X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=readdistcommand.h;h=937ca3f0797c58bc24dc3a239ac5f7c0e4624339;hb=b20d7d9b1b0eeeaedb78d8fdf26833fd212d2e81;hp=b6e3ae44de298a115ce9a72de193b51ff951ea34;hpb=0470f6d037aacb3563c3f7010708120a4a67d4e6;p=mothur.git

diff --git a/readdistcommand.h b/readdistcommand.h
index b6e3ae4..937ca3f 100644
--- a/readdistcommand.h
+++ b/readdistcommand.h
@@ -38,13 +38,11 @@ private:
 	ReadMatrix* read;
 	FullMatrix* matrix;
 	GroupMap* groupMap;
-	string filename, format, method;
-	string phylipfile, columnfile, namefile, groupfile;
+	string distFileName, format, method;
+	string phylipfile, columnfile, namefile, groupfile, outputDir;
 	NameAssignment* nameMap;
-	OptionParser* parser;
-	map<string, string> parameters;
-	map<string, string>::iterator it;
-	bool abort;
+
+	bool abort, sim;
 
 };