X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/44c93373e97da98645d41ae8f09c6eef6788bb26..8a6ca096b41dcbbb9854abddae03997afd2ddf06:/sdk/cwl/arvados_cwl/__init__.py

diff --git a/sdk/cwl/arvados_cwl/__init__.py b/sdk/cwl/arvados_cwl/__init__.py
index c73b358ecc..e3b8e500a1 100644
--- a/sdk/cwl/arvados_cwl/__init__.py
+++ b/sdk/cwl/arvados_cwl/__init__.py
@@ -36,6 +36,7 @@ from arvados.api import OrderedJsonModel
 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
@@ -199,6 +200,10 @@ def arg_parser():  # type: () -> argparse.ArgumentParser
                         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)
@@ -213,10 +218,17 @@ def arg_parser():  # type: () -> argparse.ArgumentParser
     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",
@@ -261,6 +273,7 @@ def add_arv_hints():
         "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):
@@ -354,6 +367,10 @@ def main(args=sys.argv[1:],
         # 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,
@@ -363,5 +380,5 @@ def main(args=sys.argv[1:],
                              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))