--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/env/lib/python3.7/site-packages/cwltool/tests/test_toolargparse.py	Thu May 14 14:56:58 2020 -0400
@@ -0,0 +1,138 @@
+import os
+import sys
+from tempfile import NamedTemporaryFile
+from io import BytesIO, StringIO
+
+import pytest
+from cwltool.main import main
+import cwltool.executors
+
+from .util import get_data, needs_docker
+
+script_a = '''
+#!/usr/bin/env cwl-runner
+cwlVersion: v1.0
+class: CommandLineTool
+doc: "This tool is developed for SMC-RNA Challenge for detecting gene fusions (STAR fusion)"
+inputs:
+  #Give it a list of input files
+  - id: input
+    type: File
+    inputBinding:
+      position: 0
+outputs:
+  - id: output
+    type: File
+    outputBinding:
+      glob: test.txt
+stdout: test.txt
+baseCommand: [cat]
+'''
+
+script_b = '''
+#!/usr/bin/env cwl-runner
+cwlVersion: v1.0
+class: CommandLineTool
+inputs:
+  - id: bdg
+    type: "boolean"
+outputs:
+  - id: output
+    type: File
+    outputBinding:
+      glob: foo
+baseCommand:
+  - echo
+  - "ff"
+stdout: foo
+'''
+
+script_c = '''
+#!/usr/bin/env cwl-runner
+
+cwlVersion: v1.0
+class: ExpressionTool
+
+inputs:
+  foo:
+    type:
+      type: record
+      fields:
+        one: File
+        two: string
+
+expression: $(inputs.foo.two)
+
+outputs: []
+'''
+
+scripts_argparse_params = [
+    ('help', script_a,
+     lambda x: ["--debug", x, '--input', get_data('tests/echo.cwl')]
+     ),
+    ('boolean', script_b, lambda x: [x, '--help']
+     ),
+    ('help with c', script_c, lambda x: [x, '--help']),
+    ('foo with c', script_c,
+     lambda x: [x, '--foo.one', get_data('tests/echo.cwl'), '--foo.two', 'test']
+     )
+]
+
+@needs_docker
+@pytest.mark.parametrize('name,script_contents,params', scripts_argparse_params)
+def test_argparse(name, script_contents, params, tmpdir):
+    script = None
+    try:
+        script = NamedTemporaryFile(mode='w', delete=False)
+        script.write(script_contents)
+        script.close()
+
+        my_params = ["--outdir", str(tmpdir)]
+        my_params.extend(params(script.name))
+        assert main(my_params) == 0, name
+
+    except SystemExit as err:
+        assert err.code == 0, name
+    finally:
+        if script and script.name and os.path.exists(script.name):
+            os.unlink(script.name)
+
+
+class NoopJobExecutor(cwltool.executors.JobExecutor):
+    def run_jobs(self,
+                 process,           # type: Process
+                 job_order_object,  # type: Dict[Text, Any]
+                 logger,            # type: logging.Logger
+                 runtime_context     # type: RuntimeContext
+                ):  # type: (...) -> None
+        pass
+
+    def execute(self,
+                process,           # type: Process
+                job_order_object,  # type: Dict[Text, Any]
+                runtime_context,   # type: RuntimeContext
+                logger=None,       # type: logging.Logger
+               ):  # type: (...) -> Tuple[Optional[Union[Dict[Text, Any], List[Dict[Text, Any]]]], Text]
+        return {}, "success"
+
+def test_dont_require_inputs():
+    if sys.version_info[0] < 3:
+        stream = BytesIO()
+    else:
+        stream = StringIO()
+
+    script = None
+    try:
+        script = NamedTemporaryFile(mode='w', delete=False)
+        script.write(script_a)
+        script.close()
+
+        assert main(argsl=["--debug", script.name, "--input", script.name], executor=NoopJobExecutor(), stdout=stream) == 0
+        assert main(argsl=["--debug", script.name], executor=NoopJobExecutor(), stdout=stream) == 2
+        assert main(argsl=["--debug", script.name], executor=NoopJobExecutor(), input_required=False, stdout=stream) == 0
+
+    except SystemExit as err:
+        assert err.code == 0, name
+    finally:
+        if script and script.name and os.path.exists(script.name):
+            os.unlink(script.name)