some changes while testing 1.9

[mothur.git] / chimeraccodecommand.cpp

diff --git a/chimeraccodecommand.cpp b/chimeraccodecommand.cpp
index 748163e04d447258b3a1e0ecfe62ea70ef382801..a18fd4fee9cb20b40cc04bcead6924234f32467b 100644 (file)
--- a/chimeraccodecommand.cpp
+++ b/chimeraccodecommand.cpp
@@ -371,7 +371,7 @@ int ChimeraCcodeCommand::execute(){
 
                #else
                        ifstream inFASTA;
-                       openInputFile(candidateFileNames[s], inFASTA);
+                       openInputFile(fastafile, inFASTA);
                        numSeqs=count(istreambuf_iterator<char>(inFASTA),istreambuf_iterator<char>(), '>');
                        inFASTA.close();
                        lines.push_back(new linePair(0, numSeqs));