Curtain 0.2.1 is available

[Matthias]

A new version (0.2.1) of Curtain is now available. The main changes
are:

Curtain updates:
- replace `-reference` with `-input_contig` (a more accurate name)
- binning algorithm improved by using mapping qualities
- SAM file support for short reads (which means you can run BWA
manually and feed it into curtain)
e.g. `-map_sam -shortPaired <sam-files>`
- Filtering `-max_partial_count` is disables by default, previous
behavior can be set by `auto` option.
- Allow to feed the input_contigs in bucket into velvet as long read
by setting `-use_input_contig`

Pipeline updates:

- do-all-postprocessing: New pipeline, which runs everything, except
the mapping step and you can't use batch_scope.
- graph-load-maq: Also loads SAM files
- bucket-graph: By default `-max_partial_count` is set to 0
- collect_results: improved, but not as fast as running the class
CollectAndFilter (see manual 0.2.0)

Download:
http://curtain.googlecode.com/files/curtain-exec_0.2.1-dist.tar.gz

If you have any questions, please use the curtain-assembler group, or
contact me directly.
Best regards,

Matthias

A new Manual is not available yet down to google systems problems, but
will be added soon to the google group.

[Matthias]

I have to admit that the naming of the pipeline 'graph-load-maq' is
misleading,
because `graph-load-maq` loads both, MAQ and BWA files, into the
graph.

Hope this helps,
Matthias