- string distfile, listfile, rabundfile, sabundfile, namefile, groupfile, orderfile, cutoff, format;
- string precision, method, fileroot, label, line, iters, jumble, freq, single, rarefaction, shared, summary;
+ void refresh();
+ string phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, orderfile, fastafile, nexusfile, clustalfile, treefile, sharedfile, cutoff, format;
+ string precision, method, fileroot, label, line, iters, jumble, freq, single, rarefaction, shared, summary, randomtree, abund, sorted, trump, soft, filter, scale, ends, processors, size;
+ string templatefile, search, ksize, align, match, mismatch, gapopen, gapextend;