- /*for (int seq=0;seq<symm.rows;seq++)
- {
- ps.print("\"Seq"+seq+"\"");
- for (int ev=0;ev<symm.rows; ev++)
- {
-
- ps.print(","+component(seq, ev));
- }
- ps.println();
- }*/
+ /*
+ * for (int seq=0;seq<symm.rows;seq++) { ps.print("\"Seq"+seq+"\""); for
+ * (int ev=0;ev<symm.rows; ev++) {
+ *
+ * ps.print(","+component(seq, ev)); } ps.println(); }
+ */
+ // System.out.println(("PCA.run() took "
+ // + (System.currentTimeMillis() - now) + "ms"));
+ }
+
+ /**
+ * Answers the N dimensions of the NxN PCA matrix. This is the number of
+ * sequences involved in the pairwise score calculation.
+ *
+ * @return
+ */
+ public int getHeight()
+ {
+ // TODO can any of seqs[] be null?
+ return seqs.getSequences().length;