added oligos, group, pdiffs, bdiffs, ldiffs, sdiffs, tdiffs to fastq.info so you...

[mothur.git] / sracommand.h

diff --git a/sracommand.h b/sracommand.h
index 0f0a945d6118ad7ed17c4f08c7e2dce1dfa45bb0..7bf764b640534d11b5d40242d210bc77064a00de 100644 (file)
--- a/sracommand.h
+++ b/sracommand.h
@@ -35,8 +35,14 @@ public:
     
 private:
     bool abort;
-    string sfffiles, fastqfiles, platform, outputDir;
+    int tdiffs, bdiffs, pdiffs, sdiffs, ldiffs;
+    string sfffile, fastqfile, platform, outputDir, groupfile, file, oligosfile;
     vector<string> outputNames;
+    
+    int readFile(vector<string>&);
+    int parseSffFile(vector<string>&);
+    int parseFastqFile(vector<string>&);
+    
 };
 
 /**************************************************************************************************/