Python from_world示例

示例#1

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)

示例#2

文件： main.py 项目： dlorson/bcbio-nextgen

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)

示例#3

文件： main.py 项目： chapmanb/bcbio-nextgen

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)

示例#4

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)

示例#5

文件： multitasks.py 项目： rndw/bcbio-nextgen

def create_cwl(*args):
    return cwl_create.from_world(*args)

示例#6

文件： multitasks.py 项目： gifford-lab/bcbio-nextgen

def create_cwl(*args):
    return cwl_create.from_world(*args)

示例#7

文件： main.py 项目： Cyberbio-Lab/bcbio-nextgen

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)