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Merge branch 'develop' into bug/JAL-2346annotationChoice
[jalview.git]
/
src
/
jalview
/
datamodel
/
BinarySequence.java
diff --git
a/src/jalview/datamodel/BinarySequence.java
b/src/jalview/datamodel/BinarySequence.java
index
ed57dce
..
62ee974
100755
(executable)
--- a/
src/jalview/datamodel/BinarySequence.java
+++ b/
src/jalview/datamodel/BinarySequence.java
@@
-69,13
+69,9
@@
public class BinarySequence extends Sequence
{
int nores = (isNa) ? ResidueProperties.maxNucleotideIndex
: ResidueProperties.maxProteinIndex;
{
int nores = (isNa) ? ResidueProperties.maxNucleotideIndex
: ResidueProperties.maxProteinIndex;
- // Set all matrix to 0
+
dbinary = new double[getSequence().length * nores];
dbinary = new double[getSequence().length * nores];
- for (int i = 0; i < dbinary.length; i++)
- {
- dbinary[i] = 0.0;
- }
return nores;
}
return nores;
}
@@
-134,14
+130,8
@@
public class BinarySequence extends Sequence
private void matrixEncode(final int[] aaIndex, final int[][] matrix)
{
private void matrixEncode(final int[] aaIndex, final int[][] matrix)
{
- // Set all matrix to 0
- // dbinary = new double[getSequence().length * 21];
-
int nores = initMatrixGetNoRes();
int nores = initMatrixGetNoRes();
- // for (int i = 0; i < dbinary.length; i++) {
- // dbinary[i] = 0.0;
- // }
for (int i = 0, iSize = getSequence().length; i < iSize; i++)
{
int aanum = nores - 1;
for (int i = 0, iSize = getSequence().length; i < iSize; i++)
{
int aanum = nores - 1;