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tszalay / poreseq

Error correction and variant calling algorithm for nanopore sequencing
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Easier Install using Python Virtual Environment #1

Closed ctcncgr closed 8 years ago

ctcncgr commented 8 years ago

Hi, just a quick comment. You can build this package using virtual environment without needing to use --user for the pip install or needing super-user permissions.

git clone git://github.com/tszalay/poreseq.git virtualenv VE-PORESEQ . VE-PORESEQ/bin/activate pip install numpy pip install cython pip install h5py cd poreseq pip install -e .

Also, not everyone has h5py in their system python or local python by default, so I included it in the pip install.

Thanks

tszalay commented 8 years ago

Good call, thanks! I've added the virtualenv directions to the README and included h5py in setup.py (numpy and cython are still pre-setup requirements).