- void doTrump();
- void doSoft();
- void doFilter();
-
- GlobalData* globaldata;
- string filename, trump, filter;
-
- ReadFasta* readFasta;
- ReadNexus* readNexus;
- ReadClustal* readClustal;
- ReadPhylip* readPhylip;
+ string vertical, filter, fastafile, hard;
+ int alignmentLength;
+
+ char trump;
+ bool abort;
+ float soft;
+ int numSeqs;