--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/planemo/lib/python3.7/site-packages/cwltool/tests/test_pack.py	Fri Jul 31 00:18:57 2020 -0400
@@ -0,0 +1,157 @@
+import json
+from ruamel import yaml
+import os
+import tempfile
+from functools import partial
+
+from six import StringIO
+import pytest
+
+import cwltool.pack
+import cwltool.workflow
+from cwltool import load_tool
+from cwltool.load_tool import fetch_document, resolve_and_validate_document
+from cwltool.main import main, make_relative, print_pack
+from cwltool.pathmapper import adjustDirObjs, adjustFileObjs
+from cwltool.resolver import tool_resolver
+from cwltool.context import LoadingContext
+
+from .util import get_data, needs_docker
+
+
+def test_pack():
+    loadingContext, workflowobj, uri = fetch_document(get_data("tests/wf/revsort.cwl"))
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+
+    with open(get_data("tests/wf/expect_packed.cwl")) as packed_file:
+        expect_packed = yaml.safe_load(packed_file)
+
+    packed = cwltool.pack.pack(loadingContext.loader, processobj, uri, loadingContext.metadata)
+    adjustFileObjs(packed, partial(make_relative, os.path.abspath(get_data("tests/wf"))))
+    adjustDirObjs(packed, partial(make_relative, os.path.abspath(get_data("tests/wf"))))
+
+    assert "$schemas" in packed
+    assert len(packed["$schemas"]) == len(expect_packed["$schemas"])
+    del packed["$schemas"]
+    del expect_packed["$schemas"]
+
+    assert packed == expect_packed
+
+
+def test_pack_single_tool():
+    loadingContext, workflowobj, uri = fetch_document(
+        get_data("tests/wf/formattest.cwl"))
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+
+    packed = cwltool.pack.pack(loadingContext.loader, processobj, uri, loadingContext.metadata)
+    assert "$schemas" in packed
+
+def test_pack_rewrites():
+    rewrites = {}
+
+    loadingContext, workflowobj, uri = fetch_document(get_data("tests/wf/default-wf5.cwl"))
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+
+    cwltool.pack.pack(loadingContext.loader, processobj, uri, loadingContext.metadata, rewrite_out=rewrites)
+
+    assert len(rewrites) == 6
+
+cwl_missing_version_paths = [
+    "tests/wf/hello_single_tool.cwl",
+    "tests/wf/hello-workflow.cwl"
+]
+
+@pytest.mark.parametrize('cwl_path', cwl_missing_version_paths)
+def test_pack_missing_cwlVersion(cwl_path):
+    """Ensure the generated pack output is not missing the `cwlVersion` in case of single tool workflow and single step workflow."""
+    # Testing single tool workflow
+    loadingContext, workflowobj, uri = fetch_document(get_data(cwl_path))
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+
+    # generate pack output dict
+    packed = json.loads(print_pack(loadingContext.loader, processobj, uri, loadingContext.metadata))
+
+    assert packed["cwlVersion"] == 'v1.0'
+
+def test_pack_idempotence_tool():
+    """Ensure that pack produces exactly the same document for an already packed CommandLineTool."""
+    _pack_idempotently("tests/wf/hello_single_tool.cwl")
+
+def test_pack_idempotence_workflow():
+    """Ensure that pack produces exactly the same document for an already packed workflow."""
+    _pack_idempotently("tests/wf/count-lines1-wf.cwl")
+
+def _pack_idempotently(document):
+    loadingContext, workflowobj, uri = fetch_document(
+        get_data(document))
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+
+    # generate pack output dict
+    packed = json.loads(print_pack(loadingContext.loader, processobj, uri, loadingContext.metadata))
+
+    loadingContext, workflowobj, uri2 = fetch_document(packed)
+    loadingContext.do_update = False
+    loadingContext, uri2 = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri2)[0]
+    double_packed = json.loads(print_pack(loadingContext.loader, processobj, uri2, loadingContext.metadata))
+    assert packed == double_packed
+
+cwl_to_run = [
+    ("tests/wf/count-lines1-wf.cwl",
+     "tests/wf/wc-job.json",
+     False
+     ),
+    ("tests/wf/formattest.cwl",
+     "tests/wf/formattest-job.json",
+     True
+     ),
+]
+
+@needs_docker
+@pytest.mark.parametrize('wf_path,job_path,namespaced', cwl_to_run)
+def test_packed_workflow_execution(wf_path, job_path, namespaced, tmpdir):
+    loadingContext = LoadingContext()
+    loadingContext.resolver = tool_resolver
+    loadingContext, workflowobj, uri = fetch_document(
+        get_data(wf_path), loadingContext)
+    loadingContext.do_update = False
+    loadingContext, uri = resolve_and_validate_document(
+        loadingContext, workflowobj, uri)
+    processobj = loadingContext.loader.resolve_ref(uri)[0]
+    packed = json.loads(print_pack(loadingContext.loader, processobj, uri, loadingContext.metadata))
+
+    assert not namespaced or "$namespaces" in packed
+
+    wf_packed_handle, wf_packed_path = tempfile.mkstemp()
+    with open(wf_packed_path, 'w') as temp_file:
+        json.dump(packed, temp_file)
+
+    normal_output = StringIO()
+    packed_output = StringIO()
+
+    normal_params = ['--outdir', str(tmpdir), get_data(wf_path), get_data(job_path)]
+    packed_params = ['--outdir', str(tmpdir), '--debug', wf_packed_path, get_data(job_path)]
+
+    assert main(normal_params, stdout=normal_output) == 0
+    assert main(packed_params, stdout=packed_output) == 0
+
+    assert json.loads(packed_output.getvalue()) == json.loads(normal_output.getvalue())
+
+    os.close(wf_packed_handle)
+    os.remove(wf_packed_path)