pat's changes to seq.error command

[mothur.git] / reportfile.cpp

diff --git a/reportfile.cpp b/reportfile.cpp
new file mode 100644 (file)
index 0000000..f392ed9
--- /dev/null
+++ b/reportfile.cpp
@@ -0,0 +1,73 @@
+/*
+ *  reportfile.cpp
+ *  Mothur
+ *
+ *  Created by Pat Schloss on 12/19/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+
+#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 >> searchScore;
+               repFile >> alignmentMethod;
+               repFile >> queryStart;
+               repFile >> queryEnd;
+               repFile >> templateStart;
+               repFile >> templateEnd;
+               repFile >> pairwiseAlignmentLength;
+               repFile >> gapsInQuery;
+               repFile >> gapsInTemplate;
+               repFile >> longestInsert;
+               repFile >> simBtwnQueryAndTemplate;
+
+               m->gobble(repFile);             
+       }
+       catch(exception& e) {
+               m->errorOut(e, "ReportFile", "ReportFile");
+               exit(1);
+       }                                                       
+       
+}
+
+/**************************************************************************************************/