modified trim.seqs to split by primer name if primer name is given, and warn if dupli...

[mothur.git] / removeseqscommand.h

diff --git a/removeseqscommand.h b/removeseqscommand.h
index 647cb765f0e75781862d0fa74305d55573c85872..8238c649489e3dff52371fa06ab8e2f49b93258f 100644 (file)
--- a/removeseqscommand.h
+++ b/removeseqscommand.h
@@ -23,15 +23,17 @@ class RemoveSeqsCommand : public Command {
                
        private:
                set<string> names;
-               string accnosfile, fastafile, namefile, groupfile, alignfile, listfile, outputDir;
+               string accnosfile, fastafile, namefile, groupfile, alignfile, listfile, taxfile, 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();
-               void readList();
+               int readList();
+               int readTax();
                
 };