Change the PCoA from cogent to skbio
Solving small PEP8 issue
Remove useless comments
Using skbio PCoA
Move misplaced alpha diversity tests

Unit tests for `single_file_cup` were in pycogent_backports tests instead of QIIME's alpha diversity tests. Also fixed issue where temporary files weren't being cleaned up.

Fixes #1488.
make biom strings pep8-compatible, fix cogent import

Thanks @josenavas!
Merge pull request #1508 from ElBrogrammer/cuptest

Move misplaced alpha diversity tests
resolves #1526
consolidate printonly check for #1526
remove extra else
made more readable
Change organization name in README.md

Point to biocore instead of qiime.
Merge pull request #1529 from ElDeveloper/organization-fix

Change organization name in README.md
Merge pull request #1528 from audy/dont-mkdir-on-printonly

resolves #1526
Fix principal_coordinates.py to use skbio's PCoA
Merge branch 'master' of git://github.com/qiime/qiime into PCoA
Fixing to_file argument
Making QIIME dependent of emperor-0.9.3-dev
Fixing PEP8 issues and not-closed file handlers
Move procrustes from cogent to skbio. Fix coord parser.