modified shhhercommand to make buildable with windows

[mothur.git] / listseqscommand.h

diff --git a/listseqscommand.h b/listseqscommand.h
index 4e0febd9c6dc84a7b49589e614c076493638c913..889b3733df47f346be5a3fd9dd327a0660913c61 100644 (file)
--- a/listseqscommand.h
+++ b/listseqscommand.h
@@ -16,20 +16,28 @@ class ListSeqsCommand : public Command {
        
        public:
        
-               ListSeqsCommand(string);        
-               ~ListSeqsCommand(){};
+               ListSeqsCommand(string);
+               ListSeqsCommand();      
+               ~ListSeqsCommand(){}
+               vector<string> getRequiredParameters();
+               vector<string> getValidParameters();
+               vector<string> getRequiredFiles();
+               map<string, vector<string> > getOutputFiles() { return outputTypes; }
                int execute();
                void help();    
                
        private:
-               vector<string> names;
-               string fastafile, namefile, groupfile, alignfile, inputFileName;
+               vector<string> names, outputNames;
+               map<string, vector<string> > outputTypes;
+               string fastafile, namefile, groupfile, alignfile, inputFileName, outputDir, listfile, taxfile;
                bool abort;
                
-               void readFasta();
-               void readName();
-               void readGroup();
-               void readAlign();
+               int readFasta();
+               int readName();
+               int readGroup();
+               int readAlign();
+               int readList();
+               int readTax();
                
 };