sdk/python/tests/test_collections.py

   1 from __future__ import absolute_import
   2 # usage example:
   3 #
   4 # ARVADOS_API_TOKEN=abc ARVADOS_API_HOST=arvados.local python -m unittest discover
   5
   6 from builtins import object
   7 import arvados
   8 import copy
   9 import mock
  10 import os
  11 import pprint
  12 import re
  13 import sys
  14 import tempfile
  15 import unittest
  16
  17 from . import run_test_server
  18 from arvados._ranges import Range, LocatorAndRange
  19 from arvados.collection import Collection, CollectionReader
  20 from . import arvados_testutil as tutil
  21
  22 class TestResumableWriter(arvados.ResumableCollectionWriter):
  23     KEEP_BLOCK_SIZE = 1024  # PUT to Keep every 1K.
  24
  25     def current_state(self):
  26         return self.dump_state(copy.deepcopy)
  27
  28
  29 class ArvadosCollectionsTest(run_test_server.TestCaseWithServers,
  30                              tutil.ArvadosBaseTestCase):
  31     MAIN_SERVER = {}
  32
  33     @classmethod
  34     def setUpClass(cls):
  35         super(ArvadosCollectionsTest, cls).setUpClass()
  36         run_test_server.authorize_with('active')
  37         cls.api_client = arvados.api('v1')
  38         cls.keep_client = arvados.KeepClient(api_client=cls.api_client,
  39                                              local_store=cls.local_store)
  40
  41     def write_foo_bar_baz(self):
  42         cw = arvados.CollectionWriter(self.api_client)
  43         self.assertEqual(cw.current_stream_name(), '.',
  44                          'current_stream_name() should be "." now')
  45         cw.set_current_file_name('foo.txt')
  46         cw.write(b'foo')
  47         self.assertEqual(cw.current_file_name(), 'foo.txt',
  48                          'current_file_name() should be foo.txt now')
  49         cw.start_new_file('bar.txt')
  50         cw.write(b'bar')
  51         cw.start_new_stream('baz')
  52         cw.write(b'baz')
  53         cw.set_current_file_name('baz.txt')
  54         self.assertEqual(cw.manifest_text(),
  55                          ". 3858f62230ac3c915f300c664312c63f+6 0:3:foo.txt 3:3:bar.txt\n" +
  56                          "./baz 73feffa4b7f6bb68e44cf984c85f6e88+3 0:3:baz.txt\n",
  57                          "wrong manifest: got {}".format(cw.manifest_text()))
  58         cw.finish()
  59         return cw.portable_data_hash()
  60
  61     def test_keep_local_store(self):
  62         self.assertEqual(self.keep_client.put(b'foo'), 'acbd18db4cc2f85cedef654fccc4a4d8+3', 'wrong md5 hash from Keep.put')
  63         self.assertEqual(self.keep_client.get('acbd18db4cc2f85cedef654fccc4a4d8+3'), b'foo', 'wrong data from Keep.get')
  64
  65     def test_local_collection_writer(self):
  66         self.assertEqual(self.write_foo_bar_baz(),
  67                          '23ca013983d6239e98931cc779e68426+114',
  68                          'wrong locator hash: ' + self.write_foo_bar_baz())
  69
  70     def test_local_collection_reader(self):
  71         foobarbaz = self.write_foo_bar_baz()
  72         cr = arvados.CollectionReader(
  73             foobarbaz + '+Xzizzle', self.api_client)
  74         got = []
  75         for s in cr.all_streams():
  76             for f in s.all_files():
  77                 got += [[f.size(), f.stream_name(), f.name(), f.read(2**26)]]
  78         expected = [[3, '.', 'foo.txt', b'foo'],
  79                     [3, '.', 'bar.txt', b'bar'],
  80                     [3, './baz', 'baz.txt', b'baz']]
  81         self.assertEqual(got,
  82                          expected)
  83         stream0 = cr.all_streams()[0]
  84         self.assertEqual(stream0.readfrom(0, 0),
  85                          b'',
  86                          'reading zero bytes should have returned empty string')
  87         self.assertEqual(stream0.readfrom(0, 2**26),
  88                          b'foobar',
  89                          'reading entire stream failed')
  90         self.assertEqual(stream0.readfrom(2**26, 0),
  91                          b'',
  92                          'reading zero bytes should have returned empty string')
  93
  94     def _test_subset(self, collection, expected):
  95         cr = arvados.CollectionReader(collection, self.api_client)
  96         for s in cr.all_streams():
  97             for ex in expected:
  98                 if ex[0] == s:
  99                     f = s.files()[ex[2]]
 100                     got = [f.size(), f.stream_name(), f.name(), "".join(f.readall(2**26))]
 101                     self.assertEqual(got,
 102                                      ex,
 103                                      'all_files|as_manifest did not preserve manifest contents: got %s expected %s' % (got, ex))
 104
 105     def test_collection_manifest_subset(self):
 106         foobarbaz = self.write_foo_bar_baz()
 107         self._test_subset(foobarbaz,
 108                           [[3, '.',     'bar.txt', b'bar'],
 109                            [3, '.',     'foo.txt', b'foo'],
 110                            [3, './baz', 'baz.txt', b'baz']])
 111         self._test_subset((". %s %s 0:3:foo.txt 3:3:bar.txt\n" %
 112                            (self.keep_client.put(b"foo"),
 113                             self.keep_client.put(b"bar"))),
 114                           [[3, '.', 'bar.txt', b'bar'],
 115                            [3, '.', 'foo.txt', b'foo']])
 116         self._test_subset((". %s %s 0:2:fo.txt 2:4:obar.txt\n" %
 117                            (self.keep_client.put(b"foo"),
 118                             self.keep_client.put(b"bar"))),
 119                           [[2, '.', 'fo.txt', b'fo'],
 120                            [4, '.', 'obar.txt', b'obar']])
 121         self._test_subset((". %s %s 0:2:fo.txt 2:0:zero.txt 2:2:ob.txt 4:2:ar.txt\n" %
 122                            (self.keep_client.put(b"foo"),
 123                             self.keep_client.put(b"bar"))),
 124                           [[2, '.', 'ar.txt', b'ar'],
 125                            [2, '.', 'fo.txt', b'fo'],
 126                            [2, '.', 'ob.txt', b'ob'],
 127                            [0, '.', 'zero.txt', b'']])
 128
 129     def test_collection_empty_file(self):
 130         cw = arvados.CollectionWriter(self.api_client)
 131         cw.start_new_file('zero.txt')
 132         cw.write(b'')
 133
 134         self.assertEqual(cw.manifest_text(), ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:zero.txt\n")
 135         self.check_manifest_file_sizes(cw.manifest_text(), [0])
 136         cw = arvados.CollectionWriter(self.api_client)
 137         cw.start_new_file('zero.txt')
 138         cw.write(b'')
 139         cw.start_new_file('one.txt')
 140         cw.write(b'1')
 141         cw.start_new_stream('foo')
 142         cw.start_new_file('zero.txt')
 143         cw.write(b'')
 144         self.check_manifest_file_sizes(cw.manifest_text(), [0,1,0])
 145
 146     def test_no_implicit_normalize(self):
 147         cw = arvados.CollectionWriter(self.api_client)
 148         cw.start_new_file('b')
 149         cw.write(b'b')
 150         cw.start_new_file('a')
 151         cw.write(b'')
 152         self.check_manifest_file_sizes(cw.manifest_text(), [1,0])
 153         self.check_manifest_file_sizes(
 154             arvados.CollectionReader(
 155                 cw.manifest_text()).manifest_text(normalize=True),
 156             [0,1])
 157
 158     def check_manifest_file_sizes(self, manifest_text, expect_sizes):
 159         cr = arvados.CollectionReader(manifest_text, self.api_client)
 160         got_sizes = []
 161         for f in cr.all_files():
 162             got_sizes += [f.size()]
 163         self.assertEqual(got_sizes, expect_sizes, "got wrong file sizes %s, expected %s" % (got_sizes, expect_sizes))
 164
 165     def test_normalized_collection(self):
 166         m1 = """. 5348b82a029fd9e971a811ce1f71360b+43 0:43:md5sum.txt
 167 . 085c37f02916da1cad16f93c54d899b7+41 0:41:md5sum.txt
 168 . 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md5sum.txt
 169 """
 170         self.assertEqual(arvados.CollectionReader(m1, self.api_client).manifest_text(normalize=True),
 171                          """. 5348b82a029fd9e971a811ce1f71360b+43 085c37f02916da1cad16f93c54d899b7+41 8b22da26f9f433dea0a10e5ec66d73ba+43 0:127:md5sum.txt
 172 """)
 173
 174         m2 = """. 204e43b8a1185621ca55a94839582e6f+67108864 b9677abbac956bd3e86b1deb28dfac03+67108864 fc15aff2a762b13f521baf042140acec+67108864 323d2a3ce20370c4ca1d3462a344f8fd+25885655 0:227212247:var-GS000016015-ASM.tsv.bz2
 175 """
 176         self.assertEqual(arvados.CollectionReader(m2, self.api_client).manifest_text(normalize=True), m2)
 177
 178         m3 = """. 5348b82a029fd9e971a811ce1f71360b+43 3:40:md5sum.txt
 179 . 085c37f02916da1cad16f93c54d899b7+41 0:41:md5sum.txt
 180 . 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md5sum.txt
 181 """
 182         self.assertEqual(arvados.CollectionReader(m3, self.api_client).manifest_text(normalize=True),
 183                          """. 5348b82a029fd9e971a811ce1f71360b+43 085c37f02916da1cad16f93c54d899b7+41 8b22da26f9f433dea0a10e5ec66d73ba+43 3:124:md5sum.txt
 184 """)
 185
 186         m4 = """. 204e43b8a1185621ca55a94839582e6f+67108864 0:3:foo/bar
 187 ./zzz 204e43b8a1185621ca55a94839582e6f+67108864 0:999:zzz
 188 ./foo 323d2a3ce20370c4ca1d3462a344f8fd+25885655 0:3:bar
 189 """
 190         self.assertEqual(arvados.CollectionReader(m4, self.api_client).manifest_text(normalize=True),
 191                          """./foo 204e43b8a1185621ca55a94839582e6f+67108864 323d2a3ce20370c4ca1d3462a344f8fd+25885655 0:3:bar 67108864:3:bar
 192 ./zzz 204e43b8a1185621ca55a94839582e6f+67108864 0:999:zzz
 193 """)
 194
 195         m5 = """. 204e43b8a1185621ca55a94839582e6f+67108864 0:3:foo/bar
 196 ./zzz 204e43b8a1185621ca55a94839582e6f+67108864 0:999:zzz
 197 ./foo 204e43b8a1185621ca55a94839582e6f+67108864 3:3:bar
 198 """
 199         self.assertEqual(arvados.CollectionReader(m5, self.api_client).manifest_text(normalize=True),
 200                          """./foo 204e43b8a1185621ca55a94839582e6f+67108864 0:6:bar
 201 ./zzz 204e43b8a1185621ca55a94839582e6f+67108864 0:999:zzz
 202 """)
 203
 204         with self.data_file('1000G_ref_manifest') as f6:
 205             m6 = f6.read()
 206             self.assertEqual(arvados.CollectionReader(m6, self.api_client).manifest_text(normalize=True), m6)
 207
 208         with self.data_file('jlake_manifest') as f7:
 209             m7 = f7.read()
 210             self.assertEqual(arvados.CollectionReader(m7, self.api_client).manifest_text(normalize=True), m7)
 211
 212         m8 = """./a\\040b\\040c 59ca0efa9f5633cb0371bbc0355478d8+13 0:13:hello\\040world.txt
 213 """
 214         self.assertEqual(arvados.CollectionReader(m8, self.api_client).manifest_text(normalize=True), m8)
 215
 216     def test_locators_and_ranges(self):
 217         blocks2 = [Range('a', 0, 10),
 218                    Range('b', 10, 10),
 219                    Range('c', 20, 10),
 220                    Range('d', 30, 10),
 221                    Range('e', 40, 10),
 222                    Range('f', 50, 10)]
 223
 224         self.assertEqual(arvados.locators_and_ranges(blocks2,  2,  2), [LocatorAndRange('a', 10, 2, 2)])
 225         self.assertEqual(arvados.locators_and_ranges(blocks2, 12, 2), [LocatorAndRange('b', 10, 2, 2)])
 226         self.assertEqual(arvados.locators_and_ranges(blocks2, 22, 2), [LocatorAndRange('c', 10, 2, 2)])
 227         self.assertEqual(arvados.locators_and_ranges(blocks2, 32, 2), [LocatorAndRange('d', 10, 2, 2)])
 228         self.assertEqual(arvados.locators_and_ranges(blocks2, 42, 2), [LocatorAndRange('e', 10, 2, 2)])
 229         self.assertEqual(arvados.locators_and_ranges(blocks2, 52, 2), [LocatorAndRange('f', 10, 2, 2)])
 230         self.assertEqual(arvados.locators_and_ranges(blocks2, 62, 2), [])
 231         self.assertEqual(arvados.locators_and_ranges(blocks2, -2, 2), [])
 232
 233         self.assertEqual(arvados.locators_and_ranges(blocks2,  0,  2), [LocatorAndRange('a', 10, 0, 2)])
 234         self.assertEqual(arvados.locators_and_ranges(blocks2, 10, 2), [LocatorAndRange('b', 10, 0, 2)])
 235         self.assertEqual(arvados.locators_and_ranges(blocks2, 20, 2), [LocatorAndRange('c', 10, 0, 2)])
 236         self.assertEqual(arvados.locators_and_ranges(blocks2, 30, 2), [LocatorAndRange('d', 10, 0, 2)])
 237         self.assertEqual(arvados.locators_and_ranges(blocks2, 40, 2), [LocatorAndRange('e', 10, 0, 2)])
 238         self.assertEqual(arvados.locators_and_ranges(blocks2, 50, 2), [LocatorAndRange('f', 10, 0, 2)])
 239         self.assertEqual(arvados.locators_and_ranges(blocks2, 60, 2), [])
 240         self.assertEqual(arvados.locators_and_ranges(blocks2, -2, 2), [])
 241
 242         self.assertEqual(arvados.locators_and_ranges(blocks2,  9,  2), [LocatorAndRange('a', 10, 9, 1), LocatorAndRange('b', 10, 0, 1)])
 243         self.assertEqual(arvados.locators_and_ranges(blocks2, 19, 2), [LocatorAndRange('b', 10, 9, 1), LocatorAndRange('c', 10, 0, 1)])
 244         self.assertEqual(arvados.locators_and_ranges(blocks2, 29, 2), [LocatorAndRange('c', 10, 9, 1), LocatorAndRange('d', 10, 0, 1)])
 245         self.assertEqual(arvados.locators_and_ranges(blocks2, 39, 2), [LocatorAndRange('d', 10, 9, 1), LocatorAndRange('e', 10, 0, 1)])
 246         self.assertEqual(arvados.locators_and_ranges(blocks2, 49, 2), [LocatorAndRange('e', 10, 9, 1), LocatorAndRange('f', 10, 0, 1)])
 247         self.assertEqual(arvados.locators_and_ranges(blocks2, 59, 2), [LocatorAndRange('f', 10, 9, 1)])
 248
 249
 250         blocks3 = [Range('a', 0, 10),
 251                   Range('b', 10, 10),
 252                   Range('c', 20, 10),
 253                   Range('d', 30, 10),
 254                   Range('e', 40, 10),
 255                   Range('f', 50, 10),
 256                    Range('g', 60, 10)]
 257
 258         self.assertEqual(arvados.locators_and_ranges(blocks3,  2,  2), [LocatorAndRange('a', 10, 2, 2)])
 259         self.assertEqual(arvados.locators_and_ranges(blocks3, 12, 2), [LocatorAndRange('b', 10, 2, 2)])
 260         self.assertEqual(arvados.locators_and_ranges(blocks3, 22, 2), [LocatorAndRange('c', 10, 2, 2)])
 261         self.assertEqual(arvados.locators_and_ranges(blocks3, 32, 2), [LocatorAndRange('d', 10, 2, 2)])
 262         self.assertEqual(arvados.locators_and_ranges(blocks3, 42, 2), [LocatorAndRange('e', 10, 2, 2)])
 263         self.assertEqual(arvados.locators_and_ranges(blocks3, 52, 2), [LocatorAndRange('f', 10, 2, 2)])
 264         self.assertEqual(arvados.locators_and_ranges(blocks3, 62, 2), [LocatorAndRange('g', 10, 2, 2)])
 265
 266
 267         blocks = [Range('a', 0, 10),
 268                   Range('b', 10, 15),
 269                   Range('c', 25, 5)]
 270         self.assertEqual(arvados.locators_and_ranges(blocks, 1, 0), [])
 271         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 5), [LocatorAndRange('a', 10, 0, 5)])
 272         self.assertEqual(arvados.locators_and_ranges(blocks, 3, 5), [LocatorAndRange('a', 10, 3, 5)])
 273         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 10), [LocatorAndRange('a', 10, 0, 10)])
 274
 275         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 11), [LocatorAndRange('a', 10, 0, 10),
 276                                                                       LocatorAndRange('b', 15, 0, 1)])
 277         self.assertEqual(arvados.locators_and_ranges(blocks, 1, 11), [LocatorAndRange('a', 10, 1, 9),
 278                                                                       LocatorAndRange('b', 15, 0, 2)])
 279         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 25), [LocatorAndRange('a', 10, 0, 10),
 280                                                                       LocatorAndRange('b', 15, 0, 15)])
 281
 282         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 30), [LocatorAndRange('a', 10, 0, 10),
 283                                                                       LocatorAndRange('b', 15, 0, 15),
 284                                                                       LocatorAndRange('c', 5, 0, 5)])
 285         self.assertEqual(arvados.locators_and_ranges(blocks, 1, 30), [LocatorAndRange('a', 10, 1, 9),
 286                                                                       LocatorAndRange('b', 15, 0, 15),
 287                                                                       LocatorAndRange('c', 5, 0, 5)])
 288         self.assertEqual(arvados.locators_and_ranges(blocks, 0, 31), [LocatorAndRange('a', 10, 0, 10),
 289                                                                       LocatorAndRange('b', 15, 0, 15),
 290                                                                       LocatorAndRange('c', 5, 0, 5)])
 291
 292         self.assertEqual(arvados.locators_and_ranges(blocks, 15, 5), [LocatorAndRange('b', 15, 5, 5)])
 293
 294         self.assertEqual(arvados.locators_and_ranges(blocks, 8, 17), [LocatorAndRange('a', 10, 8, 2),
 295                                                                       LocatorAndRange('b', 15, 0, 15)])
 296
 297         self.assertEqual(arvados.locators_and_ranges(blocks, 8, 20), [LocatorAndRange('a', 10, 8, 2),
 298                                                                       LocatorAndRange('b', 15, 0, 15),
 299                                                                       LocatorAndRange('c', 5, 0, 3)])
 300
 301         self.assertEqual(arvados.locators_and_ranges(blocks, 26, 2), [LocatorAndRange('c', 5, 1, 2)])
 302
 303         self.assertEqual(arvados.locators_and_ranges(blocks, 9, 15), [LocatorAndRange('a', 10, 9, 1),
 304                                                                       LocatorAndRange('b', 15, 0, 14)])
 305         self.assertEqual(arvados.locators_and_ranges(blocks, 10, 15), [LocatorAndRange('b', 15, 0, 15)])
 306         self.assertEqual(arvados.locators_and_ranges(blocks, 11, 15), [LocatorAndRange('b', 15, 1, 14),
 307                                                                        LocatorAndRange('c', 5, 0, 1)])
 308
 309     class MockKeep(object):
 310         def __init__(self, content, num_retries=0):
 311             self.content = content
 312
 313         def get(self, locator, num_retries=0):
 314             return self.content[locator]
 315
 316     def test_stream_reader(self):
 317         keepblocks = {
 318             'aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa+10': b'abcdefghij',
 319             'bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb+15': b'klmnopqrstuvwxy',
 320             'cccccccccccccccccccccccccccccccc+5': b'z0123',
 321         }
 322         mk = self.MockKeep(keepblocks)
 323
 324         sr = arvados.StreamReader([".", "aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa+10", "bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb+15", "cccccccccccccccccccccccccccccccc+5", "0:30:foo"], mk)
 325
 326         content = b'abcdefghijklmnopqrstuvwxyz0123456789'
 327
 328         self.assertEqual(sr.readfrom(0, 30), content[0:30])
 329         self.assertEqual(sr.readfrom(2, 30), content[2:30])
 330
 331         self.assertEqual(sr.readfrom(2, 8), content[2:10])
 332         self.assertEqual(sr.readfrom(0, 10), content[0:10])
 333
 334         self.assertEqual(sr.readfrom(0, 5), content[0:5])
 335         self.assertEqual(sr.readfrom(5, 5), content[5:10])
 336         self.assertEqual(sr.readfrom(10, 5), content[10:15])
 337         self.assertEqual(sr.readfrom(15, 5), content[15:20])
 338         self.assertEqual(sr.readfrom(20, 5), content[20:25])
 339         self.assertEqual(sr.readfrom(25, 5), content[25:30])
 340         self.assertEqual(sr.readfrom(30, 5), b'')
 341
 342     def test_extract_file(self):
 343         m1 = """. 5348b82a029fd9e971a811ce1f71360b+43 0:43:md5sum.txt
 344 . 085c37f02916da1cad16f93c54d899b7+41 0:41:md6sum.txt
 345 . 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md7sum.txt
 346 . 085c37f02916da1cad16f93c54d899b7+41 5348b82a029fd9e971a811ce1f71360b+43 8b22da26f9f433dea0a10e5ec66d73ba+43 47:80:md8sum.txt
 347 . 085c37f02916da1cad16f93c54d899b7+41 5348b82a029fd9e971a811ce1f71360b+43 8b22da26f9f433dea0a10e5ec66d73ba+43 40:80:md9sum.txt
 348 """
 349
 350         m2 = arvados.CollectionReader(m1, self.api_client).manifest_text(normalize=True)
 351
 352         self.assertEqual(m2,
 353                          ". 5348b82a029fd9e971a811ce1f71360b+43 085c37f02916da1cad16f93c54d899b7+41 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md5sum.txt 43:41:md6sum.txt 84:43:md7sum.txt 6:37:md8sum.txt 84:43:md8sum.txt 83:1:md9sum.txt 0:43:md9sum.txt 84:36:md9sum.txt\n")
 354         files = arvados.CollectionReader(
 355             m2, self.api_client).all_streams()[0].files()
 356
 357         self.assertEqual(files['md5sum.txt'].as_manifest(),
 358                          ". 5348b82a029fd9e971a811ce1f71360b+43 0:43:md5sum.txt\n")
 359         self.assertEqual(files['md6sum.txt'].as_manifest(),
 360                          ". 085c37f02916da1cad16f93c54d899b7+41 0:41:md6sum.txt\n")
 361         self.assertEqual(files['md7sum.txt'].as_manifest(),
 362                          ". 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md7sum.txt\n")
 363         self.assertEqual(files['md9sum.txt'].as_manifest(),
 364                          ". 085c37f02916da1cad16f93c54d899b7+41 5348b82a029fd9e971a811ce1f71360b+43 8b22da26f9f433dea0a10e5ec66d73ba+43 40:80:md9sum.txt\n")
 365
 366     def test_write_directory_tree(self):
 367         cwriter = arvados.CollectionWriter(self.api_client)
 368         cwriter.write_directory_tree(self.build_directory_tree(
 369                 ['basefile', 'subdir/subfile']))
 370         self.assertEqual(cwriter.manifest_text(),
 371                          """. c5110c5ac93202d8e0f9e381f22bac0f+8 0:8:basefile
 372 ./subdir 1ca4dec89403084bf282ad31e6cf7972+14 0:14:subfile\n""")
 373
 374     def test_write_named_directory_tree(self):
 375         cwriter = arvados.CollectionWriter(self.api_client)
 376         cwriter.write_directory_tree(self.build_directory_tree(
 377                 ['basefile', 'subdir/subfile']), 'root')
 378         self.assertEqual(
 379             cwriter.manifest_text(),
 380             """./root c5110c5ac93202d8e0f9e381f22bac0f+8 0:8:basefile
 381 ./root/subdir 1ca4dec89403084bf282ad31e6cf7972+14 0:14:subfile\n""")
 382
 383     def test_write_directory_tree_in_one_stream(self):
 384         cwriter = arvados.CollectionWriter(self.api_client)
 385         cwriter.write_directory_tree(self.build_directory_tree(
 386                 ['basefile', 'subdir/subfile']), max_manifest_depth=0)
 387         self.assertEqual(cwriter.manifest_text(),
 388                          """. 4ace875ffdc6824a04950f06858f4465+22 0:8:basefile 8:14:subdir/subfile\n""")
 389
 390     def test_write_directory_tree_with_limited_recursion(self):
 391         cwriter = arvados.CollectionWriter(self.api_client)
 392         cwriter.write_directory_tree(
 393             self.build_directory_tree(['f1', 'd1/f2', 'd1/d2/f3']),
 394             max_manifest_depth=1)
 395         self.assertEqual(cwriter.manifest_text(),
 396                          """. bd19836ddb62c11c55ab251ccaca5645+2 0:2:f1
 397 ./d1 50170217e5b04312024aa5cd42934494+13 0:8:d2/f3 8:5:f2\n""")
 398
 399     def test_write_directory_tree_with_zero_recursion(self):
 400         cwriter = arvados.CollectionWriter(self.api_client)
 401         content = 'd1/d2/f3d1/f2f1'
 402         blockhash = tutil.str_keep_locator(content)
 403         cwriter.write_directory_tree(
 404             self.build_directory_tree(['f1', 'd1/f2', 'd1/d2/f3']),
 405             max_manifest_depth=0)
 406         self.assertEqual(
 407             cwriter.manifest_text(),
 408             ". {} 0:8:d1/d2/f3 8:5:d1/f2 13:2:f1\n".format(blockhash))
 409
 410     def test_write_one_file(self):
 411         cwriter = arvados.CollectionWriter(self.api_client)
 412         with self.make_test_file() as testfile:
 413             cwriter.write_file(testfile.name)
 414             self.assertEqual(
 415                 cwriter.manifest_text(),
 416                 ". 098f6bcd4621d373cade4e832627b4f6+4 0:4:{}\n".format(
 417                     os.path.basename(testfile.name)))
 418
 419     def test_write_named_file(self):
 420         cwriter = arvados.CollectionWriter(self.api_client)
 421         with self.make_test_file() as testfile:
 422             cwriter.write_file(testfile.name, 'foo')
 423             self.assertEqual(cwriter.manifest_text(),
 424                              ". 098f6bcd4621d373cade4e832627b4f6+4 0:4:foo\n")
 425
 426     def test_write_multiple_files(self):
 427         cwriter = arvados.CollectionWriter(self.api_client)
 428         for letter in 'ABC':
 429             with self.make_test_file(letter.encode()) as testfile:
 430                 cwriter.write_file(testfile.name, letter)
 431         self.assertEqual(
 432             cwriter.manifest_text(),
 433             ". 902fbdd2b1df0c4f70b4a5d23525e932+3 0:1:A 1:1:B 2:1:C\n")
 434
 435     def test_basic_resume(self):
 436         cwriter = TestResumableWriter()
 437         with self.make_test_file() as testfile:
 438             cwriter.write_file(testfile.name, 'test')
 439             resumed = TestResumableWriter.from_state(cwriter.current_state())
 440         self.assertEqual(cwriter.manifest_text(), resumed.manifest_text(),
 441                           "resumed CollectionWriter had different manifest")
 442
 443     def test_resume_fails_when_missing_dependency(self):
 444         cwriter = TestResumableWriter()
 445         with self.make_test_file() as testfile:
 446             cwriter.write_file(testfile.name, 'test')
 447         self.assertRaises(arvados.errors.StaleWriterStateError,
 448                           TestResumableWriter.from_state,
 449                           cwriter.current_state())
 450
 451     def test_resume_fails_when_dependency_mtime_changed(self):
 452         cwriter = TestResumableWriter()
 453         with self.make_test_file() as testfile:
 454             cwriter.write_file(testfile.name, 'test')
 455             os.utime(testfile.name, (0, 0))
 456             self.assertRaises(arvados.errors.StaleWriterStateError,
 457                               TestResumableWriter.from_state,
 458                               cwriter.current_state())
 459
 460     def test_resume_fails_when_dependency_is_nonfile(self):
 461         cwriter = TestResumableWriter()
 462         cwriter.write_file('/dev/null', 'empty')
 463         self.assertRaises(arvados.errors.StaleWriterStateError,
 464                           TestResumableWriter.from_state,
 465                           cwriter.current_state())
 466
 467     def test_resume_fails_when_dependency_size_changed(self):
 468         cwriter = TestResumableWriter()
 469         with self.make_test_file() as testfile:
 470             cwriter.write_file(testfile.name, 'test')
 471             orig_mtime = os.fstat(testfile.fileno()).st_mtime
 472             testfile.write(b'extra')
 473             testfile.flush()
 474             os.utime(testfile.name, (orig_mtime, orig_mtime))
 475             self.assertRaises(arvados.errors.StaleWriterStateError,
 476                               TestResumableWriter.from_state,
 477                               cwriter.current_state())
 478
 479     def test_resume_fails_with_expired_locator(self):
 480         cwriter = TestResumableWriter()
 481         state = cwriter.current_state()
 482         # Add an expired locator to the state.
 483         state['_current_stream_locators'].append(''.join([
 484                     'a' * 32, '+1+A', 'b' * 40, '@', '10000000']))
 485         self.assertRaises(arvados.errors.StaleWriterStateError,
 486                           TestResumableWriter.from_state, state)
 487
 488     def test_arbitrary_objects_not_resumable(self):
 489         cwriter = TestResumableWriter()
 490         with open('/dev/null') as badfile:
 491             self.assertRaises(arvados.errors.AssertionError,
 492                               cwriter.write_file, badfile)
 493
 494     def test_arbitrary_writes_not_resumable(self):
 495         cwriter = TestResumableWriter()
 496         self.assertRaises(arvados.errors.AssertionError,
 497                           cwriter.write, "badtext")
 498
 499     def test_read_arbitrary_data_with_collection_reader(self):
 500         # arv-get relies on this to do "arv-get {keep-locator} -".
 501         self.write_foo_bar_baz()
 502         self.assertEqual(
 503             'foobar',
 504             arvados.CollectionReader(
 505                 '3858f62230ac3c915f300c664312c63f+6'
 506                 ).manifest_text())
 507
 508
 509 class CollectionTestMixin(tutil.ApiClientMock):
 510     API_COLLECTIONS = run_test_server.fixture('collections')
 511     DEFAULT_COLLECTION = API_COLLECTIONS['foo_file']
 512     DEFAULT_DATA_HASH = DEFAULT_COLLECTION['portable_data_hash']
 513     DEFAULT_MANIFEST = DEFAULT_COLLECTION['manifest_text']
 514     DEFAULT_UUID = DEFAULT_COLLECTION['uuid']
 515     ALT_COLLECTION = API_COLLECTIONS['bar_file']
 516     ALT_DATA_HASH = ALT_COLLECTION['portable_data_hash']
 517     ALT_MANIFEST = ALT_COLLECTION['manifest_text']
 518
 519     def api_client_mock(self, status=200):
 520         client = super(CollectionTestMixin, self).api_client_mock()
 521         self.mock_keep_services(client, status=status, service_type='proxy', count=1)
 522         return client
 523
 524
 525 @tutil.skip_sleep
 526 class CollectionReaderTestCase(unittest.TestCase, CollectionTestMixin):
 527     def mock_get_collection(self, api_mock, code, body):
 528         body = self.API_COLLECTIONS.get(body)
 529         self._mock_api_call(api_mock.collections().get, code, body)
 530
 531     def api_client_mock(self, status=200):
 532         client = super(CollectionReaderTestCase, self).api_client_mock()
 533         self.mock_get_collection(client, status, 'foo_file')
 534         return client
 535
 536     def test_init_no_default_retries(self):
 537         client = self.api_client_mock(200)
 538         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 539         reader.manifest_text()
 540         client.collections().get().execute.assert_called_with(num_retries=0)
 541
 542     def test_uuid_init_success(self):
 543         client = self.api_client_mock(200)
 544         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client,
 545                                           num_retries=3)
 546         self.assertEqual(self.DEFAULT_COLLECTION['manifest_text'],
 547                          reader.manifest_text())
 548         client.collections().get().execute.assert_called_with(num_retries=3)
 549
 550     def test_uuid_init_failure_raises_api_error(self):
 551         client = self.api_client_mock(500)
 552         with self.assertRaises(arvados.errors.ApiError):
 553             reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 554
 555     def test_locator_init(self):
 556         client = self.api_client_mock(200)
 557         # Ensure Keep will not return anything if asked.
 558         with tutil.mock_keep_responses(None, 404):
 559             reader = arvados.CollectionReader(self.DEFAULT_DATA_HASH,
 560                                               api_client=client)
 561             self.assertEqual(self.DEFAULT_MANIFEST, reader.manifest_text())
 562
 563     def test_locator_init_fallback_to_keep(self):
 564         # crunch-job needs this to read manifests that have only ever
 565         # been written to Keep.
 566         client = self.api_client_mock(200)
 567         self.mock_get_collection(client, 404, None)
 568         with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
 569             reader = arvados.CollectionReader(self.DEFAULT_DATA_HASH,
 570                                               api_client=client)
 571             self.assertEqual(self.DEFAULT_MANIFEST, reader.manifest_text())
 572
 573     def test_uuid_init_no_fallback_to_keep(self):
 574         # Do not look up a collection UUID in Keep.
 575         client = self.api_client_mock(404)
 576         with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
 577             with self.assertRaises(arvados.errors.ApiError):
 578                 reader = arvados.CollectionReader(self.DEFAULT_UUID,
 579                                                   api_client=client)
 580
 581     def test_try_keep_first_if_permission_hint(self):
 582         # To verify that CollectionReader tries Keep first here, we
 583         # mock API server to return the wrong data.
 584         client = self.api_client_mock(200)
 585         with tutil.mock_keep_responses(self.ALT_MANIFEST, 200):
 586             self.assertEqual(
 587                 self.ALT_MANIFEST,
 588                 arvados.CollectionReader(
 589                     self.ALT_DATA_HASH + '+Affffffffffffffffffffffffffffffffffffffff@fedcba98',
 590                     api_client=client).manifest_text())
 591
 592     def test_init_num_retries_propagated(self):
 593         # More of an integration test...
 594         client = self.api_client_mock(200)
 595         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client,
 596                                           num_retries=3)
 597         with tutil.mock_keep_responses('foo', 500, 500, 200):
 598             self.assertEqual(b'foo',
 599                              b''.join(f.read(9) for f in reader.all_files()))
 600
 601     def test_read_nonnormalized_manifest_with_collection_reader(self):
 602         # client should be able to use CollectionReader on a manifest without normalizing it
 603         client = self.api_client_mock(500)
 604         nonnormal = ". acbd18db4cc2f85cedef654fccc4a4d8+3+Aabadbadbee@abeebdee 0:3:foo.txt 1:0:bar.txt 0:3:foo.txt\n"
 605         reader = arvados.CollectionReader(
 606             nonnormal,
 607             api_client=client, num_retries=0)
 608         # Ensure stripped_manifest() doesn't mangle our manifest in
 609         # any way other than stripping hints.
 610         self.assertEqual(
 611             re.sub('\+[^\d\s\+]+', '', nonnormal),
 612             reader.stripped_manifest())
 613         # Ensure stripped_manifest() didn't mutate our reader.
 614         self.assertEqual(nonnormal, reader.manifest_text())
 615         # Ensure the files appear in the order given in the manifest.
 616         self.assertEqual(
 617             [[6, '.', 'foo.txt'],
 618              [0, '.', 'bar.txt']],
 619             [[f.size(), f.stream_name(), f.name()]
 620              for f in reader.all_streams()[0].all_files()])
 621
 622     def test_read_empty_collection(self):
 623         client = self.api_client_mock(200)
 624         self.mock_get_collection(client, 200, 'empty')
 625         reader = arvados.CollectionReader('d41d8cd98f00b204e9800998ecf8427e+0',
 626                                           api_client=client)
 627         self.assertEqual('', reader.manifest_text())
 628
 629     def test_api_response(self):
 630         client = self.api_client_mock()
 631         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 632         self.assertEqual(self.DEFAULT_COLLECTION, reader.api_response())
 633
 634     def test_api_response_with_collection_from_keep(self):
 635         client = self.api_client_mock()
 636         self.mock_get_collection(client, 404, 'foo')
 637         with tutil.mock_keep_responses(self.DEFAULT_MANIFEST, 200):
 638             reader = arvados.CollectionReader(self.DEFAULT_DATA_HASH,
 639                                               api_client=client)
 640             api_response = reader.api_response()
 641         self.assertIsNone(api_response)
 642
 643     def check_open_file(self, coll_file, stream_name, file_name, file_size):
 644         self.assertFalse(coll_file.closed, "returned file is not open")
 645         self.assertEqual(stream_name, coll_file.stream_name())
 646         self.assertEqual(file_name, coll_file.name)
 647         self.assertEqual(file_size, coll_file.size())
 648
 649     def test_open_collection_file_one_argument(self):
 650         client = self.api_client_mock(200)
 651         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 652         cfile = reader.open('./foo', 'rb')
 653         self.check_open_file(cfile, '.', 'foo', 3)
 654
 655     def test_open_deep_file(self):
 656         coll_name = 'collection_with_files_in_subdir'
 657         client = self.api_client_mock(200)
 658         self.mock_get_collection(client, 200, coll_name)
 659         reader = arvados.CollectionReader(
 660             self.API_COLLECTIONS[coll_name]['uuid'], api_client=client)
 661         cfile = reader.open('./subdir2/subdir3/file2_in_subdir3.txt', 'rb')
 662         self.check_open_file(cfile, './subdir2/subdir3', 'file2_in_subdir3.txt',
 663                              32)
 664
 665     def test_open_nonexistent_stream(self):
 666         client = self.api_client_mock(200)
 667         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 668         self.assertRaises(IOError, reader.open, './nonexistent/foo')
 669
 670     def test_open_nonexistent_file(self):
 671         client = self.api_client_mock(200)
 672         reader = arvados.CollectionReader(self.DEFAULT_UUID, api_client=client)
 673         self.assertRaises(IOError, reader.open, 'nonexistent')
 674
 675
 676 @tutil.skip_sleep
 677 class CollectionWriterTestCase(unittest.TestCase, CollectionTestMixin):
 678     def mock_keep(self, body, *codes, **headers):
 679         headers.setdefault('x-keep-replicas-stored', 2)
 680         return tutil.mock_keep_responses(body, *codes, **headers)
 681
 682     def foo_writer(self, **kwargs):
 683         kwargs.setdefault('api_client', self.api_client_mock())
 684         writer = arvados.CollectionWriter(**kwargs)
 685         writer.start_new_file('foo')
 686         writer.write(b'foo')
 687         return writer
 688
 689     def test_write_whole_collection(self):
 690         writer = self.foo_writer()
 691         with self.mock_keep(self.DEFAULT_DATA_HASH, 200, 200):
 692             self.assertEqual(self.DEFAULT_DATA_HASH, writer.finish())
 693
 694     def test_write_no_default(self):
 695         writer = self.foo_writer()
 696         with self.mock_keep(None, 500):
 697             with self.assertRaises(arvados.errors.KeepWriteError):
 698                 writer.finish()
 699
 700     def test_write_insufficient_replicas_via_proxy(self):
 701         writer = self.foo_writer(replication=3)
 702         with self.mock_keep(None, 200, **{'x-keep-replicas-stored': 2}):
 703             with self.assertRaises(arvados.errors.KeepWriteError):
 704                 writer.manifest_text()
 705
 706     def test_write_insufficient_replicas_via_disks(self):
 707         client = mock.MagicMock(name='api_client')
 708         with self.mock_keep(
 709                 None, 200, 200,
 710                 **{'x-keep-replicas-stored': 1}) as keepmock:
 711             self.mock_keep_services(client, status=200, service_type='disk', count=2)
 712             writer = self.foo_writer(api_client=client, replication=3)
 713             with self.assertRaises(arvados.errors.KeepWriteError):
 714                 writer.manifest_text()
 715
 716     def test_write_three_replicas(self):
 717         client = mock.MagicMock(name='api_client')
 718         with self.mock_keep(
 719                 "", 500, 500, 500, 200, 200, 200,
 720                 **{'x-keep-replicas-stored': 1}) as keepmock:
 721             self.mock_keep_services(client, status=200, service_type='disk', count=6)
 722             writer = self.foo_writer(api_client=client, replication=3)
 723             writer.manifest_text()
 724             self.assertEqual(6, keepmock.call_count)
 725
 726     def test_write_whole_collection_through_retries(self):
 727         writer = self.foo_writer(num_retries=2)
 728         with self.mock_keep(self.DEFAULT_DATA_HASH,
 729                             500, 500, 200, 500, 500, 200):
 730             self.assertEqual(self.DEFAULT_DATA_HASH, writer.finish())
 731
 732     def test_flush_data_retries(self):
 733         writer = self.foo_writer(num_retries=2)
 734         foo_hash = self.DEFAULT_MANIFEST.split()[1]
 735         with self.mock_keep(foo_hash, 500, 200):
 736             writer.flush_data()
 737         self.assertEqual(self.DEFAULT_MANIFEST, writer.manifest_text())
 738
 739     def test_one_open(self):
 740         client = self.api_client_mock()
 741         writer = arvados.CollectionWriter(client)
 742         with writer.open('out') as out_file:
 743             self.assertEqual('.', writer.current_stream_name())
 744             self.assertEqual('out', writer.current_file_name())
 745             out_file.write(b'test data')
 746             data_loc = tutil.str_keep_locator('test data')
 747         self.assertTrue(out_file.closed, "writer file not closed after context")
 748         self.assertRaises(ValueError, out_file.write, 'extra text')
 749         with self.mock_keep(data_loc, 200) as keep_mock:
 750             self.assertEqual(". {} 0:9:out\n".format(data_loc),
 751                              writer.manifest_text())
 752
 753     def test_open_writelines(self):
 754         client = self.api_client_mock()
 755         writer = arvados.CollectionWriter(client)
 756         with writer.open('six') as out_file:
 757             out_file.writelines(['12', '34', '56'])
 758             data_loc = tutil.str_keep_locator('123456')
 759         with self.mock_keep(data_loc, 200) as keep_mock:
 760             self.assertEqual(". {} 0:6:six\n".format(data_loc),
 761                              writer.manifest_text())
 762
 763     def test_open_flush(self):
 764         client = self.api_client_mock()
 765         data_loc1 = tutil.str_keep_locator('flush1')
 766         data_loc2 = tutil.str_keep_locator('flush2')
 767         with self.mock_keep((data_loc1, 200), (data_loc2, 200)) as keep_mock:
 768             writer = arvados.CollectionWriter(client)
 769             with writer.open('flush_test') as out_file:
 770                 out_file.write(b'flush1')
 771                 out_file.flush()
 772                 out_file.write(b'flush2')
 773             self.assertEqual(". {} {} 0:12:flush_test\n".format(data_loc1,
 774                                                                 data_loc2),
 775                              writer.manifest_text())
 776
 777     def test_two_opens_same_stream(self):
 778         client = self.api_client_mock()
 779         writer = arvados.CollectionWriter(client)
 780         with writer.open('.', '1') as out_file:
 781             out_file.write(b'1st')
 782         with writer.open('.', '2') as out_file:
 783             out_file.write(b'2nd')
 784         data_loc = tutil.str_keep_locator('1st2nd')
 785         with self.mock_keep(data_loc, 200) as keep_mock:
 786             self.assertEqual(". {} 0:3:1 3:3:2\n".format(data_loc),
 787                              writer.manifest_text())
 788
 789     def test_two_opens_two_streams(self):
 790         client = self.api_client_mock()
 791         data_loc1 = tutil.str_keep_locator('file')
 792         data_loc2 = tutil.str_keep_locator('indir')
 793         with self.mock_keep((data_loc1, 200), (data_loc2, 200)) as keep_mock:
 794             writer = arvados.CollectionWriter(client)
 795             with writer.open('file') as out_file:
 796                 out_file.write(b'file')
 797             with writer.open('./dir', 'indir') as out_file:
 798                 out_file.write(b'indir')
 799             expected = ". {} 0:4:file\n./dir {} 0:5:indir\n".format(
 800                 data_loc1, data_loc2)
 801             self.assertEqual(expected, writer.manifest_text())
 802
 803     def test_dup_open_fails(self):
 804         client = self.api_client_mock()
 805         writer = arvados.CollectionWriter(client)
 806         file1 = writer.open('one')
 807         self.assertRaises(arvados.errors.AssertionError, writer.open, 'two')
 808
 809
 810 class CollectionOpenModes(run_test_server.TestCaseWithServers):
 811
 812     def test_open_binary_modes(self):
 813         c = Collection()
 814         for mode in ['wb', 'wb+', 'ab', 'ab+']:
 815             with c.open('foo', 'wb') as f:
 816                 f.write(b'foo')
 817
 818     def test_open_invalid_modes(self):
 819         c = Collection()
 820         for mode in ['+r', 'aa', '++', 'r+b', 'beer', '', None]:
 821             with self.assertRaises(Exception):
 822                 c.open('foo', mode)
 823
 824     def test_open_text_modes(self):
 825         c = Collection()
 826         with c.open('foo', 'wb') as f:
 827             f.write('foo')
 828         for mode in ['r', 'rt', 'r+', 'rt+', 'w', 'wt', 'a', 'at']:
 829             if sys.version_info >= (3, 0):
 830                 with self.assertRaises(NotImplementedError):
 831                     c.open('foo', mode)
 832             else:
 833                 with c.open('foo', mode) as f:
 834                     if mode[0] == 'r' and '+' not in mode:
 835                         self.assertEqual('foo', f.read(3))
 836                     else:
 837                         f.write('bar')
 838                         f.seek(-3, os.SEEK_CUR)
 839                         self.assertEqual('bar', f.read(3))
 840
 841
 842 class NewCollectionTestCase(unittest.TestCase, CollectionTestMixin):
 843
 844     def test_replication_desired_kept_on_load(self):
 845         m = '. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n'
 846         c1 = Collection(m, replication_desired=1)
 847         c1.save_new()
 848         loc = c1.manifest_locator()
 849         c2 = Collection(loc)
 850         self.assertEqual(c1.manifest_text, c2.manifest_text)
 851         self.assertEqual(c1.replication_desired, c2.replication_desired)
 852
 853     def test_replication_desired_not_loaded_if_provided(self):
 854         m = '. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n'
 855         c1 = Collection(m, replication_desired=1)
 856         c1.save_new()
 857         loc = c1.manifest_locator()
 858         c2 = Collection(loc, replication_desired=2)
 859         self.assertEqual(c1.manifest_text, c2.manifest_text)
 860         self.assertNotEqual(c1.replication_desired, c2.replication_desired)
 861
 862     def test_init_manifest(self):
 863         m1 = """. 5348b82a029fd9e971a811ce1f71360b+43 0:43:md5sum.txt
 864 . 085c37f02916da1cad16f93c54d899b7+41 0:41:md5sum.txt
 865 . 8b22da26f9f433dea0a10e5ec66d73ba+43 0:43:md5sum.txt
 866 """
 867         self.assertEqual(m1, CollectionReader(m1).manifest_text(normalize=False))
 868         self.assertEqual(". 5348b82a029fd9e971a811ce1f71360b+43 085c37f02916da1cad16f93c54d899b7+41 8b22da26f9f433dea0a10e5ec66d73ba+43 0:127:md5sum.txt\n", CollectionReader(m1).manifest_text(normalize=True))
 869
 870     def test_init_manifest_with_collision(self):
 871         m1 = """. 5348b82a029fd9e971a811ce1f71360b+43 0:43:md5sum.txt
 872 ./md5sum.txt 085c37f02916da1cad16f93c54d899b7+41 0:41:md5sum.txt
 873 """
 874         with self.assertRaises(arvados.errors.ArgumentError):
 875             self.assertEqual(m1, CollectionReader(m1))
 876
 877     def test_init_manifest_with_error(self):
 878         m1 = """. 0:43:md5sum.txt"""
 879         with self.assertRaises(arvados.errors.ArgumentError):
 880             self.assertEqual(m1, CollectionReader(m1))
 881
 882     def test_remove(self):
 883         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n')
 884         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n", c.portable_manifest_text())
 885         self.assertIn("count1.txt", c)
 886         c.remove("count1.txt")
 887         self.assertNotIn("count1.txt", c)
 888         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", c.portable_manifest_text())
 889         with self.assertRaises(arvados.errors.ArgumentError):
 890             c.remove("")
 891
 892     def test_find(self):
 893         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n')
 894         self.assertIs(c.find("."), c)
 895         self.assertIs(c.find("./count1.txt"), c["count1.txt"])
 896         self.assertIs(c.find("count1.txt"), c["count1.txt"])
 897         with self.assertRaises(IOError):
 898             c.find("/.")
 899         with self.assertRaises(arvados.errors.ArgumentError):
 900             c.find("")
 901         self.assertIs(c.find("./nonexistant.txt"), None)
 902         self.assertIs(c.find("./nonexistantsubdir/nonexistant.txt"), None)
 903
 904     def test_remove_in_subdir(self):
 905         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
 906         c.remove("foo/count2.txt")
 907         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n", c.portable_manifest_text())
 908
 909     def test_remove_empty_subdir(self):
 910         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
 911         c.remove("foo/count2.txt")
 912         c.remove("foo")
 913         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n", c.portable_manifest_text())
 914
 915     def test_remove_nonempty_subdir(self):
 916         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
 917         with self.assertRaises(IOError):
 918             c.remove("foo")
 919         c.remove("foo", recursive=True)
 920         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n", c.portable_manifest_text())
 921
 922     def test_copy_to_file_in_dir(self):
 923         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 924         c.copy("count1.txt", "foo/count2.txt")
 925         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", c.portable_manifest_text())
 926
 927     def test_copy_file(self):
 928         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 929         c.copy("count1.txt", "count2.txt")
 930         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n", c.portable_manifest_text())
 931
 932     def test_copy_to_existing_dir(self):
 933         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
 934         c.copy("count1.txt", "foo")
 935         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:10:count2.txt\n", c.portable_manifest_text())
 936
 937     def test_copy_to_new_dir(self):
 938         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 939         c.copy("count1.txt", "foo/")
 940         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n", c.portable_manifest_text())
 941
 942     def test_rename_file(self):
 943         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 944         c.rename("count1.txt", "count2.txt")
 945         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", c.manifest_text())
 946
 947     def test_move_file_to_dir(self):
 948         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 949         c.mkdirs("foo")
 950         c.rename("count1.txt", "foo/count2.txt")
 951         self.assertEqual("./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", c.manifest_text())
 952
 953     def test_move_file_to_other(self):
 954         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 955         c2 = Collection()
 956         c2.rename("count1.txt", "count2.txt", source_collection=c1)
 957         self.assertEqual("", c1.manifest_text())
 958         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", c2.manifest_text())
 959
 960     def test_clone(self):
 961         c = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
 962         cl = c.clone()
 963         self.assertEqual(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n", cl.portable_manifest_text())
 964
 965     def test_diff_del_add(self):
 966         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 967         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count2.txt\n')
 968         d = c2.diff(c1)
 969         self.assertEqual(sorted(d), [
 970             ('add', './count1.txt', c1["count1.txt"]),
 971             ('del', './count2.txt', c2["count2.txt"]),
 972         ])
 973         d = c1.diff(c2)
 974         self.assertEqual(sorted(d), [
 975             ('add', './count2.txt', c2["count2.txt"]),
 976             ('del', './count1.txt', c1["count1.txt"]),
 977         ])
 978         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
 979         c1.apply(d)
 980         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
 981
 982     def test_diff_same(self):
 983         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 984         c2 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 985         d = c2.diff(c1)
 986         self.assertEqual(d, [('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"])])
 987         d = c1.diff(c2)
 988         self.assertEqual(d, [('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"])])
 989
 990         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
 991         c1.apply(d)
 992         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
 993
 994     def test_diff_mod(self):
 995         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
 996         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count1.txt\n')
 997         d = c2.diff(c1)
 998         self.assertEqual(d, [('mod', './count1.txt', c2["count1.txt"], c1["count1.txt"])])
 999         d = c1.diff(c2)
1000         self.assertEqual(d, [('mod', './count1.txt', c1["count1.txt"], c2["count1.txt"])])
1001
1002         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1003         c1.apply(d)
1004         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1005
1006     def test_diff_add(self):
1007         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
1008         c2 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 5348b82a029fd9e971a811ce1f71360b+43 0:10:count1.txt 10:20:count2.txt\n')
1009         d = c2.diff(c1)
1010         self.assertEqual(sorted(d), [
1011             ('del', './count2.txt', c2["count2.txt"]),
1012             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1013         ])
1014         d = c1.diff(c2)
1015         self.assertEqual(sorted(d), [
1016             ('add', './count2.txt', c2["count2.txt"]),
1017             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1018         ])
1019
1020         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1021         c1.apply(d)
1022         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1023
1024     def test_diff_add_in_subcollection(self):
1025         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
1026         c2 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 5348b82a029fd9e971a811ce1f71360b+43 0:10:count2.txt\n')
1027         d = c2.diff(c1)
1028         self.assertEqual(sorted(d), [
1029             ('del', './foo', c2["foo"]),
1030             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1031         ])
1032         d = c1.diff(c2)
1033         self.assertEqual(sorted(d), [
1034             ('add', './foo', c2["foo"]),
1035             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1036         ])
1037         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1038         c1.apply(d)
1039         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1040
1041     def test_diff_del_add_in_subcollection(self):
1042         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 5348b82a029fd9e971a811ce1f71360b+43 0:10:count2.txt\n')
1043         c2 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 5348b82a029fd9e971a811ce1f71360b+43 0:3:count3.txt\n')
1044         d = c2.diff(c1)
1045         self.assertEqual(sorted(d), [
1046             ('add', './foo/count2.txt', c1.find("foo/count2.txt")),
1047             ('del', './foo/count3.txt', c2.find("foo/count3.txt")),
1048             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1049         ])
1050         d = c1.diff(c2)
1051         self.assertEqual(sorted(d), [
1052             ('add', './foo/count3.txt', c2.find("foo/count3.txt")),
1053             ('del', './foo/count2.txt', c1.find("foo/count2.txt")),
1054             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1055         ])
1056
1057         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1058         c1.apply(d)
1059         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1060
1061     def test_diff_mod_in_subcollection(self):
1062         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n./foo 5348b82a029fd9e971a811ce1f71360b+43 0:10:count2.txt\n')
1063         c2 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt 0:3:foo\n')
1064         d = c2.diff(c1)
1065         self.assertEqual(sorted(d), [
1066             ('mod', './foo', c2["foo"], c1["foo"]),
1067             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1068         ])
1069         d = c1.diff(c2)
1070         self.assertEqual(sorted(d), [
1071             ('mod', './foo', c1["foo"], c2["foo"]),
1072             ('tok', './count1.txt', c2["count1.txt"], c1["count1.txt"]),
1073         ])
1074
1075         self.assertNotEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1076         c1.apply(d)
1077         self.assertEqual(c1.portable_manifest_text(), c2.portable_manifest_text())
1078
1079     def test_conflict_keep_local_change(self):
1080         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n')
1081         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count2.txt\n')
1082         d = c1.diff(c2)
1083         self.assertEqual(sorted(d), [
1084             ('add', './count2.txt', c2["count2.txt"]),
1085             ('del', './count1.txt', c1["count1.txt"]),
1086         ])
1087         f = c1.open("count1.txt", "wb")
1088         f.write(b"zzzzz")
1089
1090         # c1 changed, so it should not be deleted.
1091         c1.apply(d)
1092         self.assertEqual(c1.portable_manifest_text(), ". 95ebc3c7b3b9f1d2c40fec14415d3cb8+5 5348b82a029fd9e971a811ce1f71360b+43 0:5:count1.txt 5:10:count2.txt\n")
1093
1094     def test_conflict_mod(self):
1095         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt')
1096         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count1.txt')
1097         d = c1.diff(c2)
1098         self.assertEqual(d, [('mod', './count1.txt', c1["count1.txt"], c2["count1.txt"])])
1099         f = c1.open("count1.txt", "wb")
1100         f.write(b"zzzzz")
1101
1102         # c1 changed, so c2 mod will go to a conflict file
1103         c1.apply(d)
1104         self.assertRegex(
1105             c1.portable_manifest_text(),
1106             r"\. 95ebc3c7b3b9f1d2c40fec14415d3cb8\+5 5348b82a029fd9e971a811ce1f71360b\+43 0:5:count1\.txt 5:10:count1\.txt~\d\d\d\d\d\d\d\d-\d\d\d\d\d\d~conflict~$")
1107
1108     def test_conflict_add(self):
1109         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count2.txt\n')
1110         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count1.txt\n')
1111         d = c1.diff(c2)
1112         self.assertEqual(sorted(d), [
1113             ('add', './count1.txt', c2["count1.txt"]),
1114             ('del', './count2.txt', c1["count2.txt"]),
1115         ])
1116         f = c1.open("count1.txt", "wb")
1117         f.write(b"zzzzz")
1118
1119         # c1 added count1.txt, so c2 add will go to a conflict file
1120         c1.apply(d)
1121         self.assertRegex(
1122             c1.portable_manifest_text(),
1123             r"\. 95ebc3c7b3b9f1d2c40fec14415d3cb8\+5 5348b82a029fd9e971a811ce1f71360b\+43 0:5:count1\.txt 5:10:count1\.txt~\d\d\d\d\d\d\d\d-\d\d\d\d\d\d~conflict~$")
1124
1125     def test_conflict_del(self):
1126         c1 = Collection('. 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt')
1127         c2 = Collection('. 5348b82a029fd9e971a811ce1f71360b+43 0:10:count1.txt')
1128         d = c1.diff(c2)
1129         self.assertEqual(d, [('mod', './count1.txt', c1["count1.txt"], c2["count1.txt"])])
1130         c1.remove("count1.txt")
1131
1132         # c1 deleted, so c2 mod will go to a conflict file
1133         c1.apply(d)
1134         self.assertRegex(
1135             c1.portable_manifest_text(),
1136             r"\. 5348b82a029fd9e971a811ce1f71360b\+43 0:10:count1\.txt~\d\d\d\d\d\d\d\d-\d\d\d\d\d\d~conflict~$")
1137
1138     def test_notify(self):
1139         c1 = Collection()
1140         events = []
1141         c1.subscribe(lambda event, collection, name, item: events.append((event, collection, name, item)))
1142         f = c1.open("foo.txt", "wb")
1143         self.assertEqual(events[0], (arvados.collection.ADD, c1, "foo.txt", f.arvadosfile))
1144
1145     def test_open_w(self):
1146         c1 = Collection(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count1.txt\n")
1147         self.assertEqual(c1["count1.txt"].size(), 10)
1148         c1.open("count1.txt", "wb").close()
1149         self.assertEqual(c1["count1.txt"].size(), 0)
1150
1151
1152 class NewCollectionTestCaseWithServers(run_test_server.TestCaseWithServers):
1153     def test_get_manifest_text_only_committed(self):
1154         c = Collection()
1155         with c.open("count.txt", "wb") as f:
1156             # One file committed
1157             with c.open("foo.txt", "wb") as foo:
1158                 foo.write(b"foo")
1159                 foo.flush() # Force block commit
1160             f.write(b"0123456789")
1161             # Other file not committed. Block not written to keep yet.
1162             self.assertEqual(
1163                 c._get_manifest_text(".",
1164                                      strip=False,
1165                                      normalize=False,
1166                                      only_committed=True),
1167                 '. acbd18db4cc2f85cedef654fccc4a4d8+3 0:0:count.txt 0:3:foo.txt\n')
1168             # And now with the file closed...
1169             f.flush() # Force block commit
1170         self.assertEqual(
1171             c._get_manifest_text(".",
1172                                  strip=False,
1173                                  normalize=False,
1174                                  only_committed=True),
1175             ". 781e5e245d69b566979b86e28d23f2c7+10 acbd18db4cc2f85cedef654fccc4a4d8+3 0:10:count.txt 10:3:foo.txt\n")
1176
1177     def test_only_small_blocks_are_packed_together(self):
1178         c = Collection()
1179         # Write a couple of small files,
1180         f = c.open("count.txt", "wb")
1181         f.write(b"0123456789")
1182         f.close(flush=False)
1183         foo = c.open("foo.txt", "wb")
1184         foo.write(b"foo")
1185         foo.close(flush=False)
1186         # Then, write a big file, it shouldn't be packed with the ones above
1187         big = c.open("bigfile.txt", "wb")
1188         big.write(b"x" * 1024 * 1024 * 33) # 33 MB > KEEP_BLOCK_SIZE/2
1189         big.close(flush=False)
1190         self.assertEqual(
1191             c.manifest_text("."),
1192             '. 2d303c138c118af809f39319e5d507e9+34603008 a8430a058b8fbf408e1931b794dbd6fb+13 0:34603008:bigfile.txt 34603008:10:count.txt 34603018:3:foo.txt\n')
1193
1194
1195 class CollectionCreateUpdateTest(run_test_server.TestCaseWithServers):
1196     MAIN_SERVER = {}
1197     KEEP_SERVER = {}
1198
1199     def create_count_txt(self):
1200         # Create an empty collection, save it to the API server, then write a
1201         # file, but don't save it.
1202
1203         c = Collection()
1204         c.save_new("CollectionCreateUpdateTest", ensure_unique_name=True)
1205         self.assertEqual(c.portable_data_hash(), "d41d8cd98f00b204e9800998ecf8427e+0")
1206         self.assertEqual(c.api_response()["portable_data_hash"], "d41d8cd98f00b204e9800998ecf8427e+0" )
1207
1208         with c.open("count.txt", "wb") as f:
1209             f.write(b"0123456789")
1210
1211         self.assertEqual(c.portable_manifest_text(), ". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count.txt\n")
1212
1213         return c
1214
1215     def test_create_and_save(self):
1216         c = self.create_count_txt()
1217         c.save()
1218         self.assertRegex(
1219             c.manifest_text(),
1220             r"^\. 781e5e245d69b566979b86e28d23f2c7\+10\+A[a-f0-9]{40}@[a-f0-9]{8} 0:10:count\.txt$",)
1221
1222     def test_create_and_save_new(self):
1223         c = self.create_count_txt()
1224         c.save_new()
1225         self.assertRegex(
1226             c.manifest_text(),
1227             r"^\. 781e5e245d69b566979b86e28d23f2c7\+10\+A[a-f0-9]{40}@[a-f0-9]{8} 0:10:count\.txt$",)
1228
1229     def test_create_diff_apply(self):
1230         c1 = self.create_count_txt()
1231         c1.save()
1232
1233         c2 = Collection(c1.manifest_locator())
1234         with c2.open("count.txt", "wb") as f:
1235             f.write(b"abcdefg")
1236
1237         diff = c1.diff(c2)
1238
1239         self.assertEqual(diff[0], (arvados.collection.MOD, u'./count.txt', c1["count.txt"], c2["count.txt"]))
1240
1241         c1.apply(diff)
1242         self.assertEqual(c1.portable_data_hash(), c2.portable_data_hash())
1243
1244     def test_diff_apply_with_token(self):
1245         baseline = CollectionReader(". 781e5e245d69b566979b86e28d23f2c7+10+A715fd31f8111894f717eb1003c1b0216799dd9ec@54f5dd1a 0:10:count.txt\n")
1246         c = Collection(". 781e5e245d69b566979b86e28d23f2c7+10 0:10:count.txt\n")
1247         other = CollectionReader(". 7ac66c0f148de9519b8bd264312c4d64+7+A715fd31f8111894f717eb1003c1b0216799dd9ec@54f5dd1a 0:7:count.txt\n")
1248
1249         diff = baseline.diff(other)
1250         self.assertEqual(diff, [('mod', u'./count.txt', c["count.txt"], other["count.txt"])])
1251
1252         c.apply(diff)
1253
1254         self.assertEqual(c.manifest_text(), ". 7ac66c0f148de9519b8bd264312c4d64+7+A715fd31f8111894f717eb1003c1b0216799dd9ec@54f5dd1a 0:7:count.txt\n")
1255
1256
1257     def test_create_and_update(self):
1258         c1 = self.create_count_txt()
1259         c1.save()
1260
1261         c2 = arvados.collection.Collection(c1.manifest_locator())
1262         with c2.open("count.txt", "wb") as f:
1263             f.write(b"abcdefg")
1264
1265         c2.save()
1266
1267         self.assertNotEqual(c1.portable_data_hash(), c2.portable_data_hash())
1268         c1.update()
1269         self.assertEqual(c1.portable_data_hash(), c2.portable_data_hash())
1270
1271
1272     def test_create_and_update_with_conflict(self):
1273         c1 = self.create_count_txt()
1274         c1.save()
1275
1276         with c1.open("count.txt", "wb") as f:
1277             f.write(b"XYZ")
1278
1279         c2 = arvados.collection.Collection(c1.manifest_locator())
1280         with c2.open("count.txt", "wb") as f:
1281             f.write(b"abcdefg")
1282
1283         c2.save()
1284
1285         c1.update()
1286         self.assertRegex(
1287             c1.manifest_text(),
1288             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~$")
1289
1290
1291 if __name__ == '__main__':
1292     unittest.main()