Fixing qiime/plot_rank_abundance_graph.py = pep8 changed several lines to a single one, that make a numpy array became a list, the solution is to use sorted vs. sort
Fixing tests/test_make_distance_histograms.py = pep8 removed some empty lines from the HMTL and now the count does not match, decided to inspect output and looks fine but @gregcaporaso and I think that in the long run is better to remove this test
Fixing tests/test_denoiser/test_denoiser.py = pep8 removed some spaces from multiline strings in tests.py so test were failing. The solution was to change the multiline string to single lines
Fixing tests/test_pycogent_backports/test_alpha_diversity.py = pep8 changed some function lines that made evident (1) the misuse of sorted and (2) collapsing lines that changed an array to alist. The fixes: (1) renamed the variable to sorted_counts, and (2) cast to array
Fixing tests/test_validate_mapping_file.py = pep8 removed some empty spaces so test failed, fixed this from the expected strings