#!/bin/bash
###Inherit all current environment variables
#PBS -V
### Job name
#PBS -N crYOLO
### Keep Output and Error
#PBS -k eo
### Queue name
#PBS -q batch
### Specify the number of nodes and thread (ppn) for your job.
#PBS -l nodes=1:ppn=20
### Tell PBS the anticipated run-time for your job, where walltime=HH:MM:SS
#PBS -l walltime=03:00:00
#################################
NSLOTS=$(wc -l $PBS_NODEFILE|awk {'print $1'})

### Switch to the working directory;
cd $PBS_O_WORKDIR
### Run:
singularity exec /lsi/groups/cryoem-workshop/shared_software/cryolo/ubuntu_cryolo_cudnn.simg cryolo_predict.py -c /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a//config.json -w /lsi/groups/cryoem-workshop/shared_software/cryolo/gmodel_phosnet_20181221_loss0037.h5 -i /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a// -o /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a//cryolo -t 0.200000 > /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a//run.out 2> /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a//run.err < /dev/null
#Cleanup
rm -rf /lsi/groups/mcianfroccolab/skearns/aldolase/19apr12a/leginon/rawdata/en-a//tmp_filtered