import os
import logging
from sbmlutils.modelcreator import creator
import coloredlogs
coloredlogs.install(
level='INFO',
fmt="%(pathname)s:%(lineno)s %(funcName)s %(levelname) -10s %(message)s"
# fmt="%(levelname) -10s %(asctime)s %(module)s:%(lineno)s %(funcName)s %(message)s"
)
logger = logging.getLogger(__name__)
base_dir = os.path.dirname(os.path.abspath(__file__))
target_dir = os.path.join(base_dir, 'model')
if __name__ == "__main__":
models_dir = os.path.join(os.path.dirname(os.path.abspath(__file__)))
print('-' * 80)
print(models_dir)
print('-' * 80)
# brain
creator.create_model(
modules=['pylimax.models.glucose.glucose_liver_model'],
target_dir=target_dir,
annotations=os.path.join(base_dir, 'glucose_annotations.xlsx'),
create_report=True)
def create_model(target_dir):
return creator.create_model(modules=['models.body.model_body'],
target_dir=target_dir,
create_report=True)
import os
from sbmlutils.modelcreator import creator
base_dir = os.path.dirname(os.path.abspath(__file__))
target_dir = os.path.join(base_dir, 'results')
if __name__ == "__main__":
creator.create_model(modules=['sbmlutils.examples.models.dallaman.model'],
target_dir=target_dir)
import os
from sbmlutils.modelcreator import creator
base_dir = os.path.dirname(os.path.abspath(__file__))
target_dir = os.path.join(base_dir, 'results')
if __name__ == "__main__":
creator.create_model(modules=['sbmlutils.examples.models.dallaman.model'],
target_dir=target_dir)
"""
PKPD model creator for LiMAx and methacetin.
"""
from __future__ import print_function, division
import os
from sbmlutils.modelcreator import creator
base_dir = os.path.dirname(os.path.abspath(__file__))
target_dir = os.path.join(base_dir, 'results')
#############################
if __name__ == "__main__":
creator.create_model(modules=['pylimax.models.galactose_pkpd.galactose_pkpd_model'], target_dir=target_dir,
annotations=None)
def create_model(target_dir):
return creator.create_model(modules=['models.liver.model_liver'],
target_dir=target_dir,
create_report=True)
#############################
if __name__ == "__main__":
create_report = True
build_submodels = True
prepare_rbc = True
# if prepare_rbc:
# prepare_rbc_model.prepare_rbc_model(name="rbc_parasite_model", target_dir=target_dir)
if build_submodels:
# brain
creator.create_model(
modules=['pylimax.models.glucose_pkpd.glucose_brain_model'],
target_dir=target_dir,
annotations=None,
create_report=create_report)
# rbc
creator.create_model(
modules=['pylimax.models.glucose_pkpd.glucose_rbc_model'],
target_dir=target_dir,
annotations=None,
create_report=create_report)
# liver
creator.create_model(
modules=['pylimax.models.glucose_pkpd.glucose_liver_model'],
target_dir=target_dir,
annotations=None,
import os
from sbmlutils.modelcreator import creator
base_dir = os.path.dirname(os.path.abspath(__file__))
target_dir = os.path.join(base_dir, "results")
if __name__ == "__main__":
creator.create_model(
modules=["sbmlutils.examples.models.dallaman.model"], output_dir=target_dir
)
def create_model(target_dir):
return creator.create_model(modules=['model_codeine'],
target_dir=target_dir,
create_report=True)