dolomite-base 0.0.2

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Save and load Bioconductor objects in Python

Overview

The dolomite-base package is the Python counterpart to the alabaster.base R package, defining the basic generics for language-agnostic reading and writing of Bioconductor objects with their associated metadata. Implementations of methods for these generics can be found in the other dolomite- packages.

Developer notes

Obtain the headers:

(cd extern && ./fetch)

Build the shared object file:

CC="ccache clang++" python setup.py build_ext --inplace

For installation:

CC="ccache clang++" python setup.py install --user

For quick testing:

pytest

For more complex testing:

python setup.py build_ext --inplace && tox

To rebuild the ctypes bindings with cpptypes:

cpptypes src/dolomite_base/lib \
    --py src/dolomite_base/_cpphelpers.py \
    --cpp src/dolomite_base/lib/bindings.cpp \
    --dll _core