public void splitIndex(String name, String seq) {
int start = 0;
boolean go = true;
while (go) {
int end = start + numberOfBases;
if (end >= seq.length()) {
end = seq.length();
go = false;
}
String subSeq = seq.substring(start, end);
File binarySeq = new File(indexDirectory, name + "_" + start + "-" + (end - 1));
if (binarySeq.exists()) {
System.out.println("WARNING, " + binarySeq + " already exists, skipping!");
return;
}
Seq.writeBinarySequence(subSeq, binarySeq);
start = end;
}
}
