+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: Apache-2.0
+
from __future__ import absolute_import
from builtins import object
import mock
import os
import pprint
+import random
import re
import sys
import tempfile
+import time
import unittest
from . import run_test_server
@classmethod
def setUpClass(cls):
super(ArvadosCollectionsTest, cls).setUpClass()
- run_test_server.authorize_with('active')
+ # need admin privileges to make collections with unsigned blocks
+ run_test_server.authorize_with('admin')
cls.api_client = arvados.api('v1')
cls.keep_client = arvados.KeepClient(api_client=cls.api_client,
local_store=cls.local_store)
". 3858f62230ac3c915f300c664312c63f+6 0:3:foo.txt 3:3:bar.txt\n" +
"./baz 73feffa4b7f6bb68e44cf984c85f6e88+3 0:3:baz.txt\n",
"wrong manifest: got {}".format(cw.manifest_text()))
- cw.finish()
+ cw.save_new()
return cw.portable_data_hash()
+ def test_pdh_is_native_str(self):
+ pdh = self.write_foo_bar_baz()
+ self.assertEqual(type(''), type(pdh))
+
def test_keep_local_store(self):
self.assertEqual(self.keep_client.put(b'foo'), 'acbd18db4cc2f85cedef654fccc4a4d8+3', 'wrong md5 hash from Keep.put')
self.assertEqual(self.keep_client.get('acbd18db4cc2f85cedef654fccc4a4d8+3'), b'foo', 'wrong data from Keep.get')
self.assertEqual(stream0.readfrom(2**26, 0),
b'',
'reading zero bytes should have returned empty string')
+ self.assertEqual(3, len(cr))
+ self.assertTrue(cr)
def _test_subset(self, collection, expected):
cr = arvados.CollectionReader(collection, self.api_client)
self.assertRaises(arvados.errors.AssertionError,
cwriter.write, "badtext")
- def test_read_arbitrary_data_with_collection_reader(self):
- # arv-get relies on this to do "arv-get {keep-locator} -".
- self.write_foo_bar_baz()
- self.assertEqual(
- 'foobar',
- arvados.CollectionReader(
- '3858f62230ac3c915f300c664312c63f+6'
- ).manifest_text())
-
class CollectionTestMixin(tutil.ApiClientMock):
API_COLLECTIONS = run_test_server.fixture('collections')
api_client=client)
self.assertEqual(self.DEFAULT_MANIFEST, reader.manifest_text())
- def test_locator_init_fallback_to_keep(self):
- # crunch-job needs this to read manifests that have only ever
- # been written to Keep.
- client = self.api_client_mock(200)
- self.mock_get_collection(client, 404, None)
- with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
- reader = arvados.CollectionReader(self.DEFAULT_DATA_HASH,
- api_client=client)
- self.assertEqual(self.DEFAULT_MANIFEST, reader.manifest_text())
-
- def test_uuid_init_no_fallback_to_keep(self):
- # Do not look up a collection UUID in Keep.
- client = self.api_client_mock(404)
- with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
- with self.assertRaises(arvados.errors.ApiError):
- reader = arvados.CollectionReader(self.DEFAULT_UUID,
- api_client=client)
-
- def test_try_keep_first_if_permission_hint(self):
- # To verify that CollectionReader tries Keep first here, we
- # mock API server to return the wrong data.
- client = self.api_client_mock(200)
- with tutil.mock_keep_responses(self.ALT_MANIFEST, 200):
- self.assertEqual(
- self.ALT_MANIFEST,
- arvados.CollectionReader(
- self.ALT_DATA_HASH + '+Affffffffffffffffffffffffffffffffffffffff@fedcba98',
- api_client=client).manifest_text())
+ def test_init_no_fallback_to_keep(self):
+ # Do not look up a collection UUID or PDH in Keep.
+ for key in [self.DEFAULT_UUID, self.DEFAULT_DATA_HASH]:
+ client = self.api_client_mock(404)
+ with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
+ with self.assertRaises(arvados.errors.ApiError):
+ reader = arvados.CollectionReader(key, api_client=client)
def test_init_num_retries_propagated(self):
# More of an integration test...
reader = arvados.CollectionReader('d41d8cd98f00b204e9800998ecf8427e+0',
api_client=client)
self.assertEqual('', reader.manifest_text())
+ self.assertEqual(0, len(reader))
+ self.assertFalse(reader)
def test_api_response(self):
client = self.api_client_mock()
reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
self.assertEqual(self.DEFAULT_COLLECTION, reader.api_response())
- def test_api_response_with_collection_from_keep(self):
- client = self.api_client_mock()
- self.mock_get_collection(client, 404, 'foo')
- with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
- reader = arvados.CollectionReader(self.DEFAULT_DATA_HASH,
- api_client=client)
- api_response = reader.api_response()
- self.assertIsNone(api_response)
-
def check_open_file(self, coll_file, stream_name, file_name, file_size):
self.assertFalse(coll_file.closed, "returned file is not open")
self.assertEqual(stream_name, coll_file.stream_name())
self.assertRaises(arvados.errors.AssertionError, writer.open, 'two')
+class CollectionMethods(run_test_server.TestCaseWithServers):
+
+ def test_keys_values_items_support_indexing(self):
+ c = Collection()
+ with c.open('foo', 'wb') as f:
+ f.write(b'foo')
+ with c.open('bar', 'wb') as f:
+ f.write(b'bar')
+ self.assertEqual(2, len(c.keys()))
+ if sys.version_info < (3, 0):
+ # keys() supports indexing only for python2 callers.
+ fn0 = c.keys()[0]
+ fn1 = c.keys()[1]
+ else:
+ fn0, fn1 = c.keys()
+ self.assertEqual(2, len(c.values()))
+ f0 = c.values()[0]
+ f1 = c.values()[1]
+ self.assertEqual(2, len(c.items()))
+ self.assertEqual(fn0, c.items()[0][0])
+ self.assertEqual(fn1, c.items()[1][0])
+
+
class CollectionOpenModes(run_test_server.TestCaseWithServers):
def test_open_binary_modes(self):
c = Collection()
for mode in ['wb', 'wb+', 'ab', 'ab+']:
- with c.open('foo', 'wb') as f:
+ with c.open('foo', mode) as f:
f.write(b'foo')
def test_open_invalid_modes(self):
self.assertEqual(c1["count1.txt"].size(), 0)
+class NewCollectionTestCaseWithServersAndTokens(run_test_server.TestCaseWithServers):
+ MAIN_SERVER = {}
+ KEEP_SERVER = {}
+
+ def setUp(self):
+ self.keep_put = getattr(arvados.keep.KeepClient, 'put')
+
+ def test_repacked_block_submission_get_permission_token(self):
+ '''
+ Make sure that those blocks that are committed after repacking small ones,
+ get their permission tokens assigned on the collection manifest.
+ '''
+ def wrapped_keep_put(*args, **kwargs):
+ # Simulate slow put operations
+ time.sleep(1)
+ return self.keep_put(*args, **kwargs)
+
+ re_locator = "[0-9a-f]{32}\+\d+\+A[a-f0-9]{40}@[a-f0-9]{8}"
+
+ with mock.patch('arvados.keep.KeepClient.put', autospec=True) as mocked_put:
+ mocked_put.side_effect = wrapped_keep_put
+ c = Collection()
+ # Write 70 files ~1MiB each so we force to produce 1 big block by repacking
+ # small ones before finishing the upload.
+ for i in range(70):
+ f = c.open("file_{}.txt".format(i), 'wb')
+ f.write(random.choice('abcdefghijklmnopqrstuvwxyz') * (2**20+i))
+ f.close(flush=False)
+ # We should get 2 blocks with their tokens
+ self.assertEqual(len(re.findall(re_locator, c.manifest_text())), 2)
+
+
class NewCollectionTestCaseWithServers(run_test_server.TestCaseWithServers):
def test_get_manifest_text_only_committed(self):
c = Collection()
def test_only_small_blocks_are_packed_together(self):
c = Collection()
- # Write a couple of small files,
+ # Write a couple of small files,
f = c.open("count.txt", "wb")
f.write(b"0123456789")
f.close(flush=False)
c.manifest_text("."),
'. 2d303c138c118af809f39319e5d507e9+34603008 a8430a058b8fbf408e1931b794dbd6fb+13 0:34603008:bigfile.txt 34603008:10:count.txt 34603018:3:foo.txt\n')
+ def test_flush_after_small_block_packing(self):
+ c = Collection()
+ # Write a couple of small files,
+ f = c.open("count.txt", "wb")
+ f.write(b"0123456789")
+ f.close(flush=False)
+ foo = c.open("foo.txt", "wb")
+ foo.write(b"foo")
+ foo.close(flush=False)
+
+ self.assertEqual(
+ c.manifest_text(),
+ '. a8430a058b8fbf408e1931b794dbd6fb+13 0:10:count.txt 10:3:foo.txt\n')
+
+ f = c.open("count.txt", "rb+")
+ f.close(flush=True)
+
+ self.assertEqual(
+ c.manifest_text(),
+ '. a8430a058b8fbf408e1931b794dbd6fb+13 0:10:count.txt 10:3:foo.txt\n')
+
+ def test_write_after_small_block_packing2(self):
+ c = Collection()
+ # Write a couple of small files,
+ f = c.open("count.txt", "wb")
+ f.write(b"0123456789")
+ f.close(flush=False)
+ foo = c.open("foo.txt", "wb")
+ foo.write(b"foo")
+ foo.close(flush=False)
+
+ self.assertEqual(
+ c.manifest_text(),
+ '. a8430a058b8fbf408e1931b794dbd6fb+13 0:10:count.txt 10:3:foo.txt\n')
+
+ f = c.open("count.txt", "rb+")
+ f.write(b"abc")
+ f.close(flush=False)
+
+ self.assertEqual(
+ c.manifest_text(),
+ '. 900150983cd24fb0d6963f7d28e17f72+3 a8430a058b8fbf408e1931b794dbd6fb+13 0:3:count.txt 6:7:count.txt 13:3:foo.txt\n')
+
+
+ def test_small_block_packing_with_overwrite(self):
+ c = Collection()
+ c.open("b1", "wb").close()
+ c["b1"].writeto(0, b"b1", 0)
+
+ c.open("b2", "wb").close()
+ c["b2"].writeto(0, b"b2", 0)
+
+ c["b1"].writeto(0, b"1b", 0)
+
+ self.assertEqual(c.manifest_text(), ". ed4f3f67c70b02b29c50ce1ea26666bd+4 0:2:b1 2:2:b2\n")
+ self.assertEqual(c["b1"].manifest_text(), ". ed4f3f67c70b02b29c50ce1ea26666bd+4 0:2:b1\n")
+ self.assertEqual(c["b2"].manifest_text(), ". ed4f3f67c70b02b29c50ce1ea26666bd+4 2:2:b2\n")
+
class CollectionCreateUpdateTest(run_test_server.TestCaseWithServers):
MAIN_SERVER = {}
c1.manifest_text(),
r"\. e65075d550f9b5bf9992fa1d71a131be\+3\S* 7ac66c0f148de9519b8bd264312c4d64\+7\S* 0:3:count\.txt 3:7:count\.txt~\d\d\d\d\d\d\d\d-\d\d\d\d\d\d~conflict~$")
+ def test_pdh_is_native_str(self):
+ c1 = self.create_count_txt()
+ pdh = c1.portable_data_hash()
+ self.assertEqual(type(''), type(pdh))
+
if __name__ == '__main__':
unittest.main()
projects / arvados.git / blobdiff