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Commit ecd6817e by Mustafa Tekpinar
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Removed local SGEMME_DEV_PATH calls.

parent 90e5f3e6
Showing with 2 additions and 3 deletions
sgemme.py
...@@ -235,13 +235,12 @@ def launchJET(prot, retMet, bFile, fFile, pdbfile, chains, n, N, nl): ...@@ -235,13 +235,12 @@ def launchJET(prot, retMet, bFile, fFile, pdbfile, chains, n, N, nl):
# Run Rscript to compute predictions # Run Rscript to compute predictions
def launchPred(prot,inAli,mutFile, normWeightMode, alphabet): def launchPred(prot,inAli,mutFile, normWeightMode, alphabet):
SGEMME_DEV_PATH="/home/tekpinar/research/lcqb/SGEMME-dev-ss-based-jetormax"
if (mutFile!=''): if (mutFile!=''):
rcmd="Rscript --save "+SGEMME_DEV_PATH+"/computePred.R "+prot+" "+inAli+" FALSE "+mutFile+" "+normWeightMode+" "+alphabet rcmd="Rscript --save $SGEMME_PATH/computePred.R "+prot+" "+inAli+" FALSE "+mutFile+" "+normWeightMode+" "+alphabet
#TODO: remember that there is a problem here!!!! #TODO: remember that there is a problem here!!!!
else: else:
rcmd="Rscript --save "+SGEMME_DEV_PATH+"/computePred.R "+prot+" "+inAli+" TRUE none "+normWeightMode+" "+alphabet rcmd="Rscript --save $SGEMME_PATH/computePred.R "+prot+" "+inAli+" TRUE none "+normWeightMode+" "+alphabet
print("\nRunning: \n"+rcmd) print("\nRunning: \n"+rcmd)
reCode=subprocess.call(rcmd,shell=True) reCode=subprocess.call(rcmd,shell=True)
......
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