cwltool.process._names = set()
arv_docker_clear_cache()
+ def tearDown(self):
+ root_logger = logging.getLogger('')
+
+ # Remove existing RuntimeStatusLoggingHandlers if they exist
+ handlers = [h for h in root_logger.handlers if not isinstance(h, arvados_cwl.executor.RuntimeStatusLoggingHandler)]
+ root_logger.handlers = handlers
+
def helper(self, runner, enable_reuse=True):
document_loader, avsc_names, schema_metadata, metaschema_loader = cwltool.process.get_schema(INTERNAL_VERSION)
body=JsonDiffMatcher(container_request))
+ # 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_preemptible_hint(self, keepdocker):
+ arvados_cwl.add_arv_hints()
+ for enable_preemptible in (None, True, False):
+ for preemptible_hint in (None, True, False):
+ arv_docker_clear_cache()
+
+ runner = mock.MagicMock()
+ runner.ignore_docker_for_reuse = False
+ runner.intermediate_output_ttl = 0
+ runner.secret_store = cwltool.secrets.SecretStore()
+ runner.api._rootDesc = {"revision": "20210628"}
+
+ keepdocker.return_value = [("zzzzz-4zz18-zzzzzzzzzzzzzz3", "")]
+ runner.api.collections().get().execute.return_value = {
+ "portable_data_hash": "99999999999999999999999999999993+99"}
+
+ if preemptible_hint is not None:
+ hints = [{
+ "class": "http://arvados.org/cwl#UsePreemptible",
+ "usePreemptible": preemptible_hint
+ }]
+ else:
+ hints = []
+
+ tool = cmap({
+ "inputs": [],
+ "outputs": [],
+ "baseCommand": "ls",
+ "arguments": [{"valueFrom": "$(runtime.outdir)"}],
+ "id": "",
+ "class": "CommandLineTool",
+ "cwlVersion": "v1.2",
+ "hints": hints
+ })
+
+ loadingContext, runtimeContext = self.helper(runner)
+
+ runtimeContext.name = 'test_run_enable_preemptible_'+str(enable_preemptible)+str(preemptible_hint)
+ runtimeContext.enable_preemptible = enable_preemptible
+
+ arvtool = cwltool.load_tool.load_tool(tool, loadingContext)
+ arvtool.formatgraph = None
+
+ # Test the interactions between --enable/disable-preemptible
+ # and UsePreemptible hint
+
+ if enable_preemptible is None:
+ if preemptible_hint is None:
+ sched = {}
+ else:
+ sched = {'preemptible': preemptible_hint}
+ else:
+ if preemptible_hint is None:
+ sched = {'preemptible': enable_preemptible}
+ else:
+ sched = {'preemptible': enable_preemptible and preemptible_hint}
+
+ for j in arvtool.job({}, mock.MagicMock(), runtimeContext):
+ j.run(runtimeContext)
+ runner.api.container_requests().create.assert_called_with(
+ body=JsonDiffMatcher({
+ 'environment': {
+ 'HOME': '/var/spool/cwl',
+ 'TMPDIR': '/tmp'
+ },
+ 'name': runtimeContext.name,
+ 'runtime_constraints': {
+ 'vcpus': 1,
+ 'ram': 268435456
+ },
+ 'use_existing': True,
+ 'priority': 500,
+ 'mounts': {
+ '/tmp': {'kind': 'tmp',
+ "capacity": 1073741824
+ },
+ '/var/spool/cwl': {'kind': 'tmp',
+ "capacity": 1073741824 }
+ },
+ 'state': 'Committed',
+ 'output_name': 'Output for step '+runtimeContext.name,
+ 'owner_uuid': 'zzzzz-8i9sb-zzzzzzzzzzzzzzz',
+ 'output_path': '/var/spool/cwl',
+ 'output_ttl': 0,
+ 'container_image': '99999999999999999999999999999993+99',
+ 'command': ['ls', '/var/spool/cwl'],
+ 'cwd': '/var/spool/cwl',
+ 'scheduling_parameters': sched,
+ 'properties': {},
+ 'secret_mounts': {},
+ 'output_storage_classes': ["default"]
+ }))
+
+
class TestWorkflow(unittest.TestCase):
def setUp(self):
runner.api.collections().list().execute.return_value = {"items": [{"uuid": "zzzzz-4zz18-zzzzzzzzzzzzzzz",
"portable_data_hash": "99999999999999999999999999999993+99"}]}
+ runner.api.containers().current().execute.return_value = {}
+
runner.project_uuid = "zzzzz-8i9sb-zzzzzzzzzzzzzzz"
runner.ignore_docker_for_reuse = False
runner.num_retries = 0
projects / arvados.git / blobdiff