SYMBOL INDEX (966 symbols across 73 files)

FILE: clients/phplib/Conjecture/BinaryClassifier.php
  class Conjecture_BinaryClassifier (line 3) | class Conjecture_BinaryClassifier {
    method __construct (line 6) | function __construct($param_vec) {
    method dot (line 10) | public function dot($instance_vec) {
    method predict (line 14) | public function predict($instance_vec) {
    method getParams (line 20) | public function getParams() {
    method explain (line 24) | public function explain($instance_vec, $n = 10) {

FILE: clients/phplib/Conjecture/Config.php
  type Conjecture_Config (line 3) | interface Conjecture_Config {
    method useDummyConjectureModel (line 5) | public function useDummyConjectureModel();
    method getConjectureModelPath (line 6) | public function getConjectureModelPath();
    method getMaxFileSize (line 7) | public function getMaxFileSize();

FILE: clients/phplib/Conjecture/ConjectureException.php
  class Conjecture_ConjectureException (line 3) | class Conjecture_ConjectureException extends Exception{}

FILE: clients/phplib/Conjecture/Finder.php
  class Conjecture_Finder (line 3) | class Conjecture_Finder {
    method __construct (line 7) | public function __construct(Conjecture_Config $config) {
    method getLocalModel (line 15) | public function getLocalModel($local_file_path) {
    method parseFile (line 25) | private function parseFile($fp) {
    method getLatestModelJsonForProblem (line 40) | private function getLatestModelJsonForProblem($file_name) {
    method getLatestModelForProblem (line 49) | public function getLatestModelForProblem($file_name) {
    method getLatestBinaryClassificationVectorForProblem (line 54) | public function getLatestBinaryClassificationVectorForProblem($file_na...
    method getLatestBinaryClassifierForProblem (line 59) | public function getLatestBinaryClassifierForProblem($file_name) {
    method getOneVsAllClassifier (line 63) | public function getOneVsAllClassifier($file_name) {
    method getMulticlassClassifier (line 74) | public function getMulticlassClassifier($file_name) {
    method build (line 92) | static function build(Conjecture_Config $config) {
    method getDummyModel (line 101) | private static function getDummyModel() {

FILE: clients/phplib/Conjecture/Instance.php
  class Conjecture_Instance (line 9) | class Conjecture_Instance extends Conjecture_Vector{
    method __construct (line 17) | public function __construct(array $vector = array()) {
    method getId (line 21) | public function getId() {
    method setId (line 25) | public function setId($id) {
    method put (line 30) | public function put($key, $value = 1.0) {
    method update (line 34) | public function update($key, $value = 1.0) {
    method putAll (line 45) | public function putAll(array $vector) {
    method containsKey (line 51) | public function containsKey($key) {
    method containsValue (line 55) | public function containsValue($key) {
    method keySet (line 60) | public function keySet() {
    method values (line 64) | public function values() {
    method size (line 68) | public function size() {
    method isEmpty (line 72) | public function isEmpty() {
    method remove (line 76) | public function remove($key) {
    method toString (line 80) | public function toString() {
    method addTerm (line 84) | public function addTerm($term, $featureWeight = 1.0, $namespace = "") {
    method addTerms (line 90) | public function addTerms(array $terms, $featureWeight = 1.0, $namespac...
    method addNumericArray (line 97) | public function addNumericArray(array $numberValues, $namespace = "") {

FILE: clients/phplib/Conjecture/MulticlassClassifier.php
  class Conjecture_MulticlassClassifier (line 4) | class Conjecture_MulticlassClassifier {
    method __construct (line 11) | function __construct($param) {
    method predict (line 15) | public function predict($instance_vec) {
    method getParams (line 30) | public function getParams() {
    method explain (line 34) | public function explain($instance_vec, $n = 10) {
    method categoryExplain (line 45) | private function categoryExplain($instance_vec, $category_model, $n = ...

FILE: clients/phplib/Conjecture/MulticlassLogisticRegressionClassifier.php
  class Conjecture_MulticlassLogisticRegressionClassifier (line 4) | class Conjecture_MulticlassLogisticRegressionClassifier extends Conjectu...
    method predict (line 8) | public function predict($instance_vec) {

FILE: clients/phplib/Conjecture/MulticlassOneVsAllClassifier.php
  class Conjecture_MulticlassOneVsAllClassifier (line 4) | class Conjecture_MulticlassOneVsAllClassifier {
    method __construct (line 12) | function __construct($param) {
    method predict (line 16) | public function predict($instance_vec) {
    method getParams (line 31) | public function getParams() {
    method explain (line 41) | public function explain($instance_vec, $n = 10) {

FILE: clients/phplib/Conjecture/Text.php
  class Conjecture_Text (line 4) | class Conjecture_Text {
    method build (line 8) | static function build($text) {
    method __construct (line 12) | function __construct($text) {
    method toString (line 16) | function toString() {
    method replaceNumbers (line 20) | function replaceNumbers($replacement = "_num_") {
    method replaceHTMLEscapes (line 25) | function replaceHTMLEscapes($replacement = " ") {
    method removeHTMLTags (line 29) | function removeHTMLTags() {
    method replaceHTMLTags (line 33) | function replaceHTMLTags($replacement = " ") {
    method replaceNonAlphaNumeric (line 37) | function replaceNonAlphaNumeric($replacement = " ") {
    method replaceNonAlphaNumericUnderscore (line 41) | function replaceNonAlphaNumericUnderscore($replacement = " ") {
    method replaceNonAlpha (line 45) | function replaceNonAlpha($replacement = " ") {
    method collapseHyphens (line 49) | function collapseHyphens() {
    method collapseUnderscores (line 53) | function collapseUnderscores() {
    method collapsePeriods (line 57) | function collapsePeriods() {
    method stripPunctuation (line 61) | function stripPunctuation() {
    method collapse (line 67) | function collapse() {
    method rstrip (line 72) | function rstrip() {
    method lstrip (line 77) | function lstrip() {
    method strip (line 82) | function strip() {
    method wsclean (line 87) | function wsclean() {
    method removeUnprintables (line 92) | function removeUnprintables() {
    method collapseWhitespaceAndPunc (line 96) | function collapseWhitespaceAndPunc() {
    method toLowerCase (line 101) | function toLowerCase() {
    method standardTextFilter (line 105) | function standardTextFilter() {
    method toArrayFromShingles (line 115) | function toArrayFromShingles($n) {
    method toSequenceFromShingles (line 127) | function toSequenceFromShingles($n) {

FILE: clients/phplib/Conjecture/TextSequence.php
  class Conjecture_TextSequence (line 4) | class Conjecture_TextSequence {
    method __construct (line 8) | function __construct(array $tokens) {
    method concat (line 15) | function concat($other) {
    method mkString (line 19) | function mkString($glue = " ") {
    method toString (line 23) | function toString() {
    method getTokens (line 27) | function getTokens() {
    method filterBlank (line 31) | function filterBlank() {
    method filterStopwords (line 40) | function filterStopwords() {
    method stopwords (line 49) | function stopwords() {
    method filterBadwords (line 59) | function filterBadwords() {
    method badwords (line 68) | function badwords() {
    method filterAllCaps (line 77) | function filterAllCaps() {
    method AllCaps (line 86) | function AllCaps() {
    method filterCapitalized (line 95) | function filterCapitalized() {
    method capitalized (line 104) | function capitalized() {
    method filterLowercase (line 113) | function filterLowercase() {
    method allLowercase (line 122) | function allLowercase() {
    method filterURLs (line 131) | function filterURLs() {
    method allURLs (line 140) | function allURLs() {
    method filterListings (line 149) | function filterListings() {
    method allListings (line 158) | function allListings() {
    method size (line 167) | function size() {
    method stopWordCount (line 171) | function stopWordCount() {
    method stopWordFraq (line 175) | function stopWordFraq($bins = 10.0) {
    method badWordCount (line 179) | function badWordCount() {
    method badWordFraq (line 183) | function badWordFraq($bins = 10.0) {
    method capsCount (line 187) | function capsCount() {
    method capFraq (line 191) | function capFraq($bins = 10.0) {
    method urlCount (line 195) | function urlCount() {
    method urlFraq (line 199) | function urlFraq($bins = 10.0) {
    method listingsCount (line 203) | function listingsCount() {
    method listingsFraq (line 207) | function listingsFraq($bins = 10.0) {
    method sizeBin (line 211) | function sizeBin() {
    method replaceNumbers (line 217) | function replaceNumbers($replacement = "_num_") {
    method replaceHTMLEscapes (line 226) | function replaceHTMLEscapes($replacement = " ") {
    method removeHTMLTags (line 233) | function removeHTMLTags() {
    method replaceHTMLTags (line 237) | function replaceHTMLTags($replacement = " ") {
    method replaceNonAlphaNumeric (line 244) | function replaceNonAlphaNumeric($replacement = " ") {
    method replaceNonAlphaNumericUnderscore (line 251) | function replaceNonAlphaNumericUnderscore($replacement = " ") {
    method replaceNonAlpha (line 258) | function replaceNonAlpha($replacement = " ") {
    method collapseHyphens (line 265) | function collapseHyphens() {
    method collapseUnderscores (line 272) | function collapseUnderscores() {
    method collapsePeriods (line 279) | function collapsePeriods() {
    method stripPunctuation (line 286) | function stripPunctuation() {
    method collapse (line 295) | function collapse() {
    method rstrip (line 302) | function rstrip() {
    method lstrip (line 309) | function lstrip() {
    method strip (line 317) | function strip() {
    method wsclean (line 322) | function wsclean() {
    method removeUnprintables (line 327) | function removeUnprintables() {
    method collapseWhitespaceAndPunc (line 335) | function collapseWhitespaceAndPunc() {
    method prependNameSpace (line 344) | function prependNameSpace($namespace) {
    method toList (line 351) | function toList() {
    method shingles (line 355) | function shingles($n, $whitespace = "_") {
    method ngrams (line 367) | function ngrams($n, $glue = " ") {
    method unigramsAndBigrams (line 376) | function unigramsAndBigrams($glue = " ") {
    method toInstance (line 380) | function toInstance() {

FILE: clients/phplib/Conjecture/Vector.php
  class Conjecture_Vector (line 3) | class Conjecture_Vector {
    method __construct (line 7) | function __construct($array = array()) {
    method dot (line 11) | public function dot($rhs) {
    method getParams (line 22) | public function getParams() {
    method getParam (line 26) | public function getParam($k) {

FILE: src/main/java/com/etsy/conjecture/GenericPair.java
  class GenericPair (line 6) | public class GenericPair<F, S> implements java.io.Serializable {
    method GenericPair (line 21) | public GenericPair(F first, S second) {
    method getFirst (line 31) | public F getFirst() {
    method setFirst (line 41) | public void setFirst(F first) {
    method getSecond (line 50) | public S getSecond() {
    method setSecond (line 60) | public void setSecond(S second) {
    method toString (line 64) | @Override
    method equals (line 69) | @SuppressWarnings("unchecked")
    method hashCode (line 77) | public int hashCode() {

FILE: src/main/java/com/etsy/conjecture/PrimitivePair.java
  class PrimitivePair (line 8) | public class PrimitivePair implements java.io.Serializable {
    method PrimitivePair (line 21) | public PrimitivePair(double first, double second) {
    method getFirst (line 31) | public double getFirst() {
    method setFirst (line 41) | public void setFirst(double fisrt) {
    method getSecond (line 50) | public double getSecond() {
    method setSecond (line 60) | public void setSecond(double second) {
    method toString (line 64) | @Override
    method equals (line 69) | @Override
    method hashCode (line 77) | @Override

FILE: src/main/java/com/etsy/conjecture/Utilities.java
  class Utilities (line 22) | public class Utilities {
    method Utilities (line 29) | private Utilities() {
    method cleanLine (line 32) | public static String cleanLine(String line) {
    method cleanLineRobust (line 45) | public static String cleanLineRobust(String input, String separator,
    method checkNotBlank (line 68) | public static String checkNotBlank(String s) {
    method checkNotBlank (line 75) | public static List<String> checkNotBlank(List<String> S) {
    method checkNotBlank (line 81) | public static String[] checkNotBlank(String[] S) {
    method stringInnerProduct (line 87) | public static double stringInnerProduct(Map<String, Double> coefficients,
    method sigmoid (line 96) | public static double sigmoid(double operand) {
    method dsigmoid (line 103) | public static double dsigmoid(double operand) {
    method sortTerms (line 113) | public static String sortTerms(String input) {
    method sortTerms (line 117) | public static String sortTerms(String input, String delim) {
    method cleanText (line 123) | public final static String cleanText(String tmp, int maxlen) {
    method grams (line 137) | public final static List<String> grams(String input, int[] gramSizes,
    method floatingPointEquals (line 163) | public static final boolean floatingPointEquals(double a, double b) {
    method doubleHash (line 167) | public static int doubleHash(double d) {
    method logistic (line 172) | public static double logistic(double x) {
    class ValueComparator (line 176) | static class ValueComparator<K, V extends Comparable<? super V>> imple...
      method ValueComparator (line 180) | public ValueComparator(boolean reverse) {
      method compare (line 184) | public int compare(Map.Entry<K, V> a, Map.Entry<K, V> b) {
    method orderKeysByValue (line 190) | public static <K, V extends Comparable<? super V>> ArrayList<K> orderK...
    method orderKeysByValue (line 195) | public static <K, V extends Comparable<? super V>> ArrayList<K> orderK...
    method topKeysByValue (line 207) | public static <K, V extends Comparable<? super V>> List<K> topKeysByVa...

FILE: src/main/java/com/etsy/conjecture/data/AbstractInstance.java
  class AbstractInstance (line 7) | public abstract class AbstractInstance<T extends AbstractInstance<T>> {
    method AbstractInstance (line 16) | public AbstractInstance() {
    method AbstractInstance (line 20) | public AbstractInstance(double weight) {
    method AbstractInstance (line 24) | public AbstractInstance(StringKeyedVector skv) {
    method AbstractInstance (line 28) | public AbstractInstance(StringKeyedVector skv, double weight) {
    method AbstractInstance (line 33) | public AbstractInstance(Map<String, Double> map) {
    method AbstractInstance (line 37) | public AbstractInstance(Map<String, Double> map, double weight) {
    method setWeight (line 42) | @SuppressWarnings("unchecked")
    method getWeight (line 48) | public double getWeight() {
    method getId (line 52) | public String getId() {
    method getVector (line 56) | public StringKeyedVector getVector() {
    method setSupportingData (line 60) | public void setSupportingData(String s) {
    method getSupportingData (line 64) | public String getSupportingData() {
    method setCoordinate (line 68) | @SuppressWarnings("unchecked")
    method addToCoordinate (line 74) | @SuppressWarnings("unchecked")
    method setId (line 80) | @SuppressWarnings("unchecked")
    method addTerm (line 92) | @SuppressWarnings("unchecked")
    method addTerm (line 105) | @SuppressWarnings("unchecked")
    method addTermWithNamespace (line 119) | @SuppressWarnings("unchecked")
    method addTermWithNamespace (line 133) | @SuppressWarnings("unchecked")
    method addTerms (line 148) | @SuppressWarnings("unchecked")
    method addTerms (line 163) | @SuppressWarnings("unchecked")
    method addTermsWithNamespace (line 177) | @SuppressWarnings("unchecked")
    method addTermsWithNamespace (line 194) | @SuppressWarnings("unchecked")
    method addTerms (line 208) | @SuppressWarnings("unchecked")
    method addTerms (line 223) | @SuppressWarnings("unchecked")
    method addTermsWithNamespace (line 237) | @SuppressWarnings("unchecked")
    method addTermsWithNamespace (line 254) | @SuppressWarnings("unchecked")
    method addTermsWithWeights (line 268) | @SuppressWarnings("unchecked")
    method addTermsWithWeightsWithNamespace (line 284) | @SuppressWarnings("unchecked")
    method addNumericArrayWithNamespace (line 301) | @SuppressWarnings("unchecked")
    method addNumericArray (line 315) | @SuppressWarnings("unchecked")
    method addNumericArrayWithNamespace (line 331) | @SuppressWarnings("unchecked")
    method addNumericArray (line 347) | @SuppressWarnings("unchecked")
    method addNumericArrayWithNamespace (line 363) | @SuppressWarnings("unchecked")
    method addNumericArray (line 379) | @SuppressWarnings("unchecked")
    method setNumericArrayWithNamespace (line 395) | @SuppressWarnings("unchecked")
    method setNumericArray (line 409) | @SuppressWarnings("unchecked")
    method setNumericArrayWithNamespace (line 425) | @SuppressWarnings("unchecked")
    method setNumericArray (line 441) | @SuppressWarnings("unchecked")
    method setNumericArrayWithNamespace (line 457) | @SuppressWarnings("unchecked")
    method setNumericArray (line 473) | @SuppressWarnings("unchecked")
    method addIdField (line 487) | @SuppressWarnings("unchecked")
    method addIdField (line 499) | @SuppressWarnings("unchecked")
    method addIdFieldWithNamespace (line 513) | @SuppressWarnings("unchecked")
    method addIdFieldWithNamespace (line 528) | @SuppressWarnings("unchecked")
    method addIdField (line 540) | @SuppressWarnings("unchecked")
    method addIdField (line 552) | @SuppressWarnings("unchecked")
    method addIdFieldWithNamespace (line 566) | @SuppressWarnings("unchecked")
    method addIdFieldWithNamespace (line 581) | @SuppressWarnings("unchecked")
    method addIds (line 593) | @SuppressWarnings("unchecked")
    method addIds (line 607) | @SuppressWarnings("unchecked")
    method addIds (line 619) | @SuppressWarnings("unchecked")
    method addIds (line 633) | @SuppressWarnings("unchecked")
    method addIds (line 647) | @SuppressWarnings("unchecked")
    method addIds (line 662) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 676) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 693) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 707) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 724) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 738) | @SuppressWarnings("unchecked")
    method addIdsWithNamespace (line 755) | @SuppressWarnings("unchecked")
    method setIdField (line 767) | @SuppressWarnings("unchecked")
    method setIdField (line 779) | @SuppressWarnings("unchecked")
    method setIdFieldWithNamespace (line 793) | @SuppressWarnings("unchecked")
    method setIdFieldWithNamespace (line 808) | @SuppressWarnings("unchecked")
    method setIdField (line 820) | @SuppressWarnings("unchecked")
    method setIdField (line 832) | @SuppressWarnings("unchecked")
    method setIdFieldWithNamespace (line 846) | @SuppressWarnings("unchecked")
    method setIdFieldWithNamespace (line 861) | @SuppressWarnings("unchecked")
    method setIds (line 873) | @SuppressWarnings("unchecked")
    method setIds (line 887) | @SuppressWarnings("unchecked")
    method setIds (line 899) | @SuppressWarnings("unchecked")
    method setIds (line 913) | @SuppressWarnings("unchecked")
    method setIds (line 927) | @SuppressWarnings("unchecked")
    method setIds (line 942) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 956) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 973) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 987) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 1004) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 1018) | @SuppressWarnings("unchecked")
    method setIdsWithNamespace (line 1035) | @SuppressWarnings("unchecked")

FILE: src/main/java/com/etsy/conjecture/data/BinaryLabel.java
  class BinaryLabel (line 5) | public class BinaryLabel extends RealValuedLabel {
    method BinaryLabel (line 9) | public BinaryLabel() {
    method BinaryLabel (line 13) | public BinaryLabel(double value) {
    method checkBinaryValue (line 18) | private static double checkBinaryValue(double value) {
    method getAsPlusMinus (line 25) | public double getAsPlusMinus() {

FILE: src/main/java/com/etsy/conjecture/data/BinaryLabeledInstance.java
  class BinaryLabeledInstance (line 9) | public class BinaryLabeledInstance extends
    method getLabel (line 15) | public BinaryLabel getLabel() {
    method BinaryLabeledInstance (line 19) | public BinaryLabeledInstance() {
    method BinaryLabeledInstance (line 23) | public BinaryLabeledInstance(double label, Map<String, Double> instanc...
    method BinaryLabeledInstance (line 27) | public BinaryLabeledInstance(double label, Map<String, Double> instance,
    method BinaryLabeledInstance (line 32) | public BinaryLabeledInstance(double label, StringKeyedVector vec) {
    method BinaryLabeledInstance (line 36) | public BinaryLabeledInstance(double label, StringKeyedVector vec,
    method BinaryLabeledInstance (line 41) | public BinaryLabeledInstance(BinaryLabel label, Map<String, Double> in...
    method BinaryLabeledInstance (line 45) | public BinaryLabeledInstance(BinaryLabel label,
    method BinaryLabeledInstance (line 51) | public BinaryLabeledInstance(BinaryLabel label, StringKeyedVector vec) {
    method BinaryLabeledInstance (line 55) | public BinaryLabeledInstance(BinaryLabel label, StringKeyedVector vec,
    method BinaryLabeledInstance (line 60) | public BinaryLabeledInstance(double label) {
    method BinaryLabeledInstance (line 64) | public BinaryLabeledInstance(double label, double weight) {
    method BinaryLabeledInstance (line 68) | public BinaryLabeledInstance(BinaryLabel label) {
    method BinaryLabeledInstance (line 72) | public BinaryLabeledInstance(BinaryLabel label, double weight) {

FILE: src/main/java/com/etsy/conjecture/data/ByteArrayDoubleHashMap.java
  class ByteArrayDoubleHashMap (line 24) | public class ByteArrayDoubleHashMap implements Serializable, KryoSeriali...
    method ByteArrayDoubleHashMap (line 38) | public ByteArrayDoubleHashMap() {
    method ByteArrayDoubleHashMap (line 42) | public ByteArrayDoubleHashMap(int initialCapacity, float loadFactor,
    method ByteArrayDoubleHashMap (line 47) | public ByteArrayDoubleHashMap(int initialCapacity, float loadFactor,
    method byteArrayToString (line 56) | public String byteArrayToString(byte[] b) {
    method stringToByteArray (line 65) | public byte[] stringToByteArray(String s) {
    class TByteArrayDoubleHashMap (line 78) | static class TByteArrayDoubleHashMap extends TObjectDoubleHashMap<byte...
      method TByteArrayDoubleHashMap (line 79) | public TByteArrayDoubleHashMap(int initialSize, float loadFactor,
      method hash (line 84) | protected int hash(Object obj) {
      method equals (line 88) | protected boolean equals(Object a, Object b) {
      method put (line 94) | public double put(byte[] key, double value) {
      method postInsertHook2 (line 111) | protected final void postInsertHook2(boolean usedFreeSlot) {
    method size (line 129) | public int size() {
    method containsKey (line 133) | public boolean containsKey(Object key) {
    method keySet (line 145) | public Set<String> keySet() {
    method values (line 153) | public Set<Double> values() {
    method containsValue (line 161) | public boolean containsValue(Object d) {
    method entrySet (line 165) | public Set<Map.Entry<String, Double>> entrySet() {
    method isEmpty (line 173) | public boolean isEmpty() {
    method clear (line 177) | public void clear() {
    method remove (line 181) | public Double remove(Object k) {
    method get (line 185) | public Double get(Object k) {
    method put (line 189) | public Double put(String key, Double value) {
    method putAll (line 193) | public void putAll(Map<? extends String, ? extends Double> m) {
    method getPrimitive (line 199) | public double getPrimitive(byte[] key) {
    method getPrimitive (line 203) | public double getPrimitive(String key) {
    method putPrimitive (line 207) | public double putPrimitive(byte[] key, double value) {
    method putPrimitive (line 211) | public double putPrimitive(String key, double value) {
    method removePrimitive (line 215) | public double removePrimitive(byte[] key) {
    method removePrimitive (line 219) | public double removePrimitive(String key) {
    method transformValues (line 223) | public void transformValues(TDoubleFunction func) {
    method troveIterator (line 227) | public TObjectDoubleIterator<byte[]> troveIterator() {
    method iterator (line 231) | public Iterator<Map.Entry<String, Double>> iterator() {
    method writeObject (line 252) | private void writeObject(ObjectOutputStream output) throws IOException {
    method readObject (line 268) | private void readObject(ObjectInputStream input) throws IOException,
    method write (line 287) | public void write(Kryo kryo, Output output) {
    method read (line 303) | public void read(Kryo kryo, Input input) {

FILE: src/main/java/com/etsy/conjecture/data/ClusterLabel.java
  class ClusterLabel (line 3) | public class ClusterLabel extends Label{
    method ClusterLabel (line 9) | public ClusterLabel() {
    method ClusterLabel (line 13) | public ClusterLabel(String label) {
    method getLabel (line 17) | public String getLabel() {
    method setLabel (line 21) | public void setLabel(String label) {
    method toString (line 25) | public String toString() {
    method hashCode (line 29) | @Override
    method equals (line 37) | @Override

FILE: src/main/java/com/etsy/conjecture/data/ClusterPrediction.java
  class ClusterPrediction (line 9) | public class ClusterPrediction extends ClusterLabel{
    method ClusterPrediction (line 18) | public ClusterPrediction(Map<String, Double> clusterProbs) {
    method getMap (line 33) | public Map<String,Double> getMap() {

FILE: src/main/java/com/etsy/conjecture/data/Instance.java
  class Instance (line 6) | public class Instance extends AbstractInstance<Instance> {
    method Instance (line 8) | public Instance() {
    method Instance (line 12) | public Instance(StringKeyedVector vec) {

FILE: src/main/java/com/etsy/conjecture/data/InstanceFactory.java
  class InstanceFactory (line 3) | public class InstanceFactory {
    method InstanceFactory (line 5) | private InstanceFactory() {
    method buildInstance (line 8) | public static Instance buildInstance() {
    method copyInstance (line 12) | public static Instance copyInstance(Instance inst) {
    method toBinaryLabeledInstance (line 16) | public static BinaryLabeledInstance toBinaryLabeledInstance(double label,
    method toBinaryLabeledInstance (line 21) | public static BinaryLabeledInstance toBinaryLabeledInstance(
    method toRealValueLabeledInstance (line 26) | public static RealValueLabeledInstance toRealValueLabeledInstance(
    method toRealValueLabeledInstance (line 31) | public static RealValueLabeledInstance toRealValueLabeledInstance(

FILE: src/main/java/com/etsy/conjecture/data/InstanceInterface.java
  type InstanceInterface (line 7) | public interface InstanceInterface<T extends InstanceInterface<T>> {
    method getId (line 9) | public abstract String getId();
    method setId (line 11) | public abstract T setId(String id);
    method addTerm (line 13) | public abstract T addTerm(String term);
    method addTerm (line 15) | public abstract T addTerm(String term, double featureWeight);
    method addTermWithNamespace (line 17) | public abstract T addTermWithNamespace(String term, String namespace);
    method addTermWithNamespace (line 19) | public abstract T addTermWithNamespace(String term, String namespace,
    method addTerms (line 22) | public abstract T addTerms(Collection<String> terms, double featureWei...
    method addTerms (line 24) | public abstract T addTerms(Collection<String> terms);
    method addTermsWithNamespace (line 26) | public abstract T addTermsWithNamespace(Collection<String> terms,
    method addTermsWithNamespace (line 29) | public abstract T addTermsWithNamespace(Collection<String> terms,
    method addTerms (line 32) | public abstract T addTerms(String[] terms, double featureWeight);
    method addTerms (line 34) | public abstract T addTerms(String[] terms);
    method addTermsWithNamespace (line 36) | public abstract T addTermsWithNamespace(String[] terms, String namespace,
    method addTermsWithNamespace (line 39) | public abstract T addTermsWithNamespace(String[] terms, String namespa...
    method addTermsWithWeights (line 41) | public abstract T addTermsWithWeights(Map<String, Double> termsWithWei...
    method addTermsWithWeightsWithNamespace (line 43) | public abstract T addTermsWithWeightsWithNamespace(
    method addNumericArrayWithNamespace (line 46) | public abstract T addNumericArrayWithNamespace(double[] array,
    method addNumericArray (line 49) | public abstract T addNumericArray(double[] array);
    method addNumericArrayWithNamespace (line 51) | public abstract T addNumericArrayWithNamespace(Double[] array,
    method addNumericArray (line 54) | public abstract T addNumericArray(Double[] array);
    method addNumericArrayWithNamespace (line 56) | public abstract T addNumericArrayWithNamespace(List<Double> values,
    method addNumericArray (line 59) | public abstract T addNumericArray(List<Double> values);
    method setNumericArrayWithNamespace (line 61) | public abstract T setNumericArrayWithNamespace(double[] array,
    method setNumericArray (line 64) | public abstract T setNumericArray(double[] array);
    method setNumericArrayWithNamespace (line 66) | public abstract T setNumericArrayWithNamespace(Double[] array,
    method setNumericArray (line 69) | public abstract T setNumericArray(Double[] array);
    method setNumericArrayWithNamespace (line 71) | public abstract T setNumericArrayWithNamespace(List<Double> values,
    method setNumericArray (line 74) | public abstract T setNumericArray(List<Double> values);
    method addIdField (line 76) | public abstract T addIdField(long id, double featureWeight);
    method addIdField (line 78) | public abstract T addIdField(long id);
    method addIdFieldWithNamespace (line 80) | public abstract T addIdFieldWithNamespace(long id, double featureWeight,
    method addIdFieldWithNamespace (line 83) | public abstract T addIdFieldWithNamespace(long id, String namespace);
    method addIdField (line 85) | public abstract T addIdField(int id, double featureWeight);
    method addIdField (line 87) | public abstract T addIdField(int id);
    method addIdFieldWithNamespace (line 89) | public abstract T addIdFieldWithNamespace(int id, double featureWeight,
    method addIdFieldWithNamespace (line 92) | public abstract T addIdFieldWithNamespace(int id, String namespace);
    method addIds (line 94) | public abstract T addIds(long[] ids, double featureWeight);
    method addIds (line 96) | public abstract T addIds(long[] ids);
    method addIds (line 98) | public abstract T addIds(int[] ids, double featureWeight);
    method addIds (line 100) | public abstract T addIds(int[] ids);
    method addIds (line 102) | public abstract T addIds(Collection<Integer> ids, double featureWeight);
    method addIds (line 104) | public abstract T addIds(Collection<Integer> ids);
    method addIdsWithNamespace (line 106) | public abstract T addIdsWithNamespace(long[] ids, double featureWeight,
    method addIdsWithNamespace (line 109) | public abstract T addIdsWithNamespace(long[] ids, String namespace);
    method addIdsWithNamespace (line 111) | public abstract T addIdsWithNamespace(int[] ids, double featureWeight,
    method addIdsWithNamespace (line 114) | public abstract T addIdsWithNamespace(int[] ids, String namespace);
    method addIdsWithNamespace (line 116) | public abstract T addIdsWithNamespace(Collection<Long> ids,
    method addIdsWithNamespace (line 119) | public abstract T addIdsWithNamespace(Collection<Long> ids, String nam...
    method setIdField (line 121) | public abstract T setIdField(long id, double featureWeight);
    method setIdField (line 123) | public abstract T setIdField(long id);
    method setIdFieldWithNamespace (line 125) | public abstract T setIdFieldWithNamespace(long id, double featureWeight,
    method setIdFieldWithNamespace (line 128) | public abstract T setIdFieldWithNamespace(long id, String namespace);
    method setIdField (line 130) | public abstract T setIdField(int id, double featureWeight);
    method setIdField (line 132) | public abstract T setIdField(int id);
    method setIdFieldWithNamespace (line 134) | public abstract T setIdFieldWithNamespace(int id, double featureWeight,
    method setIdFieldWithNamespace (line 137) | public abstract T setIdFieldWithNamespace(int id, String namespace);
    method setIds (line 139) | public abstract T setIds(long[] ids, double featureWeight);
    method setIds (line 141) | public abstract T setIds(long[] ids);
    method setIds (line 143) | public abstract T setIds(int[] ids, double featureWeight);
    method setIds (line 145) | public abstract T setIds(int[] ids);
    method setIds (line 147) | public abstract T setIds(Collection<Integer> ids, double featureWeight);
    method setIds (line 149) | public abstract T setIds(Collection<Integer> ids);
    method setIdsWithNamespace (line 151) | public abstract T setIdsWithNamespace(long[] ids, double featureWeight,
    method setIdsWithNamespace (line 154) | public abstract T setIdsWithNamespace(long[] ids, String namespace);
    method setIdsWithNamespace (line 156) | public abstract T setIdsWithNamespace(int[] ids, double featureWeight,
    method setIdsWithNamespace (line 159) | public abstract T setIdsWithNamespace(int[] ids, String namespace);
    method setIdsWithNamespace (line 161) | public abstract T setIdsWithNamespace(Collection<Long> ids,
    method setIdsWithNamespace (line 164) | public abstract T setIdsWithNamespace(Collection<Long> ids, String nam...

FILE: src/main/java/com/etsy/conjecture/data/Label.java
  class Label (line 3) | public class Label implements java.io.Serializable {
    method Label (line 7) | public Label() {

FILE: src/main/java/com/etsy/conjecture/data/LabeledInstance.java
  type LabeledInstance (line 3) | public interface LabeledInstance<L extends Label> {
    method getLabel (line 4) | public L getLabel();
    method getVector (line 6) | public StringKeyedVector getVector();
    method getWeight (line 8) | public double getWeight();

FILE: src/main/java/com/etsy/conjecture/data/LazyVector.java
  class LazyVector (line 21) | public class LazyVector extends StringKeyedVector implements Serializable,
    type UpdateFunction (line 35) | public static interface UpdateFunction extends Serializable {
      method lazyUpdate (line 36) | public double lazyUpdate(String key, double param, long startIteration,
    method LazyVector (line 40) | public LazyVector() {
    method LazyVector (line 50) | public LazyVector(UpdateFunction uf) {
    method LazyVector (line 54) | public LazyVector(int initialCapacity, UpdateFunction uf) {
    method LazyVector (line 61) | public LazyVector(StringKeyedVector skv, UpdateFunction uf) {
    method LazyVector (line 71) | public LazyVector(ByteArrayDoubleHashMap map, UpdateFunction uf) {
    method LazyVector (line 78) | public LazyVector(Map<String, Double> jmap, UpdateFunction uf) {
    method incrementIteration (line 85) | public void incrementIteration() {
    method delazify (line 89) | public void delazify() {
    method delazifyCoordinate (line 103) | public double delazifyCoordinate(String key) {
    method delazifyCoordinate (line 107) | public double delazifyCoordinate(byte[] key) {
    method skipToIteration (line 129) | public void skipToIteration(long iter) {
    method setCoordinate (line 143) | public double setCoordinate(String key, double value) {
    method deleteCoordinate (line 156) | public double deleteCoordinate(String key) {
    method getMap (line 165) | public Map<String, Double> getMap() {
    method addToCoordinateInternal (line 169) | protected double addToCoordinateInternal(byte[] bkey, double value) {
    method getCoordinate (line 190) | public double getCoordinate(String key) {
    method size (line 198) | public int size() {
    method containsKey (line 206) | public boolean containsKey(String key) {
    method contains (line 214) | public boolean contains(String key) {
    method keySet (line 221) | public Set<String> keySet() {
    method values (line 229) | public Set<Double> values() {
    method transformValues (line 237) | public void transformValues(TDoubleFunction func) {
    method removeZeroCoordinates (line 245) | public void removeZeroCoordinates() {
    method dot (line 259) | public double dot(StringKeyedVector skv) {
    method dotWithSKV (line 267) | protected double dotWithSKV(StringKeyedVector vec) {
    method dotWithLazy (line 279) | protected double dotWithLazy(LazyVector vec) {
    method LPNorm (line 307) | public double LPNorm(double p) {
    method iterator (line 315) | public Iterator<Map.Entry<String, Double>> iterator() {
    method toString (line 320) | public String toString() {
    method writeReplace (line 325) | private Object writeReplace() throws java.io.ObjectStreamException {
    method writeObject (line 331) | private void writeObject(ObjectOutputStream output) throws IOException {
    method readObject (line 338) | private void readObject(ObjectInputStream input) throws IOException,
    method write (line 350) | public void write(Kryo kryo, Output output) {
    method read (line 358) | public void read(Kryo kryo, Input input) {

FILE: src/main/java/com/etsy/conjecture/data/MulticlassLabel.java
  class MulticlassLabel (line 6) | public class MulticlassLabel extends Label {
    method MulticlassLabel (line 12) | public MulticlassLabel() {
    method MulticlassLabel (line 16) | public MulticlassLabel(String label) {
    method getLabel (line 20) | public String getLabel() {
    method setLabel (line 24) | public void setLabel(String label) {
    method toString (line 28) | public String toString() {
    method toBinaryLabel (line 32) | public BinaryLabel toBinaryLabel(String className) {
    method hashCode (line 36) | @Override
    method equals (line 44) | @Override

FILE: src/main/java/com/etsy/conjecture/data/MulticlassLabeledInstance.java
  class MulticlassLabeledInstance (line 5) | public class MulticlassLabeledInstance extends
    method getLabel (line 11) | public MulticlassLabel getLabel() {
    method MulticlassLabeledInstance (line 15) | public MulticlassLabeledInstance(String label) {
    method MulticlassLabeledInstance (line 19) | public MulticlassLabeledInstance(String label, double weight) {
    method MulticlassLabeledInstance (line 23) | public MulticlassLabeledInstance(String label, Map<String, Double> ins...
    method MulticlassLabeledInstance (line 27) | public MulticlassLabeledInstance(String label,
    method MulticlassLabeledInstance (line 32) | public MulticlassLabeledInstance(String label, StringKeyedVector vec) {
    method MulticlassLabeledInstance (line 36) | public MulticlassLabeledInstance(String label, StringKeyedVector vec,
    method MulticlassLabeledInstance (line 41) | public MulticlassLabeledInstance(MulticlassLabel label) {
    method MulticlassLabeledInstance (line 45) | public MulticlassLabeledInstance(MulticlassLabel label, double weight) {
    method MulticlassLabeledInstance (line 50) | public MulticlassLabeledInstance(MulticlassLabel label,
    method MulticlassLabeledInstance (line 55) | public MulticlassLabeledInstance(MulticlassLabel label,
    method MulticlassLabeledInstance (line 61) | public MulticlassLabeledInstance(MulticlassLabel label,
    method MulticlassLabeledInstance (line 66) | public MulticlassLabeledInstance(MulticlassLabel label,
    method toBinaryInstance (line 71) | public BinaryLabeledInstance toBinaryInstance(String category) {

FILE: src/main/java/com/etsy/conjecture/data/MulticlassPrediction.java
  class MulticlassPrediction (line 9) | public class MulticlassPrediction extends MulticlassLabel {
    method MulticlassPrediction (line 18) | public MulticlassPrediction(Map<String, Double> classProbs) {
    method getProb (line 33) | public Double getProb(String category) {
    method getProbOrElse (line 37) | public Double getProbOrElse(String category, Double def) {
    method getMap (line 45) | public Map<String, Double> getMap() {

FILE: src/main/java/com/etsy/conjecture/data/RealValueLabeledInstance.java
  class RealValueLabeledInstance (line 5) | public class RealValueLabeledInstance extends
    method getLabel (line 11) | public RealValuedLabel getLabel() {
    method RealValueLabeledInstance (line 15) | public RealValueLabeledInstance() {
    method RealValueLabeledInstance (line 19) | public RealValueLabeledInstance(RealValuedLabel label) {
    method RealValueLabeledInstance (line 23) | public RealValueLabeledInstance(RealValuedLabel label, double weight) {
    method RealValueLabeledInstance (line 28) | public RealValueLabeledInstance(double label) {
    method RealValueLabeledInstance (line 32) | public RealValueLabeledInstance(double label, double weight) {
    method RealValueLabeledInstance (line 36) | public RealValueLabeledInstance(double label, Map<String, Double> inst...
    method RealValueLabeledInstance (line 40) | public RealValueLabeledInstance(double label, Map<String, Double> inst...
    method RealValueLabeledInstance (line 45) | public RealValueLabeledInstance(double label, StringKeyedVector vec) {
    method RealValueLabeledInstance (line 49) | public RealValueLabeledInstance(double label, StringKeyedVector vec,
    method RealValueLabeledInstance (line 54) | public RealValueLabeledInstance(RealValuedLabel label,
    method RealValueLabeledInstance (line 59) | public RealValueLabeledInstance(RealValuedLabel label,
    method RealValueLabeledInstance (line 65) | public RealValueLabeledInstance(RealValuedLabel label, StringKeyedVect...
    method RealValueLabeledInstance (line 69) | public RealValueLabeledInstance(RealValuedLabel label,

FILE: src/main/java/com/etsy/conjecture/data/RealValuedLabel.java
  class RealValuedLabel (line 3) | public class RealValuedLabel extends Label {
    method RealValuedLabel (line 8) | public RealValuedLabel(double value) {
    method getValue (line 12) | public Double getValue() {
    method toString (line 16) | @Override

FILE: src/main/java/com/etsy/conjecture/data/Recommendation.java
  class Recommendation (line 5) | public class Recommendation implements Serializable {
    method Recommendation (line 12) | public Recommendation(String id, double score) {

FILE: src/main/java/com/etsy/conjecture/data/StringKeyedVector.java
  class StringKeyedVector (line 14) | public class StringKeyedVector implements Serializable,
    method StringKeyedVector (line 32) | public StringKeyedVector() {
    method StringKeyedVector (line 36) | public StringKeyedVector(int initialCapacity) {
    method StringKeyedVector (line 41) | public StringKeyedVector(StringKeyedVector skv) {
    method StringKeyedVector (line 46) | public StringKeyedVector(Map<String, Double> jmap) {
    method getFreezeKeySet (line 56) | public boolean getFreezeKeySet() {
    method setFreezeKeySet (line 64) | public void setFreezeKeySet(boolean freeze) {
    method setCoordinate (line 72) | public double setCoordinate(String key, double value) {
    method deleteCoordinate (line 84) | public double deleteCoordinate(String key) {
    method getMap (line 92) | public Map<String, Double> getMap() {
    method addToCoordinate (line 99) | public double addToCoordinate(String key, double value) {
    method addToCoordinateInternal (line 104) | protected double addToCoordinateInternal(byte[] bkey, double value) {
    method getCoordinate (line 121) | public double getCoordinate(String key) {
    method addScaled (line 128) | public void addScaled(StringKeyedVector vec, double scale) {
    method multiplyPointwise (line 139) | public StringKeyedVector multiplyPointwise(StringKeyedVector vec) {
    method projectOntoNonZeroCoordinates (line 153) | public StringKeyedVector projectOntoNonZeroCoordinates(StringKeyedVect...
    method size (line 169) | public int size() {
    method containsKey (line 176) | public boolean containsKey(String key) {
    method contains (line 183) | public boolean contains(String key) {
    method keySet (line 190) | public Set<String> keySet() {
    method values (line 197) | public Set<Double> values() {
    method add (line 204) | public void add(StringKeyedVector vec) {
    method sub (line 211) | public void sub(StringKeyedVector vec) {
    method mul (line 218) | public void mul(final double a) {
    method transformValues (line 229) | public void transformValues(TDoubleFunction func) {
    method removeZeroCoordinates (line 236) | public void removeZeroCoordinates() {
    method dot (line 252) | public double dot(StringKeyedVector vec) {
    method LPNorm (line 274) | public double LPNorm(double p) {
    method max (line 285) | public double max() {
    method iterator (line 298) | public Iterator<Map.Entry<String, Double>> iterator() {
    method toString (line 302) | public String toString() {
    method copy (line 311) | public StringKeyedVector copy() {

FILE: src/main/java/com/etsy/conjecture/evaluation/BinaryModelEvaluation.java
  class BinaryModelEvaluation (line 15) | public class BinaryModelEvaluation implements ModelEvaluation<BinaryLabel>,
    method BinaryModelEvaluation (line 22) | public BinaryModelEvaluation() {
    method merge (line 27) | public void merge(ModelEvaluation<BinaryLabel> other) {
    method add (line 33) | public void add(BinaryLabel real, BinaryLabel pred) {
    method add (line 37) | public void add(double label, double prediction) {
    method add (line 42) | public void add(PrimitivePair labelPrediction) {
    method computeAUC (line 47) | public double computeAUC() {
    method computeBrier (line 51) | public double computeBrier() {
    method computeAccy (line 55) | public double computeAccy() {
    method computeAccy (line 59) | public double computeAccy(int dim) {
    method computeFmeasure (line 63) | public double computeFmeasure() {
    method computeFmeasure (line 67) | public double computeFmeasure(int dim) {
    method computePrecision (line 71) | public double computePrecision() {
    method computePrecision (line 75) | public double computePrecision(int dim) {
    method computeRecall (line 79) | public double computeRecall() {
    method computeRecall (line 83) | public double computeRecall(int dim) {
    method getStatistics (line 87) | public Map<String, Double> getStatistics() {
    method getObjects (line 109) | public Map<String, Object> getObjects() {

FILE: src/main/java/com/etsy/conjecture/evaluation/ConfusionMatrix.java
  class ConfusionMatrix (line 16) | public class ConfusionMatrix implements Serializable {
    method ConfusionMatrix (line 38) | public ConfusionMatrix(int classes) {
    method add (line 44) | public void add(ConfusionMatrix m) {
    method ConfusionMatrix (line 61) | public ConfusionMatrix(int classes,
    method ConfusionMatrix (line 76) | public ConfusionMatrix(int classes, PrimitivePair[] labelsAndPredictio...
    method ConfusionMatrix (line 90) | public ConfusionMatrix(int classes, double[] labels, double[] predicti...
    method addInfo (line 109) | public void addInfo(int label, int guess) {
    method addInfo (line 122) | public void addInfo(int label, double[] guess) {
    method addInfo (line 137) | public void addInfo(int label, double[] guess, double freq) {
    method addInfo (line 157) | public void addInfo(double label, double prediction) {
    method addInfo (line 174) | public void addInfo(double[] softlabels, double[] guess) {
    method addInfo (line 193) | public void addInfo(double[] softlabels, double[] guess, double freq) {
    method classDistribution (line 207) | public double[] classDistribution() {
    method classDistribution (line 223) | public double classDistribution(int num) {
    method addHard (line 247) | public void addHard(double[] softlabels, double[] guess, double weight) {
    method addHard (line 260) | public void addHard(double[] softlabels, double[] guess) {
    method addHard (line 274) | public void addHard(int label, double[] guess) {
    method addHard (line 288) | public void addHard(int label, double prediction) {
    method addHard (line 306) | public void addHard(int label, double[] guess, double freq) {
    method softToHard (line 319) | private static double[] softToHard(double[] scores) {
    method toString (line 338) | @Override
    method toStringRowNormalized (line 362) | public String toStringRowNormalized() {
    method toStringColNormalized (line 388) | public String toStringColNormalized() {
    method rowSums (line 413) | public double[] rowSums() {
    method computeAccuracy (line 431) | public double computeAccuracy(int classid) {
    method computeAverageFmeasure (line 441) | public double computeAverageFmeasure() {
    method computeAveragePrecision (line 452) | public double computeAveragePrecision() {
    method computeAverageRecall (line 463) | public double computeAverageRecall() {
    method colSums (line 479) | public double[] colSums() {
    method getMatrix (line 494) | public double[][] getMatrix() {
    method getDim (line 507) | public int getDim() {
    method computeAccuracy (line 517) | public double computeAccuracy() {
    method computePrecision (line 538) | public double[] computePrecision() {
    method computeRecall (line 561) | public double[] computeRecall() {
    method computeFmeasure (line 588) | public double[] computeFmeasure() {
    method getIR (line 607) | public String getIR() {
    method computePrecision (line 630) | public double computePrecision(int dim) {
    method computeRecall (line 645) | public double computeRecall(int dim) {
    method computeFmeasure (line 663) | public double computeFmeasure(int dim) {
    method total (line 676) | private double total(double[] arr) {
    method computeAccuracy (line 693) | public static double computeAccuracy(Collection<PrimitivePair> input) {

FILE: src/main/java/com/etsy/conjecture/evaluation/EvaluationAggregator.java
  class EvaluationAggregator (line 14) | public class EvaluationAggregator<L extends Label> implements Serializab...
    method add (line 20) | public void add(ModelEvaluation<L> eval) {
    method getValue (line 48) | public double getValue(String key) {
    method toString (line 52) | @Override
    method format (line 67) | private String format(DescriptiveStatistics stats) {

FILE: src/main/java/com/etsy/conjecture/evaluation/ModelEvaluation.java
  type ModelEvaluation (line 7) | public interface ModelEvaluation<L extends Label> {
    method add (line 8) | public void add(L real, L predicted);
    method getStatistics (line 10) | public Map<String, Double> getStatistics();
    method getObjects (line 12) | public Map<String, Object> getObjects();
    method merge (line 14) | public void merge(ModelEvaluation<L> other);

FILE: src/main/java/com/etsy/conjecture/evaluation/MulticlassConfusionMatrix.java
  class MulticlassConfusionMatrix (line 16) | public class MulticlassConfusionMatrix implements Serializable {
    method MulticlassConfusionMatrix (line 38) | public MulticlassConfusionMatrix(String[] categories) {
    method add (line 44) | public void add(MulticlassConfusionMatrix m) {
    method initializeMatrix (line 57) | private static SortedMap<String, SortedMap<String, Double>> initialize...
    method initializeMatrix (line 67) | private static SortedMap<String, SortedMap<String, Double>> initialize...
    method getValue (line 80) | private Double getValue(String label, String guess) {
    method updateConfusionMatrix (line 84) | private void updateConfusionMatrix(String label, String guess, double ...
    method initializeProbabilityMatrix (line 88) | private Map<String, Double> initializeProbabilityMatrix() {
    method addInfo (line 104) | public void addInfo(String label, String guess) {
    method addInfo (line 109) | public void addInfo(String label, String guess, double freq) {
    method addInfo (line 122) | public void addInfo(String label, Map<String, Double> guesses) {
    method addInfo (line 137) | public void addInfo(String label, Map<String, Double> predictions,
    method addInfo (line 154) | public void addInfo(Map<String, Double> labels,
    method addInfo (line 169) | public void addInfo(Map<String, Double> labels,
    method classDistribution (line 184) | public Map<String, Double> classDistribution() {
    method classDistribution (line 200) | public double classDistribution(String category) {
    method addHard (line 225) | public void addHard(Map<String, Double> softlabels,
    method addHard (line 239) | public void addHard(Map<String, Double> softlabels,
    method addHard (line 254) | public void addHard(String label, Map<String, Double> guess) {
    method addHard (line 271) | public void addHard(String label, Map<String, Double> guess, double fr...
    method softToHard (line 284) | private static String softToHard(Map<String, Double> scores) {
    method printDebug (line 296) | public String printDebug() {
    method toString (line 305) | public String toString() {
    method toStringRowNormalized (line 329) | public String toStringRowNormalized() {
    method toStringColNormalized (line 357) | public String toStringColNormalized() {
    method rowSums (line 384) | public Map<String, Double> rowSums() {
    method computeAccuracy (line 406) | public double computeAccuracy(String classId) {
    method computeAverageFmeasure (line 420) | public double computeAverageFmeasure() {
    method computeAveragePrecision (line 431) | public double computeAveragePrecision() {
    method computeAverageRecall (line 446) | public double computeAverageRecall() {
    method colSums (line 466) | public Map<String, Double> colSums() {
    method getMatrix (line 482) | public SortedMap<String, SortedMap<String, Double>> getMatrix() {
    method getDim (line 499) | public int getDim() {
    method computeAccuracy (line 509) | public double computeAccuracy() {
    method computePrecision (line 531) | public Map<String, Double> computePrecision() {
    method computeRecall (line 545) | public Map<String, Double> computeRecall() {
    method computeFmeasure (line 561) | public Map<String, Double> computeFmeasure() {
    method getIR (line 585) | public String getIR() {
    method computePrecision (line 609) | public double computePrecision(String category) {
    method computeRecall (line 625) | public double computeRecall(String category) {
    method computeFmeasure (line 643) | public double computeFmeasure(String category) {
    method total (line 656) | private double total(Map<String, Double> probs) {

FILE: src/main/java/com/etsy/conjecture/evaluation/MulticlassModelEvaluation.java
  class MulticlassModelEvaluation (line 17) | public class MulticlassModelEvaluation implements Serializable,
    method MulticlassModelEvaluation (line 29) | public MulticlassModelEvaluation(String[] categories) {
    method add (line 35) | public void add(String label, MulticlassPrediction prediction) {
    method merge (line 40) | public void merge(ModelEvaluation<MulticlassLabel> other) {
    method add (line 46) | public void add(GenericPair<String, MulticlassPrediction> labelPredict...
    method add (line 50) | public void add(MulticlassLabel real, MulticlassLabel pred) {
    method computeAUC (line 58) | public double computeAUC() {
    method computeAUC (line 62) | public double computeAUC(String dim) {
    method computeBrier (line 66) | public double computeBrier() {
    method computeAccy (line 70) | public double computeAccy() {
    method computeAccy (line 74) | public double computeAccy(String dim) {
    method computeFmeasure (line 78) | public double computeFmeasure() {
    method computeFmeasure (line 82) | public double computeFmeasure(String dim) {
    method computePrecision (line 86) | public double computePrecision() {
    method computePrecision (line 90) | public double computePrecision(String dim) {
    method computeRecall (line 94) | public double computeRecall() {
    method computeRecall (line 98) | public double computeRecall(String dim) {
    method computePercent (line 102) | public double computePercent(String dim) {
    method printDebug (line 106) | public String printDebug() {
    method getStatistics (line 110) | public Map<String, Double> getStatistics() {
    method toString (line 132) | public String toString() {
    method getObjects (line 141) | public HashMap<String, Object> getObjects() {

FILE: src/main/java/com/etsy/conjecture/evaluation/MulticlassReceiverOperatingCharacteristic.java
  class MulticlassReceiverOperatingCharacteristic (line 12) | public class MulticlassReceiverOperatingCharacteristic implements Serial...
    method MulticlassReceiverOperatingCharacteristic (line 28) | public MulticlassReceiverOperatingCharacteristic(String[] categories) {
    method add (line 37) | public void add(MulticlassReceiverOperatingCharacteristic other) {
    method add (line 54) | public void add(GenericPair<String, MulticlassPrediction> labelPredict...
    method add (line 58) | public void add(String label, MulticlassPrediction prediction) {
    method multiclassAUC (line 79) | public double multiclassAUC() {
    method singleClassAUC (line 91) | public double singleClassAUC(String category) {
    method multiclassBrierScore (line 95) | public double multiclassBrierScore() {
    method computePercent (line 104) | public double computePercent(String category) {
    method computeAUC (line 108) | public static double computeAUC(
    method computeBrierScore (line 118) | public static double computeBrierScore(

FILE: src/main/java/com/etsy/conjecture/evaluation/ReceiverOperatingCharacteristic.java
  class ReceiverOperatingCharacteristic (line 14) | public class ReceiverOperatingCharacteristic implements Serializable {
    class NumComparator (line 16) | private static class NumComparator implements Comparator<Double>,
      method compare (line 20) | @Override
    method ReceiverOperatingCharacteristic (line 44) | public ReceiverOperatingCharacteristic() {
    method add (line 51) | public void add(ReceiverOperatingCharacteristic r) {
    method increment (line 62) | private void increment(Double key, int[] value) {
    method increment (line 73) | private void increment(Double prediction, double label) {
    method add (line 92) | public void add(double label, double prediction) {
    method add (line 97) | public void add(PrimitivePair pair) {
    method ROC (line 106) | public double[][] ROC() {
    method brierScore (line 138) | public double brierScore() {
    method averagedBrierScore (line 163) | public double averagedBrierScore(int bins) {
    method binaryAUC (line 200) | public double binaryAUC() {
    method trapezoidArea (line 225) | private double trapezoidArea(double x1, double x2, double y1, double y...
    method toString (line 236) | @Override
    method computeAUC (line 253) | public static double computeAUC(
    method computeBrierScore (line 268) | public static double computeBrierScore(

FILE: src/main/java/com/etsy/conjecture/evaluation/RegressionModelEvaluation.java
  class RegressionModelEvaluation (line 12) | public class RegressionModelEvaluation implements
    method add (line 18) | public void add(RealValuedLabel real, RealValuedLabel pred) {
    method merge (line 22) | public void merge(ModelEvaluation<RealValuedLabel> other) {
    method add (line 29) | public void add(double label, double prediction) {
    method add (line 36) | public void add(PrimitivePair labelPrediction) {
    method computeMeanSquaredError (line 40) | public double computeMeanSquaredError() {
    method computeMeanAbsoluteError (line 44) | public double computeMeanAbsoluteError() {
    method getStatistics (line 48) | public HashMap<String, Double> getStatistics() {
    method toString (line 55) | @Override
    method getObjects (line 63) | public HashMap<String, Object> getObjects() {

FILE: src/main/java/com/etsy/conjecture/model/AdagradOptimizer.java
  class AdagradOptimizer (line 12) | public class AdagradOptimizer<L extends Label> extends SGDOptimizer<L> {
    method getUpdate (line 17) | @Override
    method updateAndGetFeatureLearningRate (line 35) | public double updateAndGetFeatureLearningRate(String feature, double g...
    method getFeatureLearningRate (line 52) | public double getFeatureLearningRate(String feature) {
    method lazyUpdate (line 64) | @Override
    method adagradL1 (line 80) | public double adagradL1(String feature, double param, long iter) {
    method teardown (line 92) | @Override

FILE: src/main/java/com/etsy/conjecture/model/ClusteringModel.java
  class ClusteringModel (line 22) | public abstract class ClusteringModel<ClusterLabel extends Label> implem...
    method update (line 31) | public void update(LabeledInstance<ClusterLabel> instance) {
    method update (line 35) | public void update(Collection<LabeledInstance<ClusterLabel>> instances) {
    method update (line 41) | public abstract void update(StringKeyedVector instance);
    method predict (line 43) | public abstract ClusterLabel predict(StringKeyedVector instance);
    method ClusteringModel (line 45) | protected ClusteringModel() {
    method ClusteringModel (line 53) | protected ClusteringModel(HashMap<String, StringKeyedVector> param) {
    method setFreezeFeatureSet (line 65) | public void setFreezeFeatureSet(boolean freeze) {
    method reScale (line 71) | public void reScale(double scale) {
    method merge (line 77) | public void merge(ClusteringModel<ClusterLabel> model, double scale) {
    method setNumClusters (line 83) | public ClusteringModel<ClusterLabel> setNumClusters(int k) {
    method setL1ProjectionErrorTolerance (line 89) | public ClusteringModel<ClusterLabel> setL1ProjectionErrorTolerance(dou...
    method setL1ProjectionBallRadius (line 95) | public ClusteringModel<ClusterLabel> setL1ProjectionBallRadius(double ...
    method decompose (line 101) | public Iterator<Map.Entry<String, Double>> decompose() {
    method setParameter (line 105) | public void setParameter(String name, double value){
    method getEpoch (line 109) | public long getEpoch() {
    method setEpoch (line 113) | public void setEpoch(long epoch) {

FILE: src/main/java/com/etsy/conjecture/model/ControlOptimizer.java
  class ControlOptimizer (line 10) | public class ControlOptimizer<L extends Label> extends SGDOptimizer<L> {
    method getUpdate (line 14) | @Override
    method updateAndGetFeatureLearningRate (line 32) | public double updateAndGetFeatureLearningRate(String feature, double g...
    method getFeatureLearningRate (line 48) | public double getFeatureLearningRate(String feature) {
    method teardown (line 52) | @Override

FILE: src/main/java/com/etsy/conjecture/model/Decomposable.java
  type Decomposable (line 9) | public interface Decomposable {
    method decompose (line 14) | public Iterator<Map.Entry<String, Double>> decompose();
    method setParameter (line 19) | public void setParameter(String name, double value);

FILE: src/main/java/com/etsy/conjecture/model/ElasticNetOptimizer.java
  class ElasticNetOptimizer (line 5) | public class ElasticNetOptimizer<L extends Label> extends SGDOptimizer<L...
    method getUpdate (line 7) | @Override

FILE: src/main/java/com/etsy/conjecture/model/FTRLOptimizer.java
  class FTRLOptimizer (line 16) | public class FTRLOptimizer<L extends Label> extends SGDOptimizer<L> {
    method getUpdate (line 23) | @Override
    method getFeatureLearningRate (line 48) | public double getFeatureLearningRate(String feature, double gradient) {
    method FTRLRegularization (line 57) | public void FTRLRegularization(LabeledInstance<L> instance) {
    method getRegularizedWeight (line 72) | public double getRegularizedWeight(String feature) {
    method lazyUpdate (line 91) | @Override
    method setAlpha (line 96) | public FTRLOptimizer<L> setAlpha(double alpha) {
    method setBeta (line 102) | public FTRLOptimizer<L> setBeta(double beta) {
    method teardown (line 108) | @Override

FILE: src/main/java/com/etsy/conjecture/model/Hinge.java
  class Hinge (line 14) | public class Hinge extends UpdateableLinearModel<BinaryLabel> {
    method Hinge (line 19) | public Hinge(SGDOptimizer optimizer) {
    method Hinge (line 23) | public Hinge(StringKeyedVector param, SGDOptimizer optimizer) {
    method predict (line 27) | @Override
    method loss (line 33) | @Override
    method getGradients (line 45) | @Override
    method getModelType (line 59) | @Override
    method setThreshold (line 64) | public Hinge setThreshold(double threshold) {

FILE: src/main/java/com/etsy/conjecture/model/KMeans.java
  class KMeans (line 20) | public class KMeans extends ClusteringModel<ClusterLabel> {
    method KMeans (line 25) | public KMeans(String[] categories) {
    method KMeans (line 34) | public KMeans(Map<String, StringKeyedVector> centers) {
    method predict (line 42) | public ClusterPrediction predict(StringKeyedVector instance) {
    method update (line 50) | public void update(StringKeyedVector instance) {
    method getCurrent (line 67) | public Double getCurrent(StringKeyedVector center, Double theta) {
    method findTheta (line 78) | public Double findTheta(StringKeyedVector center, Double norm) {
    method doProjection (line 95) | public void doProjection(StringKeyedVector center, Double theta) {
    method l1Projection (line 110) | public void l1Projection(StringKeyedVector center) {

FILE: src/main/java/com/etsy/conjecture/model/LeastSquaresRegressionModel.java
  class LeastSquaresRegressionModel (line 7) | public class LeastSquaresRegressionModel extends
    method LeastSquaresRegressionModel (line 12) | public LeastSquaresRegressionModel(SGDOptimizer optimizer) {
    method LeastSquaresRegressionModel (line 16) | public LeastSquaresRegressionModel(StringKeyedVector param, SGDOptimiz...
    method predict (line 20) | @Override
    method loss (line 25) | @Override
    method getGradients (line 32) | @Override
    method getModelType (line 41) | @Override

FILE: src/main/java/com/etsy/conjecture/model/LogisticRegression.java
  class LogisticRegression (line 11) | public class LogisticRegression extends UpdateableLinearModel<BinaryLabe...
    method LogisticRegression (line 15) | public LogisticRegression(SGDOptimizer optimizer) {
    method LogisticRegression (line 19) | public LogisticRegression(StringKeyedVector param, SGDOptimizer optimi...
    method predict (line 23) | @Override
    method loss (line 28) | @Override
    method getGradients (line 35) | @Override
    method getModelType (line 45) | protected String getModelType() {

FILE: src/main/java/com/etsy/conjecture/model/MIRA.java
  class MIRA (line 8) | public class MIRA extends UpdateableLinearModel<BinaryLabel> {
    method MIRA (line 12) | public MIRA() {
    method MIRA (line 16) | public MIRA(StringKeyedVector param, SGDOptimizer optimizer) {
    method loss (line 20) | @Override
    method predict (line 28) | @Override
    method getGradients (line 34) | @Override
    method getModelType (line 50) | @Override

FILE: src/main/java/com/etsy/conjecture/model/MIRAOptimizer.java
  class MIRAOptimizer (line 9) | public class MIRAOptimizer<L extends Label> extends SGDOptimizer<L> {
    method getUpdate (line 11) | @Override

FILE: src/main/java/com/etsy/conjecture/model/Model.java
  type Model (line 7) | public interface Model<L extends Label> extends Serializable {
    method predict (line 9) | public L predict(StringKeyedVector instance);

FILE: src/main/java/com/etsy/conjecture/model/PassiveAggressiveOptimizer.java
  class PassiveAggressiveOptimizer (line 15) | public class PassiveAggressiveOptimizer extends SGDOptimizer<RealValuedL...
    method getUpdate (line 20) | @Override
    method setC (line 38) | public PassiveAggressiveOptimizer setC(double C) {
    method isHinge (line 44) | public PassiveAggressiveOptimizer isHinge(boolean isHinge) {

FILE: src/main/java/com/etsy/conjecture/model/SGDOptimizer.java
  class SGDOptimizer (line 20) | public abstract class SGDOptimizer<L extends Label> implements LazyVecto...
    method SGDOptimizer (line 32) | public SGDOptimizer() {}
    method SGDOptimizer (line 34) | public SGDOptimizer(double g, double l) {
    method getUpdates (line 42) | public StringKeyedVector getUpdates(Collection<LabeledInstance<L>> min...
    method getUpdate (line 60) | public abstract StringKeyedVector getUpdate(LabeledInstance<L> instance);
    method teardown (line 62) | public void teardown() {
    method lazyUpdate (line 74) | public double lazyUpdate(String feature, double param, long start, lon...
    method getDecreasingLearningRate (line 104) | public double getDecreasingLearningRate(long t){
    method setInitialLearningRate (line 117) | public SGDOptimizer<L> setInitialLearningRate(double rate) {
    method setExamplesPerEpoch (line 123) | public SGDOptimizer<L> setExamplesPerEpoch(double examples) {
    method setUseExponentialLearningRate (line 130) | public SGDOptimizer<L> setUseExponentialLearningRate(boolean useExpone...
    method setExponentialLearningRateBase (line 135) | public SGDOptimizer<L> setExponentialLearningRateBase(double base) {
    method setGaussianRegularizationWeight (line 147) | public SGDOptimizer<L> setGaussianRegularizationWeight(double gaussian) {
    method setLaplaceRegularizationWeight (line 155) | public SGDOptimizer<L> setLaplaceRegularizationWeight(double laplace) {

FILE: src/main/java/com/etsy/conjecture/model/UpdateableLinearModel.java
  class UpdateableLinearModel (line 19) | public abstract class UpdateableLinearModel<L extends Label> implements
    method setArgString (line 40) | public void setArgString(String s) {
    method getArgString (line 44) | public String getArgString() {
    method dotWithParam (line 48) | public double dotWithParam(StringKeyedVector x) {
    method UpdateableLinearModel (line 52) | protected UpdateableLinearModel(SGDOptimizer optimizer) {
    method UpdateableLinearModel (line 59) | protected UpdateableLinearModel(StringKeyedVector param, SGDOptimizer ...
    method getGradients (line 70) | public abstract StringKeyedVector getGradients(LabeledInstance<L> inst...
    method update (line 75) | public void update(Collection<LabeledInstance<L>> instances) {
    method update (line 87) | public void update(LabeledInstance<L> instance) {
    method predict (line 98) | public abstract L predict(StringKeyedVector instance);
    method loss (line 100) | public abstract double loss(LabeledInstance<L> instance);
    method getModelType (line 102) | protected abstract String getModelType();
    method decompose (line 104) | public Iterator<Map.Entry<String, Double>> decompose() {
    method setParameter (line 108) | public void setParameter(String name, double value) {
    method getParam (line 112) | public StringKeyedVector getParam() {
    method reScale (line 116) | public void reScale(double scale) {
    method setFreezeFeatureSet (line 120) | public void setFreezeFeatureSet(boolean freeze) {
    method merge (line 124) | public void merge(UpdateableLinearModel<L> model, double scaling) {
    method teardown (line 129) | public void teardown() {
    method truncate (line 136) | public void truncate(LabeledInstance<L> instance) {
    method applyTruncation (line 142) | public void applyTruncation(StringKeyedVector instance) {
    method getEpoch (line 162) | public long getEpoch() {
    method setEpoch (line 166) | public void setEpoch(long e) {
    method setTruncationPeriod (line 170) | public UpdateableLinearModel<L> setTruncationPeriod(int period) {
    method setTruncationThreshold (line 177) | public UpdateableLinearModel<L> setTruncationThreshold(double threshol...
    method setTruncationUpdate (line 184) | public UpdateableLinearModel<L> setTruncationUpdate(double update) {
    method compareTo (line 191) | @Override
    method thresholdParameters (line 196) | public void thresholdParameters(double t) {
    method explainPrediction (line 205) | public String explainPrediction(StringKeyedVector x) {
    method explainPrediction (line 209) | public String explainPrediction(StringKeyedVector x, int n) {

FILE: src/main/java/com/etsy/conjecture/model/UpdateableModel.java
  type UpdateableModel (line 8) | public interface UpdateableModel<L extends Label, M extends UpdateableMo...
    method update (line 11) | public void update(LabeledInstance<L> instance);
    method update (line 14) | public void update(Collection<LabeledInstance<L>> instances);
    method merge (line 17) | public void merge(M model, double weight);
    method reScale (line 20) | public void reScale(double scale);
    method setFreezeFeatureSet (line 23) | public void setFreezeFeatureSet(boolean freeze);
    method setEpoch (line 26) | public void setEpoch(long epoch);
    method getEpoch (line 28) | public long getEpoch();

FILE: src/main/java/com/etsy/conjecture/model/UpdateableMulticlassLinearModel.java
  class UpdateableMulticlassLinearModel (line 24) | public class UpdateableMulticlassLinearModel implements
    method UpdateableMulticlassLinearModel (line 37) | public UpdateableMulticlassLinearModel(Map<String, UpdateableLinearMod...
    method setArgString (line 43) | public void setArgString(String s) {
    method getArgString (line 47) | public String getArgString() {
    method setModelType (line 51) | public void setModelType(String modelType) {
    method getModelType (line 55) | public String getModelType() {
    method decompose (line 59) | public Iterator<Map.Entry<String, Double>> decompose() {
    method setParameter (line 63) | public void setParameter(String name, double value) {
    method reScale (line 67) | public void reScale(double scale) {
    method setFreezeFeatureSet (line 73) | public void setFreezeFeatureSet(boolean freeze) {
    method update (line 82) | public void update(Collection<LabeledInstance<MulticlassLabel>> instan...
    method update (line 91) | public void update(LabeledInstance<MulticlassLabel> instance) {
    method predict (line 102) | @Override
    method merge (line 120) | public void merge(UpdateableMulticlassLinearModel model, double scale) {
    method teardown (line 127) | public void teardown() {
    method getEpoch (line 133) | public long getEpoch() {
    method setEpoch (line 137) | public void setEpoch(long e) {
    method compareTo (line 142) | @Override
    method thresholdParameters (line 147) | public void thresholdParameters(double t) {
    method explainPrediction (line 158) | public String explainPrediction(StringKeyedVector x) {
    method explainPrediction (line 162) | public String explainPrediction(StringKeyedVector x, int n) {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDADenseTopics.java
  class LDADenseTopics (line 6) | public class LDADenseTopics implements LDATopics, Serializable {
    method LDADenseTopics (line 15) | public LDADenseTopics(double[][] topic_prob) {
    method setTopicProb (line 21) | public void setTopicProb(int topic, double[] prob) {
    method setDict (line 25) | public void setDict(LDADict dict_) throws Exception {
    method getDict (line 34) | public LDADict getDict() {
    method wordProb (line 38) | public double wordProb(int word, int topic) {
    method numTopics (line 42) | public int numTopics() {
    method dictSize (line 46) | public int dictSize() {
    method toString (line 50) | public String toString() {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDADict.java
  class LDADict (line 8) | public class LDADict implements Serializable {
    method LDADict (line 14) | public LDADict(Set<String> unique_words) {
    method word (line 23) | public String word(int index) {
    method index (line 27) | public int index(String word) {
    method size (line 31) | public int size() {
    method contains (line 35) | public boolean contains(String word) {
    method toString (line 39) | public String toString() {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDADoc.java
  class LDADoc (line 11) | public class LDADoc implements Serializable {
    method LDADoc (line 21) | public LDADoc(Map<String, Double> word_counts, LDADict dict) {
    method topicProportions (line 40) | public double[] topicProportions() {
    method wordCount (line 44) | public double wordCount() {
    method updateTopicProportions (line 48) | public void updateTopicProportions(LDATopics topics, double alpha) {
    method toPartialTopics (line 99) | public LDAPartialTopics toPartialTopics() throws Exception {
    method toPartialTopic (line 107) | public LDAPartialTopics toPartialTopic(int topic) throws Exception {
    method toPartialSparseTopics (line 119) | public LDAPartialSparseTopics toPartialSparseTopics(int n) throws Exce...

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDAPartialSparseTopics.java
  class LDAPartialSparseTopics (line 7) | public class LDAPartialSparseTopics implements Serializable {
    method LDAPartialSparseTopics (line 13) | public LDAPartialSparseTopics(int K, Map<Integer, Double> phi) {
    method merge (line 18) | public LDAPartialSparseTopics merge(LDAPartialSparseTopics rhs)
    method toTopics (line 37) | public LDASparseTopics toTopics() {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDAPartialTopics.java
  class LDAPartialTopics (line 5) | public class LDAPartialTopics implements Serializable {
    method LDAPartialTopics (line 11) | public LDAPartialTopics(int[] word_index, double[][] phi) {
    method countUniqueWords (line 16) | private int countUniqueWords(LDAPartialTopics rhs) {
    method merge (line 42) | public LDAPartialTopics merge(LDAPartialTopics rhs) throws Exception {
    method toString (line 100) | public String toString() {
    method toTopicVectors (line 112) | public double[][] toTopicVectors() {
    method toTopicVector (line 131) | public double[] toTopicVector() throws Exception {
    method toTopics (line 140) | public LDADenseTopics toTopics() {
    method main (line 144) | public static void main(String[] argv) throws Exception {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDARandomTopics.java
  class LDARandomTopics (line 6) | public class LDARandomTopics implements LDATopics, Serializable {
    method LDARandomTopics (line 14) | public LDARandomTopics(LDADict dict, int num_topics) {
    method wordProb (line 20) | public double wordProb(int word, int topic) {
    method numTopics (line 31) | public int numTopics() {
    method dictSize (line 35) | public int dictSize() {
    method getDict (line 39) | public LDADict getDict() {
    method setDict (line 43) | public void setDict(LDADict d) {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDASparseTopics.java
  class LDASparseTopics (line 6) | public class LDASparseTopics implements LDATopics, Serializable {
    method LDASparseTopics (line 13) | public LDASparseTopics(int K, Map<Integer, Double> prob) {
    method setDict (line 18) | public void setDict(LDADict dict_) {
    method getDict (line 22) | public LDADict getDict() {
    method wordProb (line 26) | public double wordProb(int word, int topic) {
    method numTopics (line 35) | public int numTopics() {
    method dictSize (line 39) | public int dictSize() {

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDATopics.java
  type LDATopics (line 5) | public interface LDATopics extends Serializable {
    method setDict (line 7) | public void setDict(LDADict dict) throws Exception;
    method getDict (line 9) | public LDADict getDict();
    method wordProb (line 11) | public double wordProb(int word, int topic);
    method numTopics (line 13) | public int numTopics();
    method dictSize (line 15) | public int dictSize();

FILE: src/main/java/com/etsy/conjecture/topics/lda/LDAUtils.java
  class LDAUtils (line 5) | public class LDAUtils implements Serializable {
    method digamma (line 9) | public static double digamma(double x) {
    method logSumExp (line 26) | public static double logSumExp(double a, double b) {

FILE: src/test/java/com/etsy/conjecture/data/LazyVectorTest.java
  class LazyVectorTest (line 20) | public class LazyVectorTest {
    method lazyUpdate (line 29) | public double lazyUpdate(String k, double p, long a, long b) {
    method buildLV (line 35) | public LazyVector buildLV() {
    method testCoordinates (line 48) | @Test
    method testCoordinatesLazy (line 62) | @Test
    method testAddScaledToSKV (line 82) | @Test
    method testAddScaledToLV (line 100) | @Test
    method testAddScaledToSelf (line 122) | @Test
    method testAddScaledSKVToLV (line 136) | @Test
    method testDotProduct (line 157) | @Test
    method testFreezing (line 171) | @Test
    method testJavaSerialization (line 187) | @Test
    method testKryoSerialization (line 213) | @Test
    method testGson (line 240) | @Test

FILE: src/test/java/com/etsy/conjecture/data/StringKeyedVectorTest.java
  class StringKeyedVectorTest (line 20) | public class StringKeyedVectorTest {
    method buildSKV (line 25) | public StringKeyedVector buildSKV() {
    method testCoordinates (line 38) | @Test
    method testAddScaled (line 52) | @Test
    method testDotProduct (line 68) | @Test
    method testFreezing (line 81) | @Test
    method testJavaSerialization (line 97) | @Test
    method testKryoSerialization (line 121) | @Test
    method testGson (line 147) | @Test

FILE: src/test/java/com/etsy/conjecture/evaluation/TestReceiverOperatingCharacteristic.java
  class TestReceiverOperatingCharacteristic (line 7) | public class TestReceiverOperatingCharacteristic {
    method testAUC (line 18) | @Test

FILE: src/test/java/com/etsy/conjecture/model/UpdateableLinearModelTest.java
  class UpdateableLinearModelTest (line 11) | public class UpdateableLinearModelTest {
    method getPositiveInstance (line 16) | BinaryLabeledInstance getPositiveInstance() {
    method getNegativeInstance (line 23) | BinaryLabeledInstance getNegativeInstance() {
    method testLogisticRegressionBasic (line 30) | @Test
    method testLogisticRegressionLaplaceRegularization (line 45) | @Test
    method testLogisticRegressionGaussianRegularization (line 66) | @Test
    method testPerceptronBasic (line 81) | @Test
    method testInstanceNotModified (line 96) | public void testInstanceNotModified(UpdateableLinearModel model) {
    method testInstanceNotModifiedByOptimizer (line 104) | @Test
    method testInstanceNotModifiedByModel (line 122) | @Test