Add parameters

[iminkin]

There should be following parameters to set:

1. --infile= $input_file #input file name, mandatory
2. --parset= fine | loose #parameter set, optional, default = loose
3. --minlength = #minimum block length, optional, default=5000
4. --stagefile = $stage_file #stage file name, optional, incompatible with parset
5. --graphfile = $graph_file #dot file for condensed graph, optional
6. --repfile = $rep_file #path to report file, optional, default = $input_file + "_report"
7. --chrfile = $chr_file #path to chr file, optional, default = $input_file + "_chr"
8. --coordfile = $coord_file #path to coordfile, optional, default = $input_file + "_coord"
9. --blockfile = $block_file #path to blocks file, optional
10. --maxiterations = #maximum number of simplification iterations, default = 4

[iminkin]

Done (parameters set is slightly different).