jackknifed_beta_diversity.py

Minor documentation change to address incorrect reference to a FASTA file which this script does not recieve.
split_libraries_fastq.py change resolves issue #993.

Modified the documentation to change -q20 to -q 20. Ignored the other comments since they seem to have been resolved elsewhere.
Initial parallel merge otus commit
added ChangeLog mention
Merge pull request #1057 from wasade/parallel_merge_otus

Initial parallel merge otus commit
Fixed filepath in shotgun tutorial.
Merge pull request #1055 from wdwvt1/doc_changes

small documentation changes
test data for parallel_merge_otus
added random.choice, passing queues, removed some comments
passing queue
test data with unique internal nodes
internal nodes are now unique
addressing Jai's comments
cleaned up cmd in script usage
Merge pull request #1064 from wasade/issue1058

Issue1058
Refactored summarize_taxa.py to use BIOM API.

Virtually no interface changes, but underneath the code has been mostly rewritten to use the BIOM API for binning/collapsing. This also brings BIOM taxon tables one step closer to being fully integrated into QIIME.

Also generally cleaned things up and added more unit tests.

This was necessary for #998.
Added more details to lower/upper percentage docs.
unique and simple internal merge nodes
Merge pull request #1067 from wasade/simple_int_merge_nodes

unique and simple internal merge nodes
Added initial one-to-many support.

Currently doesn't respect the 1-M handling method specified by the user, but the tests pass!