X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=chimera.cpp;fp=chimera.cpp;h=3ab95892b9df8d1ad9692c2bca8b413412d3e0e5;hb=1f78a8c454a636f19b4711bd52782ea1e3e81d3d;hp=483e5530b094ce011a1e8894a6160a9ea60f2361;hpb=8ab46c171b45ae3782d839539792d049017a361b;p=mothur.git

diff --git a/chimera.cpp b/chimera.cpp
index 483e553..3ab9589 100644
--- a/chimera.cpp
+++ b/chimera.cpp
@@ -31,6 +31,8 @@ string Chimera::createFilter(vector<Sequence*> seqs, float t) {
 			if (m->control_pressed) { return filterString; }
 		
 			string seqAligned = seqs[i]->getAligned();
+			
+			if (seqAligned.length() != filterString.length()) {  m->mothurOut(seqs[i]->getName() + " is not the same length as the template sequences. Aborting!\n");  exit(1); }
 		
 			for (int j = 0; j < seqAligned.length(); j++) {
 				//if this spot is a gap