...
setter for comment - sets
20,327
public String getAnchor_val ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_anchor_val == null ) jcasType . jcas . throwFeatMissing ( "anchor_val" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_anch...
getter for anchor_val - gets
20,328
public void setAnchor_val ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_anchor_val == null ) jcasType . jcas . throwFeatMissing ( "anchor_val" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_anch...
setter for anchor_val - sets
20,329
public String getVal ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_val == null ) jcasType . jcas . throwFeatMissing ( "val" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_val ) ; }
getter for val - gets
20,330
public void setVal ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_val == null ) jcasType . jcas . throwFeatMissing ( "val" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_val , v ) ; }
setter for val - sets
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public String getSet ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_set == null ) jcasType . jcas . throwFeatMissing ( "set" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_set ) ; }
getter for set - gets
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public void setSet ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_set == null ) jcasType . jcas . throwFeatMissing ( "set" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_set , v ) ; }
setter for set - sets
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public String getNon_specific ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_non_specific == null ) jcasType . jcas . throwFeatMissing ( "non_specific" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCod...
getter for non_specific - gets
20,334
public void setNon_specific ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_non_specific == null ) jcasType . jcas . throwFeatMissing ( "non_specific" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCod...
setter for non_specific - sets
20,335
public String getAnchor_dir ( ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_anchor_dir == null ) jcasType . jcas . throwFeatMissing ( "anchor_dir" , "de.julielab.jules.types.ace.Timex2" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_anch...
getter for anchor_dir - gets
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public void setAnchor_dir ( String v ) { if ( Timex2_Type . featOkTst && ( ( Timex2_Type ) jcasType ) . casFeat_anchor_dir == null ) jcasType . jcas . throwFeatMissing ( "anchor_dir" , "de.julielab.jules.types.ace.Timex2" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Timex2_Type ) jcasType ) . casFeatCode_anch...
setter for anchor_dir - sets
20,337
public String getEvent_type ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_event_type == null ) jcasType . jcas . throwFeatMissing ( "event_type" , "ch.epfl.bbp.uima.genia.Event" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_event_type ) ...
getter for event_type - gets
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public void setEvent_type ( String v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_event_type == null ) jcasType . jcas . throwFeatMissing ( "event_type" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_event_type , ...
setter for event_type - sets
20,339
public FSArray getThemes_protein ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_protein == null ) jcasType . jcas . throwFeatMissing ( "themes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ( a...
getter for themes_protein - gets
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public void setThemes_protein ( FSArray v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_protein == null ) jcasType . jcas . throwFeatMissing ( "themes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_the...
setter for themes_protein - sets
20,341
public Protein getThemes_protein ( int i ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_protein == null ) jcasType . jcas . throwFeatMissing ( "themes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Event...
indexed getter for themes_protein - gets an indexed value -
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public void setThemes_protein ( int i , Protein v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_protein == null ) jcasType . jcas . throwFeatMissing ( "themes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ...
indexed setter for themes_protein - sets an indexed value -
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public FSArray getCauses_protein ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_protein == null ) jcasType . jcas . throwFeatMissing ( "causes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ( a...
getter for causes_protein - gets
20,344
public void setCauses_protein ( FSArray v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_protein == null ) jcasType . jcas . throwFeatMissing ( "causes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_cau...
setter for causes_protein - sets
20,345
public Protein getCauses_protein ( int i ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_protein == null ) jcasType . jcas . throwFeatMissing ( "causes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Event...
indexed getter for causes_protein - gets an indexed value -
20,346
public void setCauses_protein ( int i , Protein v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_protein == null ) jcasType . jcas . throwFeatMissing ( "causes_protein" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ...
indexed setter for causes_protein - sets an indexed value -
20,347
public String getSite ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_site == null ) jcasType . jcas . throwFeatMissing ( "site" , "ch.epfl.bbp.uima.genia.Event" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_site ) ; }
getter for site - gets
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public void setSite ( String v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_site == null ) jcasType . jcas . throwFeatMissing ( "site" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_site , v ) ; }
setter for site - sets
20,349
public FSArray getThemes_event ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_event == null ) jcasType . jcas . throwFeatMissing ( "themes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ( addr , ...
getter for themes_event - gets
20,350
public void setThemes_event ( FSArray v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_event == null ) jcasType . jcas . throwFeatMissing ( "themes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_themes_ev...
setter for themes_event - sets
20,351
public Event getThemes_event ( int i ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_event == null ) jcasType . jcas . throwFeatMissing ( "themes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Event_Type ) ...
indexed getter for themes_event - gets an indexed value -
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public void setThemes_event ( int i , Event v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_themes_event == null ) jcasType . jcas . throwFeatMissing ( "themes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Even...
indexed setter for themes_event - sets an indexed value -
20,353
public FSArray getCauses_event ( ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_event == null ) jcasType . jcas . throwFeatMissing ( "causes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ( addr , ...
getter for causes_event - gets
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public void setCauses_event ( FSArray v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_event == null ) jcasType . jcas . throwFeatMissing ( "causes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Event_Type ) jcasType ) . casFeatCode_causes_ev...
setter for causes_event - sets
20,355
public Event getCauses_event ( int i ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_event == null ) jcasType . jcas . throwFeatMissing ( "causes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Event_Type ) ...
indexed getter for causes_event - gets an indexed value -
20,356
public void setCauses_event ( int i , Event v ) { if ( Event_Type . featOkTst && ( ( Event_Type ) jcasType ) . casFeat_causes_event == null ) jcasType . jcas . throwFeatMissing ( "causes_event" , "ch.epfl.bbp.uima.genia.Event" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Even...
indexed setter for causes_event - sets an indexed value -
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private String punct ( Parse punct , int i ) { StringBuffer feat = new StringBuffer ( 5 ) ; feat . append ( i ) . append ( "=" ) ; feat . append ( punct . getType ( ) ) ; return ( feat . toString ( ) ) ; }
Creates punctuation feature for the specified punctuation at the specfied index .
20,358
public String getGender ( ) { if ( NounFeats_Type . featOkTst && ( ( NounFeats_Type ) jcasType ) . casFeat_gender == null ) jcasType . jcas . throwFeatMissing ( "gender" , "de.julielab.jules.types.NounFeats" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( NounFeats_Type ) jcasType ) . casFeatCode_gender )...
getter for gender - gets Gender C
20,359
public String getLdcatr ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_ldcatr == null ) jcasType . jcas . throwFeatMissing ( "ldcatr" , "de.julielab.jules.types.ace.EntityMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( EntityMention_Type ) jcasType ) . ...
getter for ldcatr - gets
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public void setLdcatr ( String v ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_ldcatr == null ) jcasType . jcas . throwFeatMissing ( "ldcatr" , "de.julielab.jules.types.ace.EntityMention" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( EntityMention_Type ) jcasType ) . ...
setter for ldcatr - sets
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public String getRole ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_role == null ) jcasType . jcas . throwFeatMissing ( "role" , "de.julielab.jules.types.ace.EntityMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( EntityMention_Type ) jcasType ) . casFea...
getter for role - gets
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public String getMetonymy_mention ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_metonymy_mention == null ) jcasType . jcas . throwFeatMissing ( "metonymy_mention" , "de.julielab.jules.types.ace.EntityMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( Enti...
getter for metonymy_mention - gets
20,363
public void setMetonymy_mention ( String v ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_metonymy_mention == null ) jcasType . jcas . throwFeatMissing ( "metonymy_mention" , "de.julielab.jules.types.ace.EntityMention" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( Enti...
setter for metonymy_mention - sets
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public String getMention_type ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_mention_type == null ) jcasType . jcas . throwFeatMissing ( "mention_type" , "de.julielab.jules.types.ace.EntityMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( EntityMention_Ty...
getter for mention_type - gets
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public void setMention_type ( String v ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_mention_type == null ) jcasType . jcas . throwFeatMissing ( "mention_type" , "de.julielab.jules.types.ace.EntityMention" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( EntityMention_Ty...
setter for mention_type - sets
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public String getMention_ldctype ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_mention_ldctype == null ) jcasType . jcas . throwFeatMissing ( "mention_ldctype" , "de.julielab.jules.types.ace.EntityMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( EntityM...
getter for mention_ldctype - gets
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public void setMention_ldctype ( String v ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_mention_ldctype == null ) jcasType . jcas . throwFeatMissing ( "mention_ldctype" , "de.julielab.jules.types.ace.EntityMention" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( EntityM...
setter for mention_ldctype - sets
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public Entity getEntity_ref ( ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_entity_ref == null ) jcasType . jcas . throwFeatMissing ( "entity_ref" , "de.julielab.jules.types.ace.EntityMention" ) ; return ( Entity ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_...
getter for entity_ref - gets
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public void setEntity_ref ( Entity v ) { if ( EntityMention_Type . featOkTst && ( ( EntityMention_Type ) jcasType ) . casFeat_entity_ref == null ) jcasType . jcas . throwFeatMissing ( "entity_ref" , "de.julielab.jules.types.ace.EntityMention" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( EntityMention_Type ) jcas...
setter for entity_ref - sets
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public String getSpecificType ( ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_specificType == null ) jcasType . jcas . throwFeatMissing ( "specificType" , "de.julielab.jules.types.ConceptMention" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( ConceptMention_Ty...
getter for specificType - gets
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public void setSpecificType ( String v ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_specificType == null ) jcasType . jcas . throwFeatMissing ( "specificType" , "de.julielab.jules.types.ConceptMention" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( ConceptMention_Ty...
setter for specificType - sets
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public TOP getRef ( ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_ref == null ) jcasType . jcas . throwFeatMissing ( "ref" , "de.julielab.jules.types.ConceptMention" ) ; return ( TOP ) ( jcasType . ll_cas . ll_getFSForRef ( jcasType . ll_cas . ll_getRefValue ( addr , ( ( Con...
getter for ref - gets The reference to the Concept we use here the super type TOP in order to avoid the recursive dependencies between type systems
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public void setRef ( TOP v ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_ref == null ) jcasType . jcas . throwFeatMissing ( "ref" , "de.julielab.jules.types.ConceptMention" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( ConceptMention_Type ) jcasType ) . casFeatCode_ref...
setter for ref - sets The reference to the Concept we use here the super type TOP in order to avoid the recursive dependencies between type systems
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public FSArray getResourceEntryList ( ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_resourceEntryList == null ) jcasType . jcas . throwFeatMissing ( "resourceEntryList" , "de.julielab.jules.types.ConceptMention" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( j...
getter for resourceEntryList - gets
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public void setResourceEntryList ( FSArray v ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_resourceEntryList == null ) jcasType . jcas . throwFeatMissing ( "resourceEntryList" , "de.julielab.jules.types.ConceptMention" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( Conc...
setter for resourceEntryList - sets
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public ResourceEntry getResourceEntryList ( int i ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_resourceEntryList == null ) jcasType . jcas . throwFeatMissing ( "resourceEntryList" , "de.julielab.jules.types.ConceptMention" ) ; jcasType . jcas . checkArrayBounds ( jcasType ....
indexed getter for resourceEntryList - gets an indexed value -
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public void setResourceEntryList ( int i , ResourceEntry v ) { if ( ConceptMention_Type . featOkTst && ( ( ConceptMention_Type ) jcasType ) . casFeat_resourceEntryList == null ) jcasType . jcas . throwFeatMissing ( "resourceEntryList" , "de.julielab.jules.types.ConceptMention" ) ; jcasType . jcas . checkArrayBounds ( j...
indexed setter for resourceEntryList - sets an indexed value -
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@ SuppressWarnings ( "unchecked" ) public ArrayList < ArrayList < TextPiece > > getTextPiecesByPage ( File pdfFile ) { assert ( pdfFile . exists ( ) ) : "pdfFile does not exist" ; m_wordsByPage = new ArrayList < ArrayList < TextPiece > > ( ) ; PDDocument document = null ; try { document = PDDocument . load ( pdfFile ) ...
Get text pieces from a PDF document
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public String stem ( String token ) { if ( token != null && token . length ( ) > 3 && token . endsWith ( "s" ) ) { return token . substring ( 0 , token . length ( ) - 1 ) ; } return token ; }
Removes ending s of words longer than 3 chars
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private static File materializeDescriptor ( ResourceSpecifier resource ) throws IOException , SAXException { File tempDesc = File . createTempFile ( "desc" , ".xml" ) ; BufferedWriter out = new BufferedWriter ( new OutputStreamWriter ( new FileOutputStream ( tempDesc ) , "UTF-8" ) ) ; resource . toXML ( out ) ; out . c...
Writes a temporary file containing a xml descriptor of the given resource . Returns the file .
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public String getCat ( ) { if ( CoordinationElement_Type . featOkTst && ( ( CoordinationElement_Type ) jcasType ) . casFeat_cat == null ) jcasType . jcas . throwFeatMissing ( "cat" , "de.julielab.jules.types.CoordinationElement" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( CoordinationElement_Type ) jc...
getter for cat - gets
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public void setCat ( String v ) { if ( CoordinationElement_Type . featOkTst && ( ( CoordinationElement_Type ) jcasType ) . casFeat_cat == null ) jcasType . jcas . throwFeatMissing ( "cat" , "de.julielab.jules.types.CoordinationElement" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( CoordinationElement_Type ) jc...
setter for cat - sets
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public Set < String > getSynonyms ( final String canonical ) { Set < String > syn = Sets . newHashSet ( ) ; for ( Map < String , Concept > lexica : lexicon ) { for ( String lexCanonical : lexica . keySet ( ) ) { Set < String > variants = lexica . get ( lexCanonical ) . getVariants ( ) ; for ( String variant : variants ...
given a canonical form ( found with a lex - NER return all variants if any
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public int codePointConversion ( String fontName , int codePoint ) { NonStandardFontFamily nonStandardFontFamily = get ( fontName ) ; if ( nonStandardFontFamily == null ) return codePoint ; CodePointSet codePointSet = nonStandardFontFamily . getCodePointSet ( ) ; if ( codePointSet == null ) return codePoint ; CodePoint...
Takes in argument a codepoint . If for the given police the codepoint doesn t correspond to what the font actually displays the conversion is made . Otherwise the old codepoint is return .
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public String getPerson ( ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_person == null ) jcasType . jcas . throwFeatMissing ( "person" , "de.julielab.jules.types.VerbFeats" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_person )...
getter for person - gets Person
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public void setPerson ( String v ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_person == null ) jcasType . jcas . throwFeatMissing ( "person" , "de.julielab.jules.types.VerbFeats" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_person ,...
setter for person - sets Person
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public String getVoice ( ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_voice == null ) jcasType . jcas . throwFeatMissing ( "voice" , "de.julielab.jules.types.VerbFeats" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_voice ) ; }
getter for voice - gets Voice
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public void setVoice ( String v ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_voice == null ) jcasType . jcas . throwFeatMissing ( "voice" , "de.julielab.jules.types.VerbFeats" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_voice , v )...
setter for voice - sets Voice
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public String getAspect ( ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_aspect == null ) jcasType . jcas . throwFeatMissing ( "aspect" , "de.julielab.jules.types.VerbFeats" ) ; return jcasType . ll_cas . ll_getStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_aspect )...
getter for aspect - gets Aspect
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public void setAspect ( String v ) { if ( VerbFeats_Type . featOkTst && ( ( VerbFeats_Type ) jcasType ) . casFeat_aspect == null ) jcasType . jcas . throwFeatMissing ( "aspect" , "de.julielab.jules.types.VerbFeats" ) ; jcasType . ll_cas . ll_setStringValue ( addr , ( ( VerbFeats_Type ) jcasType ) . casFeatCode_aspect ,...
setter for aspect - sets Aspect
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public FSArray getFullTextLinks ( ) { if ( FullTextLinkList_Type . featOkTst && ( ( FullTextLinkList_Type ) jcasType ) . casFeat_fullTextLinks == null ) jcasType . jcas . throwFeatMissing ( "fullTextLinks" , "de.julielab.jules.types.FullTextLinkList" ) ; return ( FSArray ) ( jcasType . ll_cas . ll_getFSForRef ( jcasTyp...
getter for fullTextLinks - gets
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public void setFullTextLinks ( FSArray v ) { if ( FullTextLinkList_Type . featOkTst && ( ( FullTextLinkList_Type ) jcasType ) . casFeat_fullTextLinks == null ) jcasType . jcas . throwFeatMissing ( "fullTextLinks" , "de.julielab.jules.types.FullTextLinkList" ) ; jcasType . ll_cas . ll_setRefValue ( addr , ( ( FullTextLi...
setter for fullTextLinks - sets
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public FullTextLink getFullTextLinks ( int i ) { if ( FullTextLinkList_Type . featOkTst && ( ( FullTextLinkList_Type ) jcasType ) . casFeat_fullTextLinks == null ) jcasType . jcas . throwFeatMissing ( "fullTextLinks" , "de.julielab.jules.types.FullTextLinkList" ) ; jcasType . jcas . checkArrayBounds ( jcasType . ll_cas...
indexed getter for fullTextLinks - gets an indexed value -
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public void setFullTextLinks ( int i , FullTextLink v ) { if ( FullTextLinkList_Type . featOkTst && ( ( FullTextLinkList_Type ) jcasType ) . casFeat_fullTextLinks == null ) jcasType . jcas . throwFeatMissing ( "fullTextLinks" , "de.julielab.jules.types.FullTextLinkList" ) ; jcasType . jcas . checkArrayBounds ( jcasType...
indexed setter for fullTextLinks - sets an indexed value -
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public void read ( File f ) throws IOException { FileInputStream fis = new FileInputStream ( f ) ; try { read ( new BufferedReader ( new InputStreamReader ( fis , "UTF-8" ) ) ) ; } finally { IOUtils . closeQuietly ( fis ) ; } }
Read a . obo file
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public void addTerm ( OntologyTerm term ) { terms . put ( term . getId ( ) , term ) ; indexTerm ( term ) ; isTypeOfIsBuilt = false ; }
Add a single OntologyTerm to the ontology .
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public void addOntology ( OBOOntology ont ) { for ( String id : ont . terms . keySet ( ) ) { addTerm ( ont . terms . get ( id ) ) ; } }
Merge a whole ontology into the current one .
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public void writeOntTxt ( PrintWriter pw ) { for ( String id : terms . keySet ( ) ) { OntologyTerm term = terms . get ( id ) ; Set < String > synSet = new HashSet < String > ( ) ; synSet . add ( term . getName ( ) ) ; for ( Synonym s : term . getSynonyms ( ) ) { String st = s . getType ( ) ; if ( id . startsWith ( "PTC...
Writes a file suitable for use as onotology . txt .
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public Set < String > getIdsForIdsWithAncestors ( Collection < String > termIds ) { Stack < String > idsToConsider = new Stack < String > ( ) ; idsToConsider . addAll ( termIds ) ; Set < String > resultIds = new HashSet < String > ( ) ; while ( ! idsToConsider . isEmpty ( ) ) { String id = idsToConsider . pop ( ) ; if ...
Given a set of IDs return a set that contains all of the IDs the parents of those IDs the grandparents etc .