本文整理汇总了Java中beast.core.parameter.IntegerParameter.getValues方法的典型用法代码示例。如果您正苦于以下问题：Java IntegerParameter.getValues方法的具体用法？Java IntegerParameter.getValues怎么用？Java IntegerParameter.getValues使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类beast.core.parameter.IntegerParameter的用法示例。
在下文中一共展示了IntegerParameter.getValues方法的5个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Java代码示例。
示例1: proposal
import beast.core.parameter.IntegerParameter; //导入方法依赖的package包/类
@Override
public double proposal() {
final IntegerParameter treeRates = treeRatesInput.get();
final Integer[] treeRatesArray = treeRates.getValues();
final int[] cycle = chooseK(nNodes);
final int lastNodeNumber = cycle[discreteK - 1];
int previousRate = treeRatesArray[lastNodeNumber];
for (int i = 0; i < discreteK; i++) {
final int nodeNumber = cycle[i];
treeRates.setValue(nodeNumber, previousRate);
previousRate = treeRatesArray[nodeNumber];
}
return 0.0;
}
示例2: initAndValidate
import beast.core.parameter.IntegerParameter; //导入方法依赖的package包/类
@Override
public void initAndValidate() {
try {
maxIndex = parametersInput.get().getDimension();
} catch (NullPointerException e) {
throw new IllegalArgumentException("parameters was left unspecified");
}
if (entryInput.get() == null) {
Integer[] build_entries = new Integer[maxIndex];
for (int i=0; i<maxIndex; ++i) {
build_entries[i] = i;
}
entries = new IntegerParameter(build_entries);
} else {
entries = entryInput.get();
for (Integer entry : entries.getValues()) {
if (entry > groupingsInput.get().getDimension()) {
throw new RuntimeException(
"entries must be valid index of groupings");
}
}
}
// Array-like RealParameters do not implement java.lang.iterable, so we
// must do the iteration by hand.
for (int groupIndex = groupingsInput.get().getDimension() - 1; groupIndex >= 0; --groupIndex) {
if (groupingsInput.get().getNativeValue(groupIndex) >= maxIndex) {
throw new RuntimeException(
"All entries in groupings must be valid indices of parameters");
}
}
// value = parametersInput[groupingsInput[entry]]
}
示例3: testIntegerParameterBound
import beast.core.parameter.IntegerParameter; //导入方法依赖的package包/类
public void testIntegerParameterBound() {
try {
count = new int[dimension][4]; // 4 vaules {0, 1, 2, 3}
IntegerParameter parameter = new IntegerParameter(new Integer[]{1, 0, 3});
parameter.setLower(0);
parameter.setUpper(3);
State state = new State();
state.initByName("stateNode", parameter);
state.initialise();
UniformOperator uniformOperator = new UniformOperator();
uniformOperator.initByName("parameter", parameter, "howMany", 3, "weight", 1.0);
for (int i = 0; i < 400; i++) {
uniformOperator.proposal();
Integer [] values = parameter.getValues();
for (int k = 0; k < values.length; k++) {
int j = values[k];
count[k][j] += 1;
}
}
System.out.println("Integer distributions lower = 0, upper = 3");
for (int j = 0; j < count.length; j++) {
System.out.println("x[" +j + "] = " + Arrays.toString(count[j]));
}
assertTrue("Expected count[0][0-3] > 0", count[0][0] > 0 && count[0][1] > 0 && count[0][2] > 0 && count[0][3] > 0);
assertTrue("Expected count[1][0-3] > 0", count[1][0] > 0 && count[1][1] > 0 && count[1][2] > 0 && count[1][3] > 0);
assertTrue("Expected count[2][0-3] > 0", count[2][0] > 0 && count[2][1] > 0 && count[2][2] > 0 && count[2][3] > 0);
} catch (Exception e) {
e.printStackTrace();
}
}
示例4: instantiate
import beast.core.parameter.IntegerParameter; //导入方法依赖的package包/类
public void instantiate(int dimension, int upper, int runs, Integer[]windowSizes) {
for (int r = 0; r < runs; r++) {
for (Integer windowSize : windowSizes) {
try {
int[][] count = new int[dimension][upper + 1];
Integer [] init = new Integer[dimension];
Arrays.fill(init, 0);
IntegerParameter parameter = new IntegerParameter(init);
parameter.setLower(0);
parameter.setUpper(upper);
State state = new State();
state.initByName("stateNode", parameter);
state.initialise();
IntRandomWalkOperator operator = new IntRandomWalkOperator();
operator.initByName("parameter", parameter, "windowSize", windowSize, "weight", 1.0);
for (int i = 0; i < 1000000 * (upper + 1); i++) {
operator.proposal();
Integer [] values = parameter.getValues();
for (int k = 0; k < values.length; k++) {
int j = values[k];
count[k][j] += 1;
}
}
System.out.print("Distribution lower = 0, upper = " + upper +" windowSize = " + windowSize);
for (int j = 0; j < count.length; j++) {
//System.out.println("x[" +j + "] = " + Arrays.toString(count[j]));
}
int sum = 0;
for (int i = 0; i < dimension; i++) {
for (int k = 0; k < count[i].length; k++) {
sum += Math.abs(count[i][k] - 1000000);
}
}
System.out.println(" Average deviation: " + sum/(dimension * (upper + 1)));
assertTrue("average deviation (" + sum/(dimension * (upper + 1)) + ") exceeds 10000", sum/(dimension * (upper + 1)) < 10000);
} catch (Exception e) {
e.printStackTrace();
}
}
}
}
示例5: initAndValidate
import beast.core.parameter.IntegerParameter; //导入方法依赖的package包/类
public void initAndValidate() {
//setup weights
if(patternWeightInput.get() == null){
patternWeights = dataInput.get().getWeights();
}else{
IntegerParameter weightsParameter = patternWeightInput.get();
Integer[] tempPatternWeights = weightsParameter.getValues();
patternWeights = new int [tempPatternWeights.length];
for(int i = 0; i < tempPatternWeights.length;i++){
patternWeights[i] = tempPatternWeights[i];
}
}
storedPatternWeights = new int[patternWeights.length];
super.initAndValidate();
}