/*
* Copyright 2015 MiLaboratory.com
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
package com.milaboratory.core.alignment;
import java.io.IOException;
import java.io.InputStream;
import static com.milaboratory.core.alignment.ScoringMatrixIO.readAABlastMatrix;
/**
* BLASTMatrix - enum of available BLAST AminoAcid substitution matrices
*/
public enum BLASTMatrix implements java.io.Serializable {
BLOSUM45, BLOSUM50, BLOSUM62, BLOSUM80, BLOSUM90, PAM30, PAM70, PAM250;
private volatile int[] iMatrix = null, matrix = null;
public int[] getMatrix() {
if (matrix == null) {
synchronized (this) {
if (matrix == null) {
try (InputStream stream = BLASTMatrix.class.getClassLoader().getResourceAsStream("matrices/" + this.name())) {
matrix = readAABlastMatrix(stream);
} catch (IOException e) {
throw new RuntimeException(e);
}
}
}
}
return matrix;
}
}