+
+ /*
+ * count symbols, excluding any HMM consensus sequences
+ */
+ ResidueCount counts = new ResidueCount();
+ List<SequenceI> seqs = sc.getSequences();
+ for (SequenceI seq : seqs)
+ {
+ if (!seq.hasHMMProfile())
+ {
+ for (char c : seq.getSequence())
+ {
+ counts.add(c);
+ }
+ }
+ }