def parse_args(self):
self.instances_per_file = self.params.decoys_per_file
self.instances_per_job = self.params.decoys_per_job
self.extra['application_release'] = self.params.rosetta_release
self.extra['number_of_decoys_to_create'] = self.params.decoys_per_job
self.extra['collect'] = self.params.collect
try:
existing_file(self.params.flags_file)
except Exception, ex:
gc3libs.log.error("Invalid flags file `%s`: please supply a valid flags file by adding the option `-f PATH`" % self.params.flags_file)
raise ex
def parse_args(self):
self.instances_per_file = self.params.decoys_per_file
self.instances_per_job = self.params.decoys_per_job
self.extra['application_release'] = self.params.rosetta_release
self.extra['number_of_decoys_to_create'] = self.params.decoys_per_job
self.extra['collect'] = self.params.collect
try:
existing_file(self.params.flags_file)
except Exception, ex:
gc3libs.log.error("Invalid flags file `%s`: please supply a valid flags file by adding the option `-f PATH`" % self.params.flags_file)
raise ex
def new_tasks(self, extra):
while self.params.args:
# get next chunk of arguments
if '::' in self.params.args:
up_to = self.params.args.index('::')
args = self.params.args[:up_to]
self.params.args = self.params.args[(up_to+1):]
else:
args = self.params.args
self.params.args = []
# process it
assert len(args) > 2
funcname = args[0]
values = args[1]
inputfiles = args[2:]
for inputfile in inputfiles:
assert existing_file(inputfile)
# add tasks to session
for task in self.new_tasks1(funcname, values, inputfiles, **extra):
yield task
def new_tasks(self, extra):
while self.params.args:
# get next chunk of arguments
if '::' in self.params.args:
up_to = self.params.args.index('::')
args = self.params.args[:up_to]
self.params.args = self.params.args[(up_to + 1):]
else:
args = self.params.args
self.params.args = []
# process it
assert len(args) > 2
funcname = args[0]
values = args[1]
inputfiles = args[2:]
for inputfile in inputfiles:
assert existing_file(inputfile)
# add tasks to session
for task in self.new_tasks1(funcname, values, inputfiles, **extra):
yield task