doublehelix-external 0.0.2

Genomic data manipulation tool

Description

PyPi Page

This repository is used to build a wheel that install a module called helix.third_party. This module contains 3rd party dependencies for DoubbleHelix for Windows. The build works in this way:

• A release is made. The release contains inside its note a table with git tags, one for each of the dependencies
• A GitHub action is executed every time a new release is made
• The action executes make_clone_script.py providing the release TAG of the new release as argument
• make_clone_script.py fetch the details for the release associated with the TAG, parses the release note, and produce a set of git clone command that will clone the dependencies according to the tag specified
• The action build the binaries under a MSYS2 environment
• Once compiled, import_scanner.py is run to process the import table for each binary and copy each entry into helix/third_party
• Python setup is executed and the wheel is built
• The wheel is uploaded to PyPI

Install (prod)

python -m pip install doublehelix-external

Example usage

The module does not contain any python code and is used only to discover the binaries. Example usage:

from helix import third_party
from pathlib import Path
from subprocess import Popen
folder = Path(third_party.__file__).parent
# Launch something, e.g., bcftools
Popen(folder.joinpath("bcftools.exe"))