X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/4744bcbfe19d352daa915a4249aacd4ccabaa505..e4b1a745a97af1d65bb1e03f770b34457003eae2:/sdk/cwl/tests/test_container.py

diff --git a/sdk/cwl/tests/test_container.py b/sdk/cwl/tests/test_container.py
new file mode 100644
index 0000000000..df7d1424db
--- /dev/null
+++ b/sdk/cwl/tests/test_container.py
@@ -0,0 +1,189 @@
+import arvados_cwl
+import logging
+import mock
+import unittest
+import os
+import cwltool.process
+
+if not os.getenv('ARVADOS_DEBUG'):
+    logging.getLogger('arvados.cwl-runner').setLevel(logging.WARN)
+    logging.getLogger('arvados.arv-run').setLevel(logging.WARN)
+
+
+class TestContainer(unittest.TestCase):
+
+    # The test passes no builder.resources
+    # Hence the default resources will apply: {'cores': 1, 'ram': 1024, 'outdirSize': 1024, 'tmpdirSize': 1024}
+    @mock.patch("arvados.commands.keepdocker.list_images_in_arv")
+    def test_run(self, keepdocker):
+        runner = mock.MagicMock()
+        runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
+        runner.ignore_docker_for_reuse = False
+
+        keepdocker.return_value = [("zzzzz-4zz18-zzzzzzzzzzzzzz3", "")]
+        runner.api.collections().get().execute.return_value = {
+            "portable_data_hash": "99999999999999999999999999999993+99"}
+
+        document_loader, avsc_names, schema_metadata, metaschema_loader = cwltool.process.get_schema("draft-3")
+
+        tool = {
+            "inputs": [],
+            "outputs": [],
+            "baseCommand": "ls"
+        }
+        arvtool = arvados_cwl.ArvadosCommandTool(runner, tool, work_api="containers", avsc_names=avsc_names, basedir="")
+        arvtool.formatgraph = None
+        for j in arvtool.job({}, mock.MagicMock(), basedir="", name="test_run"):
+            j.run()
+            runner.api.container_requests().create.assert_called_with(
+                body={
+                    'environment': {
+                        'TMPDIR': '/tmp'
+                    },
+                    'name': 'test_run',
+                    'runtime_constraints': {
+                        'vcpus': 1,
+                        'ram': 1073741824
+                    }, 'priority': 1,
+                    'mounts': {
+                        '/var/spool/cwl': {'kind': 'tmp'}
+                    },
+                    'state': 'Committed',
+                    'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
+                    'output_path': '/var/spool/cwl',
+                    'container_image': '99999999999999999999999999999993+99',
+                    'command': ['ls'],
+                    'cwd': '/var/spool/cwl'
+                })
+
+    # The test passes some fields in builder.resources
+    # For the remaining fields, the defaults will apply: {'cores': 1, 'ram': 1024, 'outdirSize': 1024, 'tmpdirSize': 1024}
+    @mock.patch("arvados.commands.keepdocker.list_images_in_arv")
+    def test_resource_requirements(self, keepdocker):
+        runner = mock.MagicMock()
+        runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
+        runner.ignore_docker_for_reuse = False
+        document_loader, avsc_names, schema_metadata, metaschema_loader = cwltool.process.get_schema("draft-3")
+
+        keepdocker.return_value = [("zzzzz-4zz18-zzzzzzzzzzzzzz3", "")]
+        runner.api.collections().get().execute.return_value = {
+            "portable_data_hash": "99999999999999999999999999999993+99"}
+
+        tool = {
+            "inputs": [],
+            "outputs": [],
+            "hints": [{
+                "class": "ResourceRequirement",
+                "coresMin": 3,
+                "ramMin": 3000,
+                "tmpdirMin": 4000
+            }],
+            "baseCommand": "ls"
+        }
+        arvtool = arvados_cwl.ArvadosCommandTool(runner, tool, work_api="containers", avsc_names=avsc_names)
+        arvtool.formatgraph = None
+        for j in arvtool.job({}, mock.MagicMock(), basedir="", name="test_resource_requirements"):
+            j.run()
+
+        runner.api.container_requests().create.assert_called_with(
+            body={
+                'environment': {
+                    'TMPDIR': '/tmp'
+                },
+                'name': 'test_resource_requirements',
+                'runtime_constraints': {
+                    'vcpus': 3,
+                    'ram': 3145728000
+                }, 'priority': 1,
+                'mounts': {
+                    '/var/spool/cwl': {'kind': 'tmp'}
+                },
+                'state': 'Committed',
+                'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
+                'output_path': '/var/spool/cwl',
+                'container_image': '99999999999999999999999999999993+99',
+                'command': ['ls'],
+                'cwd': '/var/spool/cwl'
+            })
+
+    @mock.patch("arvados.collection.Collection")
+    def test_done(self, col):
+        api = mock.MagicMock()
+
+        runner = mock.MagicMock()
+        runner.api = api
+        runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
+        runner.num_retries = 0
+        runner.ignore_docker_for_reuse = False
+
+        col().open.return_value = []
+        api.collections().list().execute.side_effect = ({"items": []},
+                                                        {"items": [{"manifest_text": "XYZ"}]})
+
+        arvjob = arvados_cwl.ArvadosContainer(runner)
+        arvjob.name = "testjob"
+        arvjob.builder = mock.MagicMock()
+        arvjob.output_callback = mock.MagicMock()
+        arvjob.collect_outputs = mock.MagicMock()
+        arvjob.successCodes = [0]
+
+        arvjob.done({
+            "state": "Complete",
+            "output": "99999999999999999999999999999993+99",
+            "log": "99999999999999999999999999999994+99",
+            "uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz",
+            "exit_code": 0
+        })
+
+        api.collections().list.assert_has_calls([
+            mock.call(),
+            mock.call(filters=[['owner_uuid', '=', 'zzzzz-8i9sb-zzzzzzzzzzzzzzz'],
+                          ['portable_data_hash', '=', '99999999999999999999999999999993+99'],
+                          ['name', '=', 'Output 9999999 of testjob']]),
+            mock.call().execute(num_retries=0),
+            mock.call(limit=1, filters=[['portable_data_hash', '=', '99999999999999999999999999999993+99']],
+                 select=['manifest_text']),
+            mock.call().execute(num_retries=0)])
+
+        api.collections().create.assert_called_with(
+            ensure_unique_name=True,
+            body={'portable_data_hash': '99999999999999999999999999999993+99',
+                  'manifest_text': 'XYZ',
+                  'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
+                  'name': 'Output 9999999 of testjob'})
+
+    @mock.patch("arvados.collection.Collection")
+    def test_done_use_existing_collection(self, col):
+        api = mock.MagicMock()
+
+        runner = mock.MagicMock()
+        runner.api = api
+        runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
+        runner.num_retries = 0
+
+        col().open.return_value = []
+        api.collections().list().execute.side_effect = ({"items": [{"uuid": "zzzzz-4zz18-zzzzzzzzzzzzzz2"}]},)
+
+        arvjob = arvados_cwl.ArvadosContainer(runner)
+        arvjob.name = "testjob"
+        arvjob.builder = mock.MagicMock()
+        arvjob.output_callback = mock.MagicMock()
+        arvjob.collect_outputs = mock.MagicMock()
+        arvjob.successCodes = [0]
+
+        arvjob.done({
+            "state": "Complete",
+            "output": "99999999999999999999999999999993+99",
+            "log": "99999999999999999999999999999994+99",
+            "uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz",
+            "exit_code": 0
+        })
+
+        api.collections().list.assert_has_calls([
+            mock.call(),
+            mock.call(filters=[['owner_uuid', '=', 'zzzzz-8i9sb-zzzzzzzzzzzzzzz'],
+                               ['portable_data_hash', '=', '99999999999999999999999999999993+99'],
+                               ['name', '=', 'Output 9999999 of testjob']]),
+            mock.call().execute(num_retries=0)])
+
+        self.assertFalse(api.collections().create.called)