#!/usr/bin/env python3
# -*- coding: utf-8 -*-

import subprocess
import os
import argparse

parser = argparse.ArgumentParser(description="Automatic Pipeline script")
parser.add_argument("-th", "--threshold", help = "Set Threshold (Default: 0.4)", required = False, default = 0.4)
parser.add_argument("-tar", "--target", help = "Set target image. Default: 1 (Image with highest score)", required = False, default = 1)
parser.add_argument("-r", "--rc", help = "Set to 'True' when running script in rc server", required = False, default = "False")
argument = parser.parse_args()
threshold = str(argument.threshold)
target = str(argument.target)
rc = str(argument.rc)

warnings = open("warnings.log", 'a')
os.system("cp /neuro/labs/grantlab/research/ivan_gonzalez/Documents/recon_pipeline/mri_pipeline.py .")
subprocess.call(['/bin/bash', '-i', '-c', "ss;. neuro-fs stable && conda activate deep_learning && python mri_pipeline.py -th %s -tar %s -r %s" %(threshold,target,rc)], stderr=warnings)

9dda23782075ccae21e2f8b8f78a5cb9ac9e15d5
<mask token>

<mask token>
parser.add_argument('-th', '--threshold', help=
    'Set Threshold (Default: 0.4)', required=False, default=0.4)
parser.add_argument('-tar', '--target', help=
    'Set target image. Default: 1 (Image with highest score)', required=
    False, default=1)
parser.add_argument('-r', '--rc', help=
    "Set to 'True' when running script in rc server", required=False,
    default='False')
<mask token>
os.system(
    'cp /neuro/labs/grantlab/research/ivan_gonzalez/Documents/recon_pipeline/mri_pipeline.py .'
    )
subprocess.call(['/bin/bash', '-i', '-c', 
    'ss;. neuro-fs stable && conda activate deep_learning && python mri_pipeline.py -th %s -tar %s -r %s'
     % (threshold, target, rc)], stderr=warnings)

<mask token>
parser = argparse.ArgumentParser(description='Automatic Pipeline script')
parser.add_argument('-th', '--threshold', help=
    'Set Threshold (Default: 0.4)', required=False, default=0.4)
parser.add_argument('-tar', '--target', help=
    'Set target image. Default: 1 (Image with highest score)', required=
    False, default=1)
parser.add_argument('-r', '--rc', help=
    "Set to 'True' when running script in rc server", required=False,
    default='False')
argument = parser.parse_args()
threshold = str(argument.threshold)
target = str(argument.target)
rc = str(argument.rc)
warnings = open('warnings.log', 'a')
os.system(
    'cp /neuro/labs/grantlab/research/ivan_gonzalez/Documents/recon_pipeline/mri_pipeline.py .'
    )
subprocess.call(['/bin/bash', '-i', '-c', 
    'ss;. neuro-fs stable && conda activate deep_learning && python mri_pipeline.py -th %s -tar %s -r %s'
     % (threshold, target, rc)], stderr=warnings)

import subprocess
import os
import argparse
parser = argparse.ArgumentParser(description='Automatic Pipeline script')
parser.add_argument('-th', '--threshold', help=
    'Set Threshold (Default: 0.4)', required=False, default=0.4)
parser.add_argument('-tar', '--target', help=
    'Set target image. Default: 1 (Image with highest score)', required=
    False, default=1)
parser.add_argument('-r', '--rc', help=
    "Set to 'True' when running script in rc server", required=False,
    default='False')
argument = parser.parse_args()
threshold = str(argument.threshold)
target = str(argument.target)
rc = str(argument.rc)
warnings = open('warnings.log', 'a')
os.system(
    'cp /neuro/labs/grantlab/research/ivan_gonzalez/Documents/recon_pipeline/mri_pipeline.py .'
    )
subprocess.call(['/bin/bash', '-i', '-c', 
    'ss;. neuro-fs stable && conda activate deep_learning && python mri_pipeline.py -th %s -tar %s -r %s'
     % (threshold, target, rc)], stderr=warnings)

#!/usr/bin/env python3
# -*- coding: utf-8 -*-

import subprocess
import os
import argparse

parser = argparse.ArgumentParser(description="Automatic Pipeline script")
parser.add_argument("-th", "--threshold", help = "Set Threshold (Default: 0.4)", required = False, default = 0.4)
parser.add_argument("-tar", "--target", help = "Set target image. Default: 1 (Image with highest score)", required = False, default = 1)
parser.add_argument("-r", "--rc", help = "Set to 'True' when running script in rc server", required = False, default = "False")
argument = parser.parse_args()
threshold = str(argument.threshold)
target = str(argument.target)
rc = str(argument.rc)

warnings = open("warnings.log", 'a')
os.system("cp /neuro/labs/grantlab/research/ivan_gonzalez/Documents/recon_pipeline/mri_pipeline.py .")
subprocess.call(['/bin/bash', '-i', '-c', "ss;. neuro-fs stable && conda activate deep_learning && python mri_pipeline.py -th %s -tar %s -r %s" %(threshold,target,rc)], stderr=warnings)
