Move conversion code to stand-alone lib
Fix import statement
Fix code guidelines
Correct Sample ids to be MIENS compliant
Fix #1092 and Fix #979
Added 2 histogram formatting code to qiime/format.py and unit test, in preparation for use with new quality_filter_fasta.py code
Merge branch 'master' of https://github.com/qiime/qiime into issue-1092
Removing Unifrac file conversion code as it has been ported to the FastUnfrac repo
Merge branch 'master' of git://github.com/qiime/qiime into MIENS
Ooops, forgot to delete the qiime_test_data folder for the convert_unifrac_sample_mapping_to_otu_table script
Resolves issue #1065

Changes the 'simpson_e' calculation to be increase as evenness increases. Reference thread:
https://groups.google.com/forum/#!searchin/qiime-forum/simpsons%2420e/qiime-forum/F7GvTT2Elgw/rU8fnNfLoNMJ
Added another example

Added another test calculation from another ecology lab. Given that the literature definition of this function is unclear, I wanted to have another resource which validates our interpretation.
Changed permissions to 644.
Removed commented line
Rename script interface arguments

The naming is more standard now
Fix different aspects of the documentation

Mainly:
    - Made all lines fewer than 80 columns.
    - Change strings in the documentation to reflect the actual
      filenames that these are processing (it seems that it was still
      pointing to .txt contingency tables)

Fixes #304
Add note about the interface change.
Adjusting formatting in split_libraries_fastq

Line lengths adjusted, indentation adjusted, use of "is" and "is not" when
doing comparisons with None. Changed a try-except to use dict.get function.

Fixes #1251
Remove "versions" from the QIIME overview tutorial

The document was pointing to an FTP site that read "QIIME-1.5.0" and in
turn was confusing users. I've changed this such that there's now a
folder named qiime-files in thebeast.colorado.edu where I've copied the
current contents of qiime/examples/qiime_tutorial/ and updated the
documentation of tutorial.rst.

Fixes #1137
Rename folder to be qiime_overview_tutorial.zip