Conda package available

[ssnn-airr]

Original report by Fabien Pertuy (Bitbucket: PertuyF, GitHub: PertuyF).

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Hi @{5a0336c6c24b5074212438b7} ,

For you to know: a conda package has just been created for igphyml on Bioconda.

Build script was reworked to get it compiling under OSX. You can check out this PR for more info. I ran examples from the doc to make sure it is working, but if you have any real-world test it could be interesting to validate this work.

Package currently supports OpenMP, next step would be to support Blas as well. If you’re interested into using conda for deployment of future versions, you’ll be able to easily rebuild the package for any tagged commit.

BTW, it would be handy to have a command to check for OMP and Blas support, and to ensure hotspot tables are available.

[ssnn-airr]

Original comment by Kenneth Hoehn (Bitbucket: kbhoehn, GitHub: kbhoehn).

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Awesome - thanks! I’ll have to try it out. The makefile could definitely use some re-working for better Mac support. Most of it is inherited from codonPhyML. Is running build.sh the means by which the program is compiled when building IgPhyML?

[ssnn-airr]

Original comment by Fabien Pertuy (Bitbucket: PertuyF, GitHub: PertuyF).

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Exactly!

Conda downloads the sources and executes build.sh from there. Some of the stuff is conda-specific ($PREFIX is the root of the virtual environment, and two scripts are created to export/unset IGPHYML_PATH variable).

Next step with this package will be to enable Blas support.

[ssnn-airr]

Original comment by Kenneth Hoehn (Bitbucket: kbhoehn, GitHub: kbhoehn).

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Hi @{557058:92e2fb5e-2f2e-4e9a-8502-cfa0608c79c4} - we changed the igphyml source code repo location to our lab’s account. It’s at: https://bitbucket.org/kleinstein/igphyml

You may need to change this in the conda package.

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[ssnn-airr]

Original comment by Fabien Pertuy (Bitbucket: PertuyF, GitHub: PertuyF).

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Thanks @{5a0336c6c24b5074212438b7} , I updated the recipe accordingly!