X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/1cde74c26fd6a7793a7bb1a9bd748ce06e37c455..5030797bc2035f1feee5876e069c0282308270ef:/crunch_scripts/cwl-runner?ds=sidebyside

diff --git a/crunch_scripts/cwl-runner b/crunch_scripts/cwl-runner
index 5e7982cec5..c786fc10b1 100755
--- a/crunch_scripts/cwl-runner
+++ b/crunch_scripts/cwl-runner
@@ -20,6 +20,7 @@ import json
 import argparse
 from arvados.api import OrderedJsonModel
 from cwltool.process import adjustFiles
+from cwltool.load_tool import load_tool
 
 # Print package versions
 logging.info(cwltool.main.versionstring())
@@ -48,7 +49,7 @@ try:
 
     runner = arvados_cwl.ArvCwlRunner(api_client=arvados.api('v1', model=OrderedJsonModel()))
 
-    t = cwltool.main.load_tool(job_order_object, False, True, runner.arvMakeTool, True)
+    t = load_tool(job_order_object, runner.arvMakeTool)
 
     args = argparse.Namespace()
     args.project_uuid = arvados.current_job()["owner_uuid"]
@@ -57,6 +58,7 @@ try:
     args.debug = True
     args.quiet = False
     args.ignore_docker_for_reuse = False
+    args.basedir = os.getcwd()
     args.cwl_runner_job={"uuid": arvados.current_job()["uuid"], "state": arvados.current_job()["state"]}
     outputObj = runner.arvExecutor(t, job_order_object, **vars(args))