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
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
Fixes issue with emtpy tables if data points are missing. Fixes #1197
Test catches raised error when data points are missing. Fixes #1197.
Modifications and test additions to resolve issue #1160
Fix #1157

Resolve the problem where OTU maps would contain duplicated observation
identifiers and in turn would cause the biom formatter to fail.

The problem was originated because the command being executed was:

    cat otu_map_1.txt otu_map_2.txt otu_map_3.txt >> full_map.txt

I've change this such that the '>>' operator is replaced with '>' hence
overwritting the file named full_map.txt in case it existed i. e. when
passing the --force flag from the script interface.
Fixed script usage test
Fixed contrib