int gapExtend = 20;
- float[][] lookup = ((ScoreMatrix) ScoreModels.getInstance().forName(
- ScoreModels.BLOSUM62)).getMatrix();
+ float[][] lookup = ScoreModels.getInstance().getBlosum62().getMatrix();
// ResidueProperties.getBLOSUM62();
.append(String.valueOf(s2str.length())).append(")")
.append(NEWLINE).append(NEWLINE);
- PairwiseSeqScoreModel pam250 = (PairwiseSeqScoreModel) ScoreModels
- .getInstance().forName(ScoreModels.PAM250);
+ PairwiseSeqScoreModel pam250 = ScoreModels.getInstance().getPam250();
for (int j = 0; j < nochunks; j++)
{