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Saikat Banerjee edited this page Jul 19, 2018 · 6 revisions

Load the modules

module load gcc/7.2.0
module load intel/mkl/64/2018/1.163
module load openmpi/gcc720/3.1.0

Activate python environment

source activate py36

Fix your paths and run simulation

TEJAAS="${HOME}/trans-eQTL/tejaas/bin/tejaas"
EXPRFILE="${HOME}/trans-eQTL/gtex/GTEx_wholeBlood_Normalzed_NoPEER_lmcorrected.txt"
mpirun -n 30 ${TEJAAS} --gx ${EXPRFILE} --simulate --method rr --null perm --simparams 0.1 0.1 1000 0 0.001 --test

Note

Conda could not link mpi4py to the openmpi module. Hence, I had to install it using pip.

conda remove mpich2 mpi4py
module load gcc/7.2.0 intel/mkl/64/2018/1.163 openmpi/gcc720/3.1.0
pip install --user mpi4py

Pygtrie-2.2 installed using pip install pygtrie