epistasis_submit.py is used for re-run failed filed tasks.
make scripts folder in home directory. This will contain (atlas.tar python.tar and two of node.py files).
make epistasis_results folder in home directory (empty folder) make epistasis_condor_out folder in home directory (empty folder)
make data folder in home directory. This will contain the plink files to run. (also with xxx.pheno.txt file)
python epistasis_submit_DAGman_v7.py xxx -g 600 -m 1
./release.sh 2048 1024 600 & (if want to reset request memory to 2g disk to 1g and waiting time as 10 min)
- python epistasis_submit_DAGman_v7_osg.py xxx -g 600 -m 1 (if run script in osg, but need to upload file to squid folder first)
- In order to run in osg, run file in chtc first and remove job and then run it in osg (the same file name, but using _osg.py to run).
- need to change the squid/username to your username in chtc .
- And to run jobs in osg, set connect project to osg.UWMadison_Parks before running python script.
- xxx is the plink file name