- divs[k].chimeraMax = max(divs[k].qla_qrb, divs[k].qlb_qra);
-
- //so results reflect orignal alignment
- divs[k].winLStart = spots[divs[k].winLStart];
- divs[k].winLEnd = spots[divs[k].winLEnd];
- divs[k].winRStart = spots[divs[k].winRStart];
- divs[k].winREnd = spots[divs[k].winREnd];
+ //are we within 10 points of the bootstrap cutoff?
+// if ((divs[k].bsMax >= (minBS-10)) && (iters < 1000)) {
+// bootstrapSNPS(snpsLeft, snpsRight, BS_A, BS_B, 1000);
+//
+// if (m->control_pressed) { delete q; delete leftParent; delete rightParent; return "no"; }
+//
+// divs[k].bsa = BS_A;
+// divs[k].bsb = BS_B;
+// divs[k].bsMax = max(BS_A, BS_B);
+// divs[k].chimeraMax = max(divs[k].qla_qrb, divs[k].qlb_qra);
+// }
+
+ //so results reflect orignal alignment
+ divs[k].winLStart = spots[divs[k].winLStart];
+ divs[k].winLEnd = spots[divs[k].winLEnd];
+ divs[k].winRStart = spots[divs[k].winRStart];
+ divs[k].winREnd = spots[divs[k].winREnd];