X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;ds=sidebyside;f=reportfile.cpp;fp=reportfile.cpp;h=8e3b746159a02da7082749bea103222540e0c4a6;hb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;hp=0000000000000000000000000000000000000000;hpb=1b73ff67c83892a025e597dabd9df6fe7b58206a;p=mothur.git

diff --git a/reportfile.cpp b/reportfile.cpp
new file mode 100644
index 0000000..8e3b746
--- /dev/null
+++ b/reportfile.cpp
@@ -0,0 +1,83 @@
+/*
+ *  reportfile.cpp
+ *  Mothur
+ *
+ *  Created by Pat Schloss on 12/19/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+
+#include "mothur.h"
+#include "mothurout.h"
+#include "reportfile.h"
+
+/**************************************************************************************************/
+
+ReportFile::ReportFile(){
+	try {
+		m = MothurOut::getInstance();
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ReportFile", "ReportFile");
+		exit(1);
+	}							
+}
+
+/**************************************************************************************************/
+
+ReportFile::ReportFile(ifstream& repFile, string repFileName){
+	try {		
+		m = MothurOut::getInstance();
+		
+		m->openInputFile(repFileName, repFile);
+		m->getline(repFile);
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ReportFile", "ReportFile");
+		exit(1);
+	}							
+}
+
+
+/**************************************************************************************************/
+
+ReportFile::ReportFile(ifstream& repFile){
+	try {
+		
+		m = MothurOut::getInstance();
+		
+		repFile >> queryName;
+		repFile >> queryLength;
+		repFile >> templateName;
+		repFile >> templateLength;
+		repFile >> searchMethod;
+		repFile >> dummySearchScore;
+		repFile >> alignmentMethod;
+		repFile >> queryStart;
+		repFile >> queryEnd;
+		repFile >> templateStart;
+		repFile >> templateEnd;
+		repFile >> pairwiseAlignmentLength;
+		repFile >> gapsInQuery;
+		repFile >> gapsInTemplate;
+		repFile >> longestInsert;
+		repFile >> simBtwnQueryAndTemplate;
+
+		if(dummySearchScore != "nan"){
+			istringstream stream(dummySearchScore);
+			stream >> searchScore;
+		}
+		else{
+			searchScore = 0;
+		}
+		
+		m->gobble(repFile);		
+	}
+	catch(exception& e) {
+		m->errorOut(e, "ReportFile", "ReportFile");
+		exit(1);
+	}							
+	
+}
+
+/**************************************************************************************************/