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org.maltparserx.ml.lib.Lib Maven / Gradle / Ivy
package org.maltparserx.ml.lib;
import java.io.BufferedOutputStream;
import java.io.BufferedReader;
import java.io.BufferedWriter;
import java.io.File;
import java.io.FileNotFoundException;
import java.io.FileOutputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.io.ObjectInputStream;
import java.io.ObjectOutputStream;
import java.io.OutputStream;
import java.io.OutputStreamWriter;
import java.util.ArrayList;
import org.apache.log4j.Logger;
import java.util.LinkedHashMap;
import java.util.Set;
import java.util.jar.JarEntry;
import java.util.regex.Pattern;
import java.util.regex.PatternSyntaxException;
import org.maltparserx.core.exception.MaltChainedException;
import org.maltparserx.core.feature.FeatureVector;
import org.maltparserx.core.feature.function.FeatureFunction;
import org.maltparserx.core.feature.value.FeatureValue;
import org.maltparserx.core.feature.value.MultipleFeatureValue;
import org.maltparserx.core.feature.value.SingleFeatureValue;
import org.maltparserx.core.syntaxgraph.DependencyStructure;
import org.maltparserx.ml.LearningMethod;
import org.maltparserx.parser.DependencyParserConfig;
import org.maltparserx.parser.guide.instance.InstanceModel;
import org.maltparserx.parser.history.action.SingleDecision;
public abstract class Lib implements LearningMethod {
protected Verbostity verbosity;
public enum Verbostity {
SILENT, ERROR, ALL
}
protected InstanceModel owner;
protected int learnerMode;
protected String name;
protected int numberOfInstances;
protected boolean saveInstanceFiles;
protected boolean excludeNullValues;
protected BufferedWriter instanceOutput = null;
protected FeatureMap featureMap;
protected String paramString;
protected String pathExternalTrain;
protected LinkedHashMap libOptions;
protected String allowedLibOptionFlags;
protected Logger configLogger;
protected final Pattern tabPattern = Pattern.compile("\t");
protected final Pattern pipePattern = Pattern.compile("\\|");
private final StringBuilder sb = new StringBuilder();
protected MaltLibModel model = null;
/**
* Constructs a Lib learner.
*
* @param owner the guide model owner
* @param learnerMode the mode of the learner BATCH or CLASSIFY
*/
public Lib(InstanceModel owner, Integer learnerMode, String learningMethodName) throws MaltChainedException {
setOwner(owner);
setLearnerMode(learnerMode.intValue());
setNumberOfInstances(0);
setLearningMethodName(learningMethodName);
verbosity = Verbostity.SILENT;
configLogger = owner.getGuide().getConfiguration().getConfigLogger();
initLibOptions();
initAllowedLibOptionFlags();
parseParameters(getConfiguration().getOptionValue("lib", "options").toString());
initSpecialParameters();
if (learnerMode == BATCH) {
featureMap = new FeatureMap();
instanceOutput = new BufferedWriter(getInstanceOutputStreamWriter(".ins"));
} else if (learnerMode == CLASSIFY) {
featureMap = loadFeatureMap(getInputStreamFromConfigFileEntry(".map"));
}
}
public void addInstance(SingleDecision decision, FeatureVector featureVector) throws MaltChainedException {
if (featureVector == null) {
throw new LibException("The feature vector cannot be found");
} else if (decision == null) {
throw new LibException("The decision cannot be found");
}
try {
sb.append(decision.getDecisionCode()+"\t");
final int n = featureVector.size();
for (int i = 0; i < n; i++) {
FeatureValue featureValue = featureVector.getFeatureValue(i);
if (featureValue == null || (excludeNullValues == true && featureValue.isNullValue())) {
sb.append("-1");
} else {
if (!featureValue.isMultiple()) {
SingleFeatureValue singleFeatureValue = (SingleFeatureValue)featureValue;
if (singleFeatureValue.getValue() == 1) {
sb.append(singleFeatureValue.getIndexCode());
} else if (singleFeatureValue.getValue() == 0) {
sb.append("-1");
} else {
sb.append(singleFeatureValue.getIndexCode());
sb.append(":");
sb.append(singleFeatureValue.getValue());
}
} else { //if (featureValue instanceof MultipleFeatureValue) {
Set values = ((MultipleFeatureValue)featureValue).getCodes();
int j=0;
for (Integer value : values) {
sb.append(value.toString());
if (j != values.size()-1) {
sb.append("|");
}
j++;
}
}
// else {
// throw new LibException("Don't recognize the type of feature value: "+featureValue.getClass());
// }
}
sb.append('\t');
}
sb.append('\n');
instanceOutput.write(sb.toString());
instanceOutput.flush();
increaseNumberOfInstances();
sb.setLength(0);
} catch (IOException e) {
throw new LibException("The learner cannot write to the instance file. ", e);
}
}
public void finalizeSentence(DependencyStructure dependencyGraph) throws MaltChainedException { }
public void moveAllInstances(LearningMethod method,
FeatureFunction divideFeature,
ArrayList divideFeatureIndexVector)
throws MaltChainedException {
if (method == null) {
throw new LibException("The learning method cannot be found. ");
} else if (divideFeature == null) {
throw new LibException("The divide feature cannot be found. ");
}
try {
final BufferedReader in = new BufferedReader(getInstanceInputStreamReader(".ins"));
final BufferedWriter out = method.getInstanceWriter();
final StringBuilder sb = new StringBuilder(6);
int l = in.read();
char c;
int j = 0;
while(true) {
if (l == -1) {
sb.setLength(0);
break;
}
c = (char)l;
l = in.read();
if (c == '\t') {
if (divideFeatureIndexVector.contains(j-1)) {
out.write(Integer.toString(((SingleFeatureValue)divideFeature.getFeatureValue()).getIndexCode()));
out.write('\t');
}
out.write(sb.toString());
j++;
out.write('\t');
sb.setLength(0);
} else if (c == '\n') {
out.write(sb.toString());
if (divideFeatureIndexVector.contains(j-1)) {
out.write('\t');
out.write(Integer.toString(((SingleFeatureValue)divideFeature.getFeatureValue()).getIndexCode()));
}
out.write('\n');
sb.setLength(0);
method.increaseNumberOfInstances();
this.decreaseNumberOfInstances();
j = 0;
} else {
sb.append(c);
}
}
in.close();
getFile(".ins").delete();
out.flush();
} catch (SecurityException e) {
throw new LibException("The learner cannot remove the instance file. ", e);
} catch (NullPointerException e) {
throw new LibException("The instance file cannot be found. ", e);
} catch (FileNotFoundException e) {
throw new LibException("The instance file cannot be found. ", e);
} catch (IOException e) {
throw new LibException("The learner read from the instance file. ", e);
}
}
public void noMoreInstances() throws MaltChainedException {
closeInstanceWriter();
}
public boolean predict(FeatureVector featureVector, SingleDecision decision) throws MaltChainedException {
// if (featureVector == null) {
// throw new LibException("The learner cannot predict the next class, because the feature vector cannot be found. ");
// }
final FeatureList featureList = new FeatureList();
final int size = featureVector.size();
for (int i = 1; i <= size; i++) {
final FeatureValue featureValue = featureVector.getFeatureValue(i-1);
if (featureValue != null && !(excludeNullValues == true && featureValue.isNullValue())) {
if (!featureValue.isMultiple()) {
SingleFeatureValue singleFeatureValue = (SingleFeatureValue)featureValue;
final int index = featureMap.getIndex(i, singleFeatureValue.getIndexCode());
if (index != -1 && singleFeatureValue.getValue() != 0) {
featureList.add(index,singleFeatureValue.getValue());
}
}
else { //if (featureValue instanceof MultipleFeatureValue) {
for (Integer value : ((MultipleFeatureValue)featureValue).getCodes()) {
final int v = featureMap.getIndex(i, value);
if (v != -1) {
featureList.add(v,1);
}
}
}
}
}
try {
decision.getKBestList().addList(model.predict(featureList.toArray()));
} catch (OutOfMemoryError e) {
throw new LibException("Out of memory. Please increase the Java heap size (-Xmx). ", e);
}
return true;
}
// protected abstract int[] prediction(FeatureList featureList) throws MaltChainedException;
public void train(FeatureVector featureVector) throws MaltChainedException {
if (featureVector == null) {
throw new LibException("The feature vector cannot be found. ");
} else if (owner == null) {
throw new LibException("The parent guide model cannot be found. ");
}
long startTime = System.currentTimeMillis();
// if (configLogger.isInfoEnabled()) {
// configLogger.info("\nStart training\n");
// }
if (pathExternalTrain != null) {
trainExternal(featureVector);
} else {
trainInternal(featureVector);
}
// long elapsed = System.currentTimeMillis() - startTime;
// if (configLogger.isInfoEnabled()) {
// configLogger.info("Time 1: " +new Formatter().format("%02d:%02d:%02d", elapsed/3600000, elapsed%3600000/60000, elapsed%60000/1000)+" ("+elapsed+" ms)\n");
// }
try {
// if (configLogger.isInfoEnabled()) {
// configLogger.info("\nSaving feature map "+getFile(".map").getName()+"\n");
// }
saveFeatureMap(new BufferedOutputStream(new FileOutputStream(getFile(".map").getAbsolutePath())), featureMap);
} catch (FileNotFoundException e) {
throw new LibException("The learner cannot save the feature map file '"+getFile(".map").getAbsolutePath()+"'. ", e);
}
// elapsed = System.currentTimeMillis() - startTime;
// if (configLogger.isInfoEnabled()) {
// configLogger.info("Time 2: " +new Formatter().format("%02d:%02d:%02d", elapsed/3600000, elapsed%3600000/60000, elapsed%60000/1000)+" ("+elapsed+" ms)\n");
// }
}
protected abstract void trainExternal(FeatureVector featureVector) throws MaltChainedException;
protected abstract void trainInternal(FeatureVector featureVector) throws MaltChainedException;
public void terminate() throws MaltChainedException {
closeInstanceWriter();
owner = null;
model = null;
}
public BufferedWriter getInstanceWriter() {
return instanceOutput;
}
protected void closeInstanceWriter() throws MaltChainedException {
try {
if (instanceOutput != null) {
instanceOutput.flush();
instanceOutput.close();
instanceOutput = null;
}
} catch (IOException e) {
throw new LibException("The learner cannot close the instance file. ", e);
}
}
/**
* Returns the parameter string used for configure the learner
*
* @return the parameter string used for configure the learner
*/
public String getParamString() {
return paramString;
}
public InstanceModel getOwner() {
return owner;
}
protected void setOwner(InstanceModel owner) {
this.owner = owner;
}
public int getLearnerMode() {
return learnerMode;
}
public void setLearnerMode(int learnerMode) throws MaltChainedException {
this.learnerMode = learnerMode;
}
public String getLearningMethodName() {
return name;
}
/**
* Returns the current configuration
*
* @return the current configuration
* @throws MaltChainedException
*/
public DependencyParserConfig getConfiguration() throws MaltChainedException {
return owner.getGuide().getConfiguration();
}
public int getNumberOfInstances() throws MaltChainedException {
if(numberOfInstances!=0)
return numberOfInstances;
else{
BufferedReader reader = new BufferedReader( getInstanceInputStreamReader(".ins"));
try {
while(reader.readLine()!=null){
numberOfInstances++;
owner.increaseFrequency();
}
reader.close();
} catch (IOException e) {
throw new MaltChainedException("No instances found in file",e);
}
return numberOfInstances;
}
}
public void increaseNumberOfInstances() {
numberOfInstances++;
owner.increaseFrequency();
}
public void decreaseNumberOfInstances() {
numberOfInstances--;
owner.decreaseFrequency();
}
protected void setNumberOfInstances(int numberOfInstances) {
this.numberOfInstances = 0;
}
protected void setLearningMethodName(String name) {
this.name = name;
}
public String getPathExternalTrain() {
return pathExternalTrain;
}
public void setPathExternalTrain(String pathExternalTrain) {
this.pathExternalTrain = pathExternalTrain;
}
protected OutputStreamWriter getInstanceOutputStreamWriter(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getAppendOutputStreamWriter(owner.getModelName()+getLearningMethodName()+suffix);
}
protected InputStreamReader getInstanceInputStreamReader(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getInputStreamReader(owner.getModelName()+getLearningMethodName()+suffix);
}
protected InputStreamReader getInstanceInputStreamReaderFromConfigFile(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getInputStreamReaderFromConfigFile(owner.getModelName()+getLearningMethodName()+suffix);
}
protected InputStream getInputStreamFromConfigFileEntry(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getInputStreamFromConfigFileEntry(owner.getModelName()+getLearningMethodName()+suffix);
}
protected File getFile(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getFile(owner.getModelName()+getLearningMethodName()+suffix);
}
protected JarEntry getConfigFileEntry(String suffix) throws MaltChainedException {
return getConfiguration().getConfigurationDir().getConfigFileEntry(owner.getModelName()+getLearningMethodName()+suffix);
}
protected void initSpecialParameters() throws MaltChainedException {
if (getConfiguration().getOptionValue("singlemalt", "null_value") != null && getConfiguration().getOptionValue("singlemalt", "null_value").toString().equalsIgnoreCase("none")) {
excludeNullValues = true;
} else {
excludeNullValues = false;
}
saveInstanceFiles = ((Boolean)getConfiguration().getOptionValue("lib", "save_instance_files")).booleanValue();
if (!getConfiguration().getOptionValue("lib", "external").toString().equals("")) {
String path = getConfiguration().getOptionValue("lib", "external").toString();
try {
if (!new File(path).exists()) {
throw new LibException("The path to the external trainer 'svm-train' is wrong.");
}
if (new File(path).isDirectory()) {
throw new LibException("The option --lib-external points to a directory, the path should point at the 'train' file or the 'train.exe' file in the libsvm or the liblinear package");
}
if (!(path.endsWith("train") ||path.endsWith("train.exe"))) {
throw new LibException("The option --lib-external does not specify the path to 'train' file or the 'train.exe' file in the libsvm or the liblinear package. ");
}
setPathExternalTrain(path);
} catch (SecurityException e) {
throw new LibException("Access denied to the file specified by the option --lib-external. ", e);
}
}
if (getConfiguration().getOptionValue("lib", "verbosity") != null) {
verbosity = Verbostity.valueOf(getConfiguration().getOptionValue("lib", "verbosity").toString().toUpperCase());
}
}
public String getLibOptions() {
final StringBuilder sb = new StringBuilder();
for (String key : libOptions.keySet()) {
sb.append('-');
sb.append(key);
sb.append(' ');
sb.append(libOptions.get(key));
sb.append(' ');
}
return sb.toString();
}
public String[] getLibParamStringArray() {
final ArrayList params = new ArrayList();
for (String key : libOptions.keySet()) {
params.add("-"+key); params.add(libOptions.get(key));
}
return params.toArray(new String[params.size()]);
}
public abstract void initLibOptions();
public abstract void initAllowedLibOptionFlags();
public void parseParameters(String paramstring) throws MaltChainedException {
if (paramstring == null) {
return;
}
final String[] argv;
try {
argv = paramstring.split("[_\\p{Blank}]");
} catch (PatternSyntaxException e) {
throw new LibException("Could not split the parameter string '"+paramstring+"'. ", e);
}
for (int i=0; i < argv.length-1; i++) {
if(argv[i].charAt(0) != '-') {
throw new LibException("The argument flag should start with the following character '-', not with "+argv[i].charAt(0));
}
if(++i>=argv.length) {
throw new LibException("The last argument does not have any value. ");
}
try {
int index = allowedLibOptionFlags.indexOf(argv[i-1].charAt(1));
if (index != -1) {
libOptions.put(Character.toString(argv[i-1].charAt(1)), argv[i]);
} else {
throw new LibException("Unknown learner parameter: '"+argv[i-1]+"' with value '"+argv[i]+"'. ");
}
} catch (ArrayIndexOutOfBoundsException e) {
throw new LibException("The learner parameter '"+argv[i-1]+"' could not convert the string value '"+argv[i]+"' into a correct numeric value. ", e);
} catch (NumberFormatException e) {
throw new LibException("The learner parameter '"+argv[i-1]+"' could not convert the string value '"+argv[i]+"' into a correct numeric value. ", e);
} catch (NullPointerException e) {
throw new LibException("The learner parameter '"+argv[i-1]+"' could not convert the string value '"+argv[i]+"' into a correct numeric value. ", e);
}
}
}
protected void finalize() throws Throwable {
try {
closeInstanceWriter();
} finally {
super.finalize();
}
}
public String toString() {
final StringBuffer sb = new StringBuffer();
sb.append("\n"+getLearningMethodName()+" INTERFACE\n");
sb.append(getLibOptions());
return sb.toString();
}
protected int binariesInstance(String line, FeatureList featureList) throws MaltChainedException {
int y = -1;
featureList.clear();
try {
String[] columns = tabPattern.split(line);
if (columns.length == 0) {
return -1;
}
try {
y = Integer.parseInt(columns[0]);
} catch (NumberFormatException e) {
throw new LibException("The instance file contain a non-integer value '"+columns[0]+"'", e);
}
for(int j = 1; j < columns.length; j++) {
final String[] items = pipePattern.split(columns[j]);
for (int k = 0; k < items.length; k++) {
try {
int colon = items[k].indexOf(':');
if (colon == -1) {
if (Integer.parseInt(items[k]) != -1) {
int v = featureMap.addIndex(j, Integer.parseInt(items[k]));
if (v != -1) {
featureList.add(v,1);
}
}
} else {
int index = featureMap.addIndex(j, Integer.parseInt(items[k].substring(0,colon)));
double value;
if (items[k].substring(colon+1).indexOf('.') != -1) {
value = Double.parseDouble(items[k].substring(colon+1));
} else {
value = Integer.parseInt(items[k].substring(colon+1));
}
featureList.add(index,value);
}
} catch (NumberFormatException e) {
throw new LibException("The instance file contain a non-numeric value '"+items[k]+"'", e);
}
}
}
} catch (ArrayIndexOutOfBoundsException e) {
throw new LibException("Couln't read from the instance file. ", e);
}
return y;
}
protected void binariesInstances2SVMFileFormat(InputStreamReader isr, OutputStreamWriter osw) throws MaltChainedException {
try {
final BufferedReader in = new BufferedReader(isr);
final BufferedWriter out = new BufferedWriter(osw);
final FeatureList featureSet = new FeatureList();
while(true) {
String line = in.readLine();
if(line == null) break;
int y = binariesInstance(line, featureSet);
if (y == -1) {
continue;
}
out.write(Integer.toString(y));
for (int k=0; k < featureSet.size(); k++) {
MaltFeatureNode x = featureSet.get(k);
out.write(' ');
out.write(Integer.toString(x.getIndex()));
out.write(':');
out.write(Double.toString(x.getValue()));
}
out.write('\n');
}
in.close();
out.close();
} catch (NumberFormatException e) {
throw new LibException("The instance file contain a non-numeric value", e);
} catch (IOException e) {
throw new LibException("Couln't read from the instance file, when converting the Malt instances into LIBSV/LIBLINEAR format. ", e);
}
}
protected void saveFeatureMap(OutputStream os, FeatureMap map) throws MaltChainedException {
try {
ObjectOutputStream output = new ObjectOutputStream(os);
try{
output.writeObject(map);
}
finally{
output.close();
}
} catch (IOException e) {
throw new LibException("Save feature map error", e);
}
}
protected FeatureMap loadFeatureMap(InputStream is) throws MaltChainedException {
FeatureMap map = new FeatureMap();
try {
ObjectInputStream input = new ObjectInputStream(is);
try {
map = (FeatureMap)input.readObject();
} finally {
input.close();
}
} catch (ClassNotFoundException e) {
throw new LibException("Load feature map error", e);
} catch (IOException e) {
throw new LibException("Load feature map error", e);
}
return map;
}
}
