def run(args):
"""Run a CWL preparation pipeline.
"""
dirs, config, run_info_yaml = run_info.prep_system(args.sample_config,
args.systemconfig)
world = run_info.organize(dirs, config, run_info_yaml)
create.from_world(world, run_info_yaml)
def run(args):
"""Run a CWL preparation pipeline.
"""
dirs, config, run_info_yaml = run_info.prep_system(args.sample_config, args.systemconfig)
integrations = args.integrations if hasattr(args, "integrations") else {}
world = run_info.organize(dirs, config, run_info_yaml, add_provenance=False, integrations=integrations)
create.from_world(world, run_info_yaml)
def run(args):
"""Run a CWL preparation pipeline.
"""
dirs, config, run_info_yaml = run_info.prep_system(args.sample_config, args.systemconfig)
integrations = args.integrations if hasattr(args, "integrations") else {}
world = run_info.organize(dirs, config, run_info_yaml, is_cwl=True, integrations=integrations)
create.from_world(world, run_info_yaml, integrations=integrations, add_container_tag=args.add_container_tag)
def run(args):
"""Run a CWL preparation pipeline.
"""
dirs, config, run_info_yaml = run_info.prep_system(args.sample_config, args.systemconfig)
integrations = args.integrations if hasattr(args, "integrations") else {}
world = run_info.organize(dirs, config, run_info_yaml, add_provenance=False, integrations=integrations)
create.from_world(world, run_info_yaml, integrations=integrations)
def create_cwl(*args):
return cwl_create.from_world(*args)
def create_cwl(*args):
return cwl_create.from_world(*args)
def run(args):
"""Run a CWL preparation pipeline.
"""
dirs, config, run_info_yaml = run_info.prep_system(args.sample_config, args.systemconfig)
world = run_info.organize(dirs, config, run_info_yaml, add_provenance=False)
create.from_world(world, run_info_yaml)