Change import from cogent to bipy
Update import from cogent to bipy
Change import from cogent to bipy

Also fix some formatting and eliminate unnecessary imports
Change import from cogent to bipy

Also fix some formatting and eliminate unnecessary imports
Change import from cogent to bipy

Also fix some formatting and eliminate unnecessary imports
Adding myself to credits
Change bipy to skbio, remove unused imports
Merge branch 'master' of https://github.com/qiime/qiime into FilePath

Conflicts:
	qiime/compare_distance_matrices.py
	qiime/identify_chimeric_seqs.py
	qiime/process_sff.py
	qiime/stats.py
	qiime/trim_sff_primers.py
	qiime/util.py
Add correct import back into print_qiime_config

Used to import from qiime.util, which just imported from qcli. Now the script
just imports directly from qcli
Move import back to qiime.util

Move import of parse_command_line_parameters back to qiime.util
Fix typo/incorrect name
Minor fixup to imports
Missed one renaming of bipy to skbio
Removing unused imports
Changing Trie functionality from cogent to skbio
Re-add previously removed import in qiime.util
Make distinction between sum and numpy.sum
everything but assign_taxonomy working
next round of working tests
Merge branch 'master' of git://github.com/qiime/qiime into trie