added set.dir command and modified commands to redirect input and output, removed...

[mothur.git] / chimeracheckrdp.cpp

diff --git a/chimeracheckrdp.cpp b/chimeracheckrdp.cpp
index 12785137232677e3a056a43fd31b705f9b618734..04c143fecc50207a682f033567372959bcb831be 100644 (file)
--- a/chimeracheckrdp.cpp
+++ b/chimeracheckrdp.cpp
@@ -10,7 +10,7 @@
 #include "chimeracheckrdp.h"
                
 //***************************************************************************************************************
-ChimeraCheckRDP::ChimeraCheckRDP(string filename, string temp) {  fastafile = filename;  templateFile = temp;  }
+ChimeraCheckRDP::ChimeraCheckRDP(string filename, string temp, string o) {  fastafile = filename;  templateFile = temp; outputDir = o;  }
 //***************************************************************************************************************
 
 ChimeraCheckRDP::~ChimeraCheckRDP() {
@@ -338,7 +338,7 @@ void ChimeraCheckRDP::getCutoff() {
 void ChimeraCheckRDP::makeSVGpic(vector<sim> info, int query) {
        try{
                
-               string file = querySeqs[query]->getName() + ".chimeracheck.svg";
+               string file = outputDir + querySeqs[query]->getName() + ".chimeracheck.svg";
                ofstream outsvg;
                openOutputFile(file, outsvg);