Release checklist

[x] 1. Check that version numbers in outrigger/outrigger/__init__.py and outrigger/setup.py match
[x] 2. Add release notes in outrigger/docs/releases
[x] 3. Copy release notes to outrigger/HISTORY.rst
[x] 4. Convert README.md to RST:

pandoc --from=markdown_github --to=rst README.md > README.rst

[x] 5. Create an annotated tag for git and push it:

git tag -a v0.2.1 -m "v0.2.1 - Release *with* requirements.txt"
git push origin v0.2.1

[x] 6. (If you messed up) and made the tag too early and later made changes that should be added to the tag, remove the remote tag and force re-add the local tag:

git push origin :refs/tags/v0.2.1
git tag -fa v0.2.1
git push origin master --tags

[x] 7. Do a test run of uploading to PyPI test. This assumes you have set up your PyPI configuration according to this.

python setup.py register -r pypitest
python setup.py sdist upload -r pypitest

[x] 8. (If there's an error) in either the HISTORY.rst or README.rst file, you will get an error. To narrow down this error, look for the corresponding line in outrigger.egg-info. It won't be exactly the same line because of the header but it will be closer since PKG-INFO concatenates your README.rst and HISTORY.rst files.

warning: unexpected indent on line 615 blah blah I'm pypi RST and I'm way too strict

[x] 10. Check the PyPI test server and make sure everything is there and the RST is rendered correctly.
[x] 11. Do a test installation in a conda environment using the PyPI test server

conda create --yes -n outrigger_pypi_test_v0.2.1 --file conda_requirements.txt
# Change to a different directory to make sure you're not importing the `outrigger` folder
cd $HOME
source activate outrigger_pypi_test_v0.2.1
pip install --index-url https://testpypi.python.org/pypi outrigger --extra-index-url https://pypi.python.org/simple

[x] 12. Make sure that the correct outrigger from the right environment is getting referenced. which outrigger should have the following output:

$ which outrigger
/Users/olga/anaconda3/envs/outrigger_pypi_v0.2.1/bin/outrigger

[x] 13. Check that the installation was successful. outrigger -h should have the following output:

$ outrigger -h usage: outrigger [-h] {index,validate,psi} ...

Calculate "percent-spliced in" (Psi) scores of alternative splicing on a de novo, custom-built splicing index

positional arguments: {index,validate,psi} Sub-commands index Build an index of splicing events using a graph database on your junction reads and an annotation validate Ensure that the splicing events found all have the correct splice sites psi Calculate "percent spliced-in" (Psi) values using the splicing event index built with "outrigger index"

optional arguments: -h, --help show this help message and exit
[x] 14. Upload to PyPI:

python setup.py register -r pypi
python setup.py sdist upload -r pypi

[ ] 15. (Doesn't really work yet) Upload to Anaconda.org:

anaconda login
anaconda upload dist/*.tar.gz

YeoLab / outrigger

Release v0.2.8 #46

Release checklist

Current coverage is 53.15% (diff: 90.90%)