Not sure if this useful for others / including in docs, but here's how I create a conda environment for cmapPy in python 3. I mention this b/c I have done it other ways and ended up not having the hdf5 command line tools in the environment (which I find useful).
conda create -n cmapPy3 python=3 scikit-learn scipy numpy seaborn matplotlib statsmodels pandas jupyter sympy h5pyconda activate cmapPy3pip install cmappy- try it out!
0. should have hdf5 command line tools
(NB: not installing h5py via conda, and instead having pip install it as a dependency of cmappy caused me to not have the command line tools for whatever reason). Obvs this also includes some other analysis libraries / tools I find useful.
Not sure if this useful for others / including in docs, but here's how I create a conda environment for cmapPy in python 3. I mention this b/c I have done it other ways and ended up not having the hdf5 command line tools in the environment (which I find useful).
conda create -n cmapPy3 python=3 scikit-learn scipy numpy seaborn matplotlib statsmodels pandas jupyter sympy h5pyconda activate cmapPy3pip install cmappy0. should have hdf5 command line tools
(NB: not installing h5py via conda, and instead having pip install it as a dependency of cmappy caused me to not have the command line tools for whatever reason). Obvs this also includes some other analysis libraries / tools I find useful.