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