sdk/cwl/tests/test_make_output.py

   1 # Copyright (C) The Arvados Authors. All rights reserved.
   2 #
   3 # SPDX-License-Identifier: Apache-2.0
   4
   5 from future import standard_library
   6 standard_library.install_aliases()
   7
   8 import functools
   9 import json
  10 import logging
  11 import mock
  12 import os
  13 import io
  14 import unittest
  15
  16 import arvados
  17 import arvados_cwl
  18 import arvados_cwl.executor
  19 from .mock_discovery import get_rootDesc
  20
  21 class TestMakeOutput(unittest.TestCase):
  22     def setUp(self):
  23         self.api = mock.MagicMock()
  24         self.api._rootDesc = get_rootDesc()
  25
  26     @mock.patch("arvados.collection.Collection")
  27     @mock.patch("arvados.collection.CollectionReader")
  28     def test_make_output_collection(self, reader, col):
  29         keep_client = mock.MagicMock()
  30         runner = arvados_cwl.executor.ArvCwlExecutor(self.api, keep_client=keep_client)
  31         runner.project_uuid = 'zzzzz-j7d0g-zzzzzzzzzzzzzzz'
  32
  33         final = mock.MagicMock()
  34         col.return_value = final
  35         readermock = mock.MagicMock()
  36         reader.return_value = readermock
  37
  38         final_uuid = final.manifest_locator()
  39         num_retries = runner.num_retries
  40
  41         cwlout = io.StringIO()
  42         openmock = mock.MagicMock()
  43         final.open.return_value = openmock
  44         openmock.__enter__.return_value = cwlout
  45
  46         _, runner.final_output_collection = runner.make_output_collection("Test output", ["foo"], "tag0,tag1,tag2", {
  47             "foo": {
  48                 "class": "File",
  49                 "location": "keep:99999999999999999999999999999991+99/foo.txt",
  50                 "size": 3,
  51                 "basename": "foo.txt"
  52             },
  53             "bar": {
  54                 "class": "File",
  55                 "location": "keep:99999999999999999999999999999992+99/bar.txt",
  56                 "basename": "baz.txt",
  57                 "size": 4
  58             }
  59         })
  60
  61         final.copy.assert_has_calls([mock.call('bar.txt', 'baz.txt', overwrite=False, source_collection=readermock)])
  62         final.copy.assert_has_calls([mock.call('foo.txt', 'foo.txt', overwrite=False, source_collection=readermock)])
  63         final.save_new.assert_has_calls([mock.call(ensure_unique_name=True, name='Test output', owner_uuid='zzzzz-j7d0g-zzzzzzzzzzzzzzz', storage_classes=['foo'])])
  64         self.assertEqual("""{
  65     "bar": {
  66         "basename": "baz.txt",
  67         "class": "File",
  68         "location": "baz.txt",
  69         "size": 4
  70     },
  71     "foo": {
  72         "basename": "foo.txt",
  73         "class": "File",
  74         "location": "foo.txt",
  75         "size": 3
  76     }
  77 }""", cwlout.getvalue())
  78
  79         self.assertIs(final, runner.final_output_collection)
  80         self.assertIs(final_uuid, runner.final_output_collection.manifest_locator())
  81         self.api.links().create.assert_has_calls([mock.call(body={"head_uuid": final_uuid, "link_class": "tag", "name": "tag0"}), mock.call().execute(num_retries=num_retries)])
  82         self.api.links().create.assert_has_calls([mock.call(body={"head_uuid": final_uuid, "link_class": "tag", "name": "tag1"}), mock.call().execute(num_retries=num_retries)])
  83         self.api.links().create.assert_has_calls([mock.call(body={"head_uuid": final_uuid, "link_class": "tag", "name": "tag2"}), mock.call().execute(num_retries=num_retries)])