added clearcut command

[mothur.git] / removeseqscommand.h

diff --git a/removeseqscommand.h b/removeseqscommand.h
index 434983e8e4c5909be8a083cf8251cee34b0d27ce..1f429d92810402f64a1c2d776510719aa7113610 100644 (file)
--- a/removeseqscommand.h
+++ b/removeseqscommand.h
@@ -23,14 +23,16 @@ class RemoveSeqsCommand : public Command {
                
        private:
                set<string> names;
-               string accnosfile, fastafile, namefile, groupfile, alignfile;
-               bool abort;
+               string accnosfile, fastafile, namefile, groupfile, alignfile, listfile, outputDir;
+               bool abort, dups;
+               vector<string> outputNames;
                
-               void readFasta();
-               void readName();
-               void readGroup();
-               void readAlign();
+               int readFasta();
+               int readName();
+               int readGroup();
+               int readAlign();
                void readAccnos();
+               int readList();
                
 };