import arvados import arvados.keep import arvados.collection import arvados_cwl import functools import hashlib import mock import sys import unittest def stubs(func): @functools.wraps(func) @mock.patch("arvados.commands.keepdocker.list_images_in_arv") @mock.patch("arvados.collection.KeepClient") @mock.patch("arvados.events.subscribe") def wrapped(self, events, KeepClient, keepdocker, *args, **kwargs): class Stubs: pass stubs = Stubs() stubs.events = events stubs.KeepClient = KeepClient stubs.keepdocker = keepdocker def putstub(p, **kwargs): return "%s+%i" % (hashlib.md5(p).hexdigest(), len(p)) stubs.KeepClient().put.side_effect = putstub stubs.keepdocker.return_value = True stubs.fake_user_uuid = "zzzzz-tpzed-zzzzzzzzzzzzzzz" stubs.api = mock.MagicMock() stubs.api.users().current().execute.return_value = {"uuid": stubs.fake_user_uuid} stubs.api.collections().list().execute.return_value = {"items": []} stubs.api.collections().create().execute.side_effect = ({ "uuid": "zzzzz-4zz18-zzzzzzzzzzzzzz1", "portable_data_hash": "99999999999999999999999999999991+99", }, { "uuid": "zzzzz-4zz18-zzzzzzzzzzzzzz2", "portable_data_hash": "99999999999999999999999999999992+99", }) stubs.api.jobs().create().execute.return_value = { "uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz", "state": "Queued", } stubs.expect_job_spec = { 'owner_uuid': stubs.fake_user_uuid, 'runtime_constraints': { 'docker_image': 'arvados/jobs' }, 'script_parameters': { 'x': { 'path': '99999999999999999999999999999992+99/blorp.txt', 'class': 'File' }, 'cwl:tool': '99999999999999999999999999999991+99/wf/submit_wf.cwl' }, 'repository': 'arvados', 'script_version': 'master', 'script': 'cwl-runner' } return func(self, stubs, *args, **kwargs) return wrapped class TestSubmit(unittest.TestCase): @stubs def test_submit(self, stubs): arvados_cwl.main( ["--debug", "--submit", "--no-wait", "tests/wf/submit_wf.cwl", "tests/submit_test_job.json"], sys.stdout, sys.stderr, api_client=stubs.api) stubs.api.collections().create.assert_has_calls([ mock.call(), mock.call(body={ 'manifest_text': './tool 84ec4df683711de31b782505389a8843+429 0:16:blub.txt 16:413:submit_tool.cwl\n./wf 81d977a245a41b8e79859fbe00623fd0+344 0:344:submit_wf.cwl\n', 'owner_uuid': 'zzzzz-tpzed-zzzzzzzzzzzzzzz', 'name': 'submit_wf.cwl', }, ensure_unique_name=True), mock.call().execute(), mock.call(body={ 'manifest_text': '. 979af1245a12a1fed634d4222473bfdc+16 0:16:blorp.txt\n', 'owner_uuid': 'zzzzz-tpzed-zzzzzzzzzzzzzzz', 'name': '#', }, ensure_unique_name=True), mock.call().execute()]) stubs.api.jobs().create.assert_called_with( body=stubs.expect_job_spec, find_or_create=True) @stubs def test_submit_with_project_uuid(self, stubs): project_uuid = 'zzzzz-j7d0g-zzzzzzzzzzzzzzz' arvados_cwl.main( ["--debug", "--submit", "--no-wait", "--project-uuid", project_uuid, "tests/wf/submit_wf.cwl", "tests/submit_test_job.json"], sys.stdout, sys.stderr, api_client=stubs.api) expect_body = stubs.expect_job_spec.copy() expect_body["owner_uuid"] = project_uuid stubs.api.jobs().create.assert_called_with( body=expect_body, find_or_create=True)