rewrote metastats command in c++, added mothurRemove function to handle ~ error....

[mothur.git] / chopseqscommand.cpp

diff --git a/chopseqscommand.cpp b/chopseqscommand.cpp
index fc4327f210d04241b5c1e7a6056759525998c738..e2b0fa46fc28bb6fd6be1af8a085e409a9a8b4df 100644 (file)
--- a/chopseqscommand.cpp
+++ b/chopseqscommand.cpp
@@ -165,7 +165,7 @@ int ChopSeqsCommand::execute(){
                        
                        Sequence seq(in);
                        
-                       if (m->control_pressed) { outputTypes.clear(); in.close(); out.close(); outAcc.close(); remove(outputFileName.c_str()); remove(outputFileNameAccnos.c_str()); return 0;  }
+                       if (m->control_pressed) { outputTypes.clear(); in.close(); out.close(); outAcc.close(); m->mothurRemove(outputFileName); m->mothurRemove(outputFileNameAccnos); return 0;  }
                        
                        if (seq.getName() != "") {
                                string newSeqString = getChopped(seq);
@@ -188,7 +188,7 @@ int ChopSeqsCommand::execute(){
                m->mothurOut(outputFileName); m->mothurOutEndLine();    outputNames.push_back(outputFileName); outputTypes["fasta"].push_back(outputFileName);
                
                if (wroteAccnos) { m->mothurOut(outputFileNameAccnos); m->mothurOutEndLine(); outputNames.push_back(outputFileNameAccnos); outputTypes["accnos"].push_back(outputFileNameAccnos); }
-               else {  remove(outputFileNameAccnos.c_str());  }
+               else {  m->mothurRemove(outputFileNameAccnos);  }
                
                m->mothurOutEndLine();