- added viper RNASeq pipeline integration
- upgraded Makefile install/uninstall targets + add support for R libs
- added viper_static_dir to cookiecutter.json
- Amended reqs to support extra jupyter extensions
- Merged with drivendata/master
- Merge pull request #75 from lorey/patch-1
- Add directory structure to README, improves #10
- Fix self documenting make on Linux, close #67
- Add PROJECT_DIR absolute path as variable in Makefile, per #65
- Fixed how Snakefile path is determined
- Snakefile now collects PRE list in rule: pre
- Removed SAVE_RUN_CONFIG rule
- Improved the way rule graphs are drawn
- Changed Snakefile to use ruamel.yaml
- Reworked how logging is organized and added load_csv with gzip to TOP level import
- Reqs now include scipy and matplotlib
- Configs: OUT_DIR ==> OUT_DIR_LOCATION
- Makefile now uses '--no-chan-pri' when creating conda env
- Added binary doc-type patterns and notebook/ to .gitignore
- completed improving logging setup and config
- fixed cookiecutter json delimiter problem
- Moved config processing to misc.py
- Added todos.txt
- Improved logging set up and configuration.