testing 1.13.0

[mothur.git] / trimseqscommand.cpp

diff --git a/trimseqscommand.cpp b/trimseqscommand.cpp
index e47e71d581d9a24f5b4c5ced4ac1875a94b1d269..320bc41f4816eccb8f4b0fb19cb92864e91055d2 100644 (file)
--- a/trimseqscommand.cpp
+++ b/trimseqscommand.cpp
@@ -428,10 +428,10 @@ int TrimSeqsCommand::driverCreateTrim(string filename, string qFileName, string
                vector<ofstream*> fastaFileNames;
                vector<ofstream*> qualFileNames;
                
-       cout << "here" << endl; 
                if (oligoFile != "") {          
                        m->openOutputFile(groupFile, outGroups);   
                        for (int i = 0; i < fastaNames.size(); i++) {
+
                        #if defined (__APPLE__) || (__MACH__) || (linux) || (__linux)
                                fastaFileNames.push_back(new ofstream((fastaNames[i] + toString(getpid()) + ".temp").c_str(), ios::ate)); 
                                if(qFileName != ""){
@@ -445,17 +445,17 @@ int TrimSeqsCommand::driverCreateTrim(string filename, string qFileName, string
                        #endif
                        }
                }
-cout << "here " << filename << endl;           
+               
                ifstream inFASTA;
                m->openInputFile(filename, inFASTA);
                inFASTA.seekg(line->start);
-       cout << "here " << qFileName << endl;   
+               
                ifstream qFile;
                if(qFileName != "")     {       m->openInputFile(qFileName, qFile);     qFile.seekg(qline->start);  }
                
                bool done = false;
                int count = 0;
-       cout << "here" << endl;
+       
                while (!done) {
                                
                        if (m->control_pressed) {