def paginate(self):
"""Make folders where we would like to put results etc."""
project_dir = self.project_dir
raw_dir = self.raw_dir
batch_dir = self.batch_dir
if project_dir is None:
raise UnderDefined("no project directory defined")
if raw_dir is None:
raise UnderDefined("no raw directory defined")
if batch_dir is None:
raise UnderDefined("no batch directory defined")
# create the folders
if not os.path.isdir(project_dir):
os.mkdir(project_dir)
logging.info(f"created folder {project_dir}")
if not os.path.isdir(batch_dir):
os.mkdir(batch_dir)
logging.info(f"created folder {batch_dir}")
if not os.path.isdir(raw_dir):
os.mkdir(raw_dir)
logging.info(f"created folder {raw_dir}")
self.project_dir = project_dir
self.batch_dir = batch_dir
self.raw_dir = raw_dir
return project_dir, batch_dir, raw_dir
def generate_file_name(self):
"""generate a suitable file name for the experiment"""
if not self.project:
raise UnderDefined("project name not given")
out_data_dir = prms.Paths.outdatadir
project_dir = os.path.join(out_data_dir, self.project)
file_name = "cellpy_batch_%s.json" % self.name
self.file_name = os.path.join(project_dir, file_name)
def do(self):
if not self.experiments:
raise UnderDefined(
"cannot run until you have assigned an experiment")
for engine in self.engines:
self.empty_the_farms()
logging.debug(f"running - {str(engine)}")
self.run_engine(engine)
for dumper in self.dumpers:
logging.debug(f"exporting - {str(dumper)}")
self.run_dumper(dumper)