Humann

New Features

* Added pathways and gene family names to output files
* Changed from e-value to number of matches for alignment scoring

Bug Fixes

* Allow for non-comment, empty lines in gene tables

New Features

* Updated download script to pull new ChocoPhlAn version
* Added humann2_reduce_table script

Performance Updates

* Reduced memory and increased speed for humann2_join_tables script

New Features

* Updated pathways to UniProt 2015_05
* Allow for a directory, bowtie2 index basename, or bowtie2 index file as input

Bug Fixes

* Updated function which finds executable in $PATH to return first instance instead of last

Performance Updates

* Reduced memory use for humann2_split_table

Other

* Added python version check to install

Performance Updates

* Reduced memory use of humann2 (and added --memory-use option)

New Features

* Allow for input files from Picrust metagenome_contributions.py