moved mothur's source into a folder to make grabbing just the source easier on github

[mothur.git] / sortseqscommand.h

diff --git a/sortseqscommand.h b/sortseqscommand.h
deleted file mode 100644 (file)
index 0685d3b..0000000
--- a/sortseqscommand.h
+++ /dev/null
@@ -1,54 +0,0 @@
-#ifndef Mothur_sortseqscommand_h
-#define Mothur_sortseqscommand_h
-
-
-//
-//  sortseqscommand.h
-//  Mothur
-//
-//  Created by Sarah Westcott on 2/3/12.
-//  Copyright (c) 2012 Schloss Lab. All rights reserved.
-//
-
-
-
-#include "command.hpp"
-
-class SortSeqsCommand : public Command {
-       
-public:
-       
-    SortSeqsCommand(string);   
-    SortSeqsCommand();
-    ~SortSeqsCommand(){}
-       
-    vector<string> setParameters();
-    string getCommandName()                    { return "sort.seqs";                           }
-    string getCommandCategory()                { return "Sequence Processing";         }
-    string getHelpString();    
-    string getCitation() { return "http://www.mothur.org/wiki/Sort.seqs"; }
-    string getDescription()            { return "puts sequences from a fasta, name, group, quality, flow or taxonomy file in the same order"; }
-    
-    int execute(); 
-    void help() { m->mothurOut(getHelpString()); }     
-       
-       
-private:
-    map<string, int> names;
-    string accnosfile, fastafile, namefile, groupfile, taxfile, qualfile, flowfile, outputDir;
-    bool abort, large;
-    vector<string> outputNames;
-    
-    int readFasta();
-    int readFlow();
-    int readName();
-    int readGroup();
-    int readAccnos();
-    int readTax();
-    int readQual();
-    
-};
-
-#endif
-
-