New features:
- command line interface has changed: refined graph is now written to stdout by default, unless
-ooption is used - LOG level is now set in command line interface: by default, info log messages are output to stderr, debug log messages can be shown with
-voption - Parallel computation support for core algorithm (search & collapse of redundant affixes)
- Decollapse of don't-collapse-nodes is completely rewritten and now based only on graph alone (previous version also needed paths), it's now faster and more precise.
- gz-compressed GFA files are accepted as input, GFAffix also supports to output refined graph as compressed GFA file
- lots of improved checks for correctness of the transformation into the refined graph
- dependencies are updated