8 if not os.getenv('ARVADOS_DEBUG'):
9 logging.getLogger('arvados.cwl-runner').setLevel(logging.WARN)
10 logging.getLogger('arvados.arv-run').setLevel(logging.WARN)
13 class TestContainer(unittest.TestCase):
15 # The test passes no builder.resources
16 # Hence the default resources will apply: {'cores': 1, 'ram': 1024, 'outdirSize': 1024, 'tmpdirSize': 1024}
17 @mock.patch("arvados.commands.keepdocker.list_images_in_arv")
18 def test_run(self, keepdocker):
19 runner = mock.MagicMock()
20 runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
21 runner.ignore_docker_for_reuse = False
23 keepdocker.return_value = [("zzzzz-4zz18-zzzzzzzzzzzzzz3", "")]
24 runner.api.collections().get().execute.return_value = {
25 "portable_data_hash": "99999999999999999999999999999993+99"}
27 document_loader, avsc_names, schema_metadata, metaschema_loader = cwltool.process.get_schema("draft-3")
34 arvtool = arvados_cwl.ArvadosCommandTool(runner, tool, work_api="containers", avsc_names=avsc_names, basedir="")
35 arvtool.formatgraph = None
36 for j in arvtool.job({}, mock.MagicMock(), basedir="", name="test_run"):
38 runner.api.container_requests().create.assert_called_with(
44 'runtime_constraints': {
49 '/var/spool/cwl': {'kind': 'tmp'}
52 'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
53 'output_path': '/var/spool/cwl',
54 'container_image': '99999999999999999999999999999993+99',
56 'cwd': '/var/spool/cwl'
59 # The test passes some fields in builder.resources
60 # For the remaining fields, the defaults will apply: {'cores': 1, 'ram': 1024, 'outdirSize': 1024, 'tmpdirSize': 1024}
61 @mock.patch("arvados.commands.keepdocker.list_images_in_arv")
62 def test_resource_requirements(self, keepdocker):
63 runner = mock.MagicMock()
64 runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
65 runner.ignore_docker_for_reuse = False
66 document_loader, avsc_names, schema_metadata, metaschema_loader = cwltool.process.get_schema("draft-3")
68 keepdocker.return_value = [("zzzzz-4zz18-zzzzzzzzzzzzzz3", "")]
69 runner.api.collections().get().execute.return_value = {
70 "portable_data_hash": "99999999999999999999999999999993+99"}
76 "class": "ResourceRequirement",
83 arvtool = arvados_cwl.ArvadosCommandTool(runner, tool, work_api="containers", avsc_names=avsc_names)
84 arvtool.formatgraph = None
85 for j in arvtool.job({}, mock.MagicMock(), basedir="", name="test_resource_requirements"):
88 runner.api.container_requests().create.assert_called_with(
93 'name': 'test_resource_requirements',
94 'runtime_constraints': {
99 '/var/spool/cwl': {'kind': 'tmp'}
101 'state': 'Committed',
102 'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
103 'output_path': '/var/spool/cwl',
104 'container_image': '99999999999999999999999999999993+99',
106 'cwd': '/var/spool/cwl'
109 @mock.patch("arvados.collection.Collection")
110 def test_done(self, col):
111 api = mock.MagicMock()
113 runner = mock.MagicMock()
115 runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
116 runner.num_retries = 0
117 runner.ignore_docker_for_reuse = False
119 col().open.return_value = []
120 api.collections().list().execute.side_effect = ({"items": []},
121 {"items": [{"manifest_text": "XYZ"}]})
123 arvjob = arvados_cwl.ArvadosContainer(runner)
124 arvjob.name = "testjob"
125 arvjob.builder = mock.MagicMock()
126 arvjob.output_callback = mock.MagicMock()
127 arvjob.collect_outputs = mock.MagicMock()
128 arvjob.successCodes = [0]
132 "output": "99999999999999999999999999999993+99",
133 "log": "99999999999999999999999999999994+99",
134 "uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz",
138 api.collections().list.assert_has_calls([
140 mock.call(filters=[['owner_uuid', '=', 'zzzzz-8i9sb-zzzzzzzzzzzzzzz'],
141 ['portable_data_hash', '=', '99999999999999999999999999999993+99'],
142 ['name', '=', 'Output 9999999 of testjob']]),
143 mock.call().execute(num_retries=0),
144 mock.call(limit=1, filters=[['portable_data_hash', '=', '99999999999999999999999999999993+99']],
145 select=['manifest_text']),
146 mock.call().execute(num_retries=0)])
148 api.collections().create.assert_called_with(
149 ensure_unique_name=True,
150 body={'portable_data_hash': '99999999999999999999999999999993+99',
151 'manifest_text': 'XYZ',
152 'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
153 'name': 'Output 9999999 of testjob'})
155 @mock.patch("arvados.collection.Collection")
156 def test_done_use_existing_collection(self, col):
157 api = mock.MagicMock()
159 runner = mock.MagicMock()
161 runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
162 runner.num_retries = 0
164 col().open.return_value = []
165 api.collections().list().execute.side_effect = ({"items": [{"uuid": "zzzzz-4zz18-zzzzzzzzzzzzzz2"}]},)
167 arvjob = arvados_cwl.ArvadosContainer(runner)
168 arvjob.name = "testjob"
169 arvjob.builder = mock.MagicMock()
170 arvjob.output_callback = mock.MagicMock()
171 arvjob.collect_outputs = mock.MagicMock()
172 arvjob.successCodes = [0]
176 "output": "99999999999999999999999999999993+99",
177 "log": "99999999999999999999999999999994+99",
178 "uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz",
182 api.collections().list.assert_has_calls([
184 mock.call(filters=[['owner_uuid', '=', 'zzzzz-8i9sb-zzzzzzzzzzzzzzz'],
185 ['portable_data_hash', '=', '99999999999999999999999999999993+99'],
186 ['name', '=', 'Output 9999999 of testjob']]),
187 mock.call().execute(num_retries=0)])
189 self.assertFalse(api.collections().create.called)