Packaging Binaries

We have a somewhat rudimentary strategy for distributing non-python dependencies for Millstone. We store pre-built binaries for Linux and Darwin (Mac OS X) architectures in a shared Dropbox owned by millstonebio@gmail.com. We then generate a public link which we add to millstone_setup.py.

Tool-specific directions:

Lumpy

last updated 8/13/15

Must do separately for each architecture (i.e. linux and darwin):

Grab our branch of Lumpy

git clone git@github.com:churchlab/lumpy-sv.git

Track latest fixed branch

git checkout -b millstone origin/millstone

Build

make

Create new directory to store contents of lumpy.

Copy contents of bin/ to new directory. Copy entire scripts/ dir to new directory.

Overwrite lumpyexpress.config with the version in the millstone repo at config/lumpyexpress.config.

From inside of new lumpy directory, run (replacing architecture appropriately):

zip -r ~/lumpy-darwin.zip *