from .perf import Perf
from ._version import __version__
from .executor import ArvCwlExecutor
+from .fsaccess import workflow_uuid_pattern
# These aren't used directly in this file but
# other code expects to import them from here
action="store_false", default=True,
help=argparse.SUPPRESS)
+ parser.add_argument("--disable-git", dest="git_info",
+ action="store_false", default=True,
+ help=argparse.SUPPRESS)
+
parser.add_argument("--disable-color", dest="enable_color",
action="store_false", default=True,
help=argparse.SUPPRESS)
parser.add_argument("--http-timeout", type=int,
default=5*60, dest="http_timeout", help="API request timeout in seconds. Default is 300 seconds (5 minutes).")
+ parser.add_argument("--defer-downloads", action="store_true", default=False,
+ help="When submitting a workflow, defer downloading HTTP URLs to workflow launch instead of downloading to Keep before submit.")
+
exgroup = parser.add_mutually_exclusive_group()
exgroup.add_argument("--enable-preemptible", dest="enable_preemptible", default=None, action="store_true", help="Use preemptible instances. Control individual steps with arv:UsePreemptible hint.")
exgroup.add_argument("--disable-preemptible", dest="enable_preemptible", default=None, action="store_false", help="Don't use preemptible instances.")
+ exgroup = parser.add_mutually_exclusive_group()
+ exgroup.add_argument("--copy-deps", dest="copy_deps", default=None, action="store_true", help="Copy dependencies into the destination project.")
+ exgroup.add_argument("--no-copy-deps", dest="copy_deps", default=None, action="store_false", help="Leave dependencies where they are.")
+
parser.add_argument(
"--skip-schemas",
action="store_true",
"http://arvados.org/cwl#ProcessProperties",
"http://commonwl.org/cwltool#CUDARequirement",
"http://arvados.org/cwl#UsePreemptible",
+ "http://arvados.org/cwl#OutputCollectionProperties",
])
def exit_signal_handler(sigcode, frame):
# unit tests.
stdout = None
+ if arvargs.submit and (arvargs.workflow.startswith("arvwf:") or workflow_uuid_pattern.match(arvargs.workflow)):
+ executor.loadingContext.do_validate = False
+ executor.fast_submit = True
+
return cwltool.main.main(args=arvargs,
stdout=stdout,
stderr=stderr,
logger_handler=arvados.log_handler,
custom_schema_callback=add_arv_hints,
loadingContext=executor.loadingContext,
- runtimeContext=executor.runtimeContext,
+ runtimeContext=executor.toplevel_runtimeContext,
input_required=not (arvargs.create_workflow or arvargs.update_workflow))