sourmash_msu_hpcc.sh

# load modules

module load GNU/4.8.3  anaconda parallel
module unload python

# setup conda env

conda create --name sourmash_nov2017 python=3.5
# use this to activate env:
source activate sourmash_nov2017

# follow instructions:
# http://sourmash.readthedocs.io/en/latest/tutorials.html

pip install -U Cython
pip install -U jupyter jupyter_client ipython pandas matplotlib scipy scikit-learn khmer
pip install -U https://github.com/dib-lab/sourmash/archive/master.zip

# should be able to type `sourmash compute` and get output

These are the steps to run sourmash when logging to msu hpcc each time:

module load GNU/4.8.3  anaconda parallel
module unload python
source activate sourmash_nov2017