update add_alpha_to_mapping_file.py to address #969
update virtual box docs to address #969
update otu_category_significance.rst to address #969
update core_diversity_analysis.rst to address #969
updated to use QIIME's temp_dir
Merge pull request #1199 from gregcaporaso/issue-1114

updated to use QIIME's temp_dir
reverting previous changes
Merge pull request #1200 from casaburi/issue-969

Issue 969
updated to make uclust the default taxonomy assigner. also updated ancient documentation
updated to make uclust the default taxonomy assigner
updated to make uclust the default taxonomy assigner
updated changelog
updated unit tests to reflect uclust as the default tax assigner
updated unit tests to reflect uclust as the default tax assigner
preparing for updated output files
updated test output files
preparing for updated output files
updated output files
Update docs to reference PyNAST 1.2.1

Fixes #1203.
Merge pull request #1204 from jrrideout/issue-1203

Update docs to reference PyNAST 1.2.1