PROBA_DEATH = cfg['config']["PROBA_DEATH"]
TIME_WITHOUT_S = cfg['config']["TIME_WITHOUT_S"]
TIME_CONTAMINATED = cfg['config']["TIME_CONTAMINATED"]
TIME_TOO_MUCH = cfg['config']["TIME_TOO_MUCH"]
PROBA_MEET = cfg['config']["PROBA_MEET"]
MALUS = cfg['config']["MALUS"]
PROBA_DEATH_DURING_REA = cfg['config']["PROBA_DEATH_DURING_REA"]
TIME_VACCINE_DISCOVER = cfg['config']["TIME_VACCINE_DISCOVER"]
NUM_VACC_PER_DAY = cfg['config']["NUM_VACC_PER_DAY"]
VACCINE_EFFECT = cfg['config']["VACCINE_EFFECT"]
# =================================================================================
# Simulation
# =================================================================================
# Setup the simulation
features.setup(nber_person=NUM_PERSON, max_neighbours=MAX_NEIGHBOURS)
# Run the simulation
for day in range(NUM_DAY):
# Create an environment and start the setup process
env = simpy.Environment()
# Setup and start the simulation
env.process(
features.day(env=env,
area_zone=NUM_AREA,
meetime=TIMEMEET,
nber_person=NUM_PERSON,
proba_conta=proba_conta,
proba_meet=PROBA_MEET,
malus=MALUS))
def setup_features_service(self) -> None:
import features
features.validate()
features.setup()
import shutil
import sys
from subprocess import call, PIPE, Popen
from datetime import datetime
from time import sleep
from Bio import SeqIO
import blaster
import features
import muscler
import prositer
features.header() #UserInterface
features.setup() #UserInterface
#Argparse: check arguments position and type
parser = argparse.ArgumentParser()
parser.add_argument("query",
help="Protein fasta file for the query",
type=argparse.FileType('r'))
parser.add_argument("subject",
help="Protein fasta file for the subject",
type=argparse.FileType('r'))
args = parser.parse_args()
if not args.query or not args.query: print(args)
filequery = sys.argv[1]
filesubject = sys.argv[2]