// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
package org.forester.application;
step = 1;
}
final double id_ratios[] = new double[ msa.getLength() ];
- for( int i = 0; i <= msa.getLength() - 1; ++i ) {
+ for( int i = 0; i <= ( msa.getLength() - 1 ); ++i ) {
id_ratios[ i ] = MsaMethods.calculateIdentityRatio( msa, i );
}
String min_pos = "";
String max_pos = "";
double min = 1;
double max = 0;
- for( int i = 0; i <= msa.getLength() - 1; i += step ) {
- int to = i + window - 1;
+ for( int i = 0; i <= ( msa.getLength() - 1 ); i += step ) {
+ int to = ( i + window ) - 1;
if ( to > ( msa.getLength() - 1 ) ) {
to = msa.getLength() - 1;
}