some changes while testing 1.9

[mothur.git] / chimeracheckcommand.cpp

diff --git a/chimeracheckcommand.cpp b/chimeracheckcommand.cpp
index ba5e5be5fafaf958c02b2dd2421eac9637f51c41..d80cce65cfe21703d9b57f94133040685b2fca76 100644 (file)
--- a/chimeracheckcommand.cpp
+++ b/chimeracheckcommand.cpp
@@ -294,7 +294,7 @@ int ChimeraCheckCommand::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));