X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=parsefastaqcommand.h;h=5ae6b9c482fe6b4022bb4d4c5d4ae2e79ea3aad8;hp=6feabce848c09c21b2e276df8361ac4d78667f22;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=16abd6271c455bd01b34ff89a2e3641bef0fa128

diff --git a/parsefastaqcommand.h b/parsefastaqcommand.h
index 6feabce..5ae6b9c 100644
--- a/parsefastaqcommand.h
+++ b/parsefastaqcommand.h
@@ -21,9 +21,11 @@ public:
 	~ParseFastaQCommand() {}
 	
 	vector<string> setParameters();
-	string getCommandName()			{ return "parse.fastq";		}
+	string getCommandName()			{ return "fastq.info";		}
 	string getCommandCategory()		{ return "Sequence Processing"; }
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "http://www.mothur.org/wiki/Parse.fastq"; }
 	string getDescription()		{ return "reads a fastq file and creates a fasta and quality file"; }
 
@@ -33,10 +35,11 @@ public:
 private:
 
 	vector<string> outputNames;	
-	string outputDir, fastaQFile;
-	bool abort, fasta, qual;
+	string outputDir, fastaQFile, format;
+	bool abort, fasta, qual, pacbio;
 	
 	vector<int> convertQual(string);
+    vector<char> convertTable;
 };
 
 #endif