added pipeline commands which involved change to command factory and command class...

[mothur.git] / removeseqscommand.h

diff --git a/removeseqscommand.h b/removeseqscommand.h
index 8238c649489e3dff52371fa06ab8e2f49b93258f..8321212fff48bb240c54f1a1df4516b393f7216f 100644 (file)
--- a/removeseqscommand.h
+++ b/removeseqscommand.h
@@ -17,7 +17,12 @@ class RemoveSeqsCommand : public Command {
        public:
        
                RemoveSeqsCommand(string);      
-               ~RemoveSeqsCommand(){};
+               RemoveSeqsCommand();
+               ~RemoveSeqsCommand(){}
+               vector<string> getRequiredParameters();
+               vector<string> getValidParameters();
+               vector<string> getRequiredFiles();
+               map<string, vector<string> > getOutputFiles() { return outputTypes; }
                int execute();
                void help();    
                
@@ -26,6 +31,7 @@ class RemoveSeqsCommand : public Command {
                string accnosfile, fastafile, namefile, groupfile, alignfile, listfile, taxfile, outputDir;
                bool abort, dups;
                vector<string> outputNames;
+               map<string, vector<string> > outputTypes;
                
                int readFasta();
                int readName();