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""" |
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Tests the h5py.File object. |
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""" |
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import h5py |
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from h5py._hl.files import _drivers |
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from h5py import File |
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from .common import ut, TestCase |
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import pytest |
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import io |
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import tempfile |
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import os |
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def nfiles(): |
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return h5py.h5f.get_obj_count(h5py.h5f.OBJ_ALL, h5py.h5f.OBJ_FILE) |
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def ngroups(): |
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return h5py.h5f.get_obj_count(h5py.h5f.OBJ_ALL, h5py.h5f.OBJ_GROUP) |
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class TestDealloc(TestCase): |
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""" |
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Behavior on object deallocation. Note most of this behavior is |
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delegated to FileID. |
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""" |
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def test_autoclose(self): |
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""" File objects close automatically when out of scope, but |
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other objects remain open. """ |
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start_nfiles = nfiles() |
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start_ngroups = ngroups() |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w') |
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g = f['/'] |
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self.assertEqual(nfiles(), start_nfiles+1) |
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self.assertEqual(ngroups(), start_ngroups+1) |
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del f |
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self.assertTrue(g) |
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self.assertEqual(nfiles(), start_nfiles) |
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self.assertEqual(ngroups(), start_ngroups+1) |
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f = g.file |
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self.assertTrue(f) |
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self.assertEqual(nfiles(), start_nfiles+1) |
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self.assertEqual(ngroups(), start_ngroups+1) |
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del g |
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self.assertEqual(nfiles(), start_nfiles+1) |
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self.assertEqual(ngroups(), start_ngroups) |
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del f |
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self.assertEqual(nfiles(), start_nfiles) |
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self.assertEqual(ngroups(), start_ngroups) |
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class TestDriverRegistration(TestCase): |
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def test_register_driver(self): |
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called_with = [None] |
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def set_fapl(plist, *args, **kwargs): |
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called_with[0] = args, kwargs |
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return _drivers['sec2'](plist) |
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h5py.register_driver('new-driver', set_fapl) |
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self.assertIn('new-driver', h5py.registered_drivers()) |
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fname = self.mktemp() |
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h5py.File(fname, driver='new-driver', driver_arg_0=0, driver_arg_1=1, |
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mode='w') |
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self.assertEqual( |
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called_with, |
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[((), {'driver_arg_0': 0, 'driver_arg_1': 1})], |
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) |
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def test_unregister_driver(self): |
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h5py.register_driver('new-driver', lambda plist: None) |
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self.assertIn('new-driver', h5py.registered_drivers()) |
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h5py.unregister_driver('new-driver') |
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self.assertNotIn('new-driver', h5py.registered_drivers()) |
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with self.assertRaises(ValueError) as e: |
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fname = self.mktemp() |
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h5py.File(fname, driver='new-driver', mode='w') |
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self.assertEqual(str(e.exception), 'Unknown driver type "new-driver"') |
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class TestCache(TestCase): |
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def test_defaults(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w') |
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self.assertEqual(list(f.id.get_access_plist().get_cache()), |
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[0, 521, 1048576, 0.75]) |
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def test_nbytes(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w', rdcc_nbytes=1024) |
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self.assertEqual(list(f.id.get_access_plist().get_cache()), |
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[0, 521, 1024, 0.75]) |
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def test_nslots(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w', rdcc_nslots=125) |
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self.assertEqual(list(f.id.get_access_plist().get_cache()), |
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[0, 125, 1048576, 0.75]) |
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def test_w0(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w', rdcc_w0=0.25) |
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self.assertEqual(list(f.id.get_access_plist().get_cache()), |
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[0, 521, 1048576, 0.25]) |
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class TestFileObj(TestCase): |
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def check_write(self, fileobj): |
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f = h5py.File(fileobj, 'w') |
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self.assertEqual(f.driver, 'fileobj') |
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self.assertEqual(f.filename, repr(fileobj)) |
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f.create_dataset('test', data=list(range(12))) |
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self.assertEqual(list(f), ['test']) |
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self.assertEqual(list(f['test'][:]), list(range(12))) |
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f.close() |
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def check_read(self, fileobj): |
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f = h5py.File(fileobj, 'r') |
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self.assertEqual(list(f), ['test']) |
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self.assertEqual(list(f['test'][:]), list(range(12))) |
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self.assertRaises(Exception, f.create_dataset, 'another.test', data=list(range(3))) |
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f.close() |
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def test_BytesIO(self): |
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with io.BytesIO() as fileobj: |
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self.assertEqual(len(fileobj.getvalue()), 0) |
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self.check_write(fileobj) |
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self.assertGreater(len(fileobj.getvalue()), 0) |
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self.check_read(fileobj) |
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def test_file(self): |
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fname = self.mktemp() |
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try: |
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with open(fname, 'wb+') as fileobj: |
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self.assertEqual(os.path.getsize(fname), 0) |
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self.check_write(fileobj) |
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self.assertGreater(os.path.getsize(fname), 0) |
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self.check_read(fileobj) |
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with open(fname, 'rb') as fileobj: |
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self.check_read(fileobj) |
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finally: |
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os.remove(fname) |
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def test_TemporaryFile(self): |
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fileobj = tempfile.NamedTemporaryFile() |
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fname = fileobj.name |
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f = h5py.File(fileobj, 'w') |
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del fileobj |
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f.create_dataset('test', data=list(range(12))) |
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self.assertEqual(list(f), ['test']) |
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self.assertEqual(list(f['test'][:]), list(range(12))) |
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self.assertTrue(os.path.isfile(fname)) |
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f.close() |
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self.assertFalse(os.path.isfile(fname)) |
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def test_exception_open(self): |
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self.assertRaises(Exception, h5py.File, None, |
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driver='fileobj', mode='x') |
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self.assertRaises(Exception, h5py.File, 'rogue', |
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driver='fileobj', mode='x') |
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self.assertRaises(Exception, h5py.File, self, |
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driver='fileobj', mode='x') |
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def test_exception_read(self): |
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class BrokenBytesIO(io.BytesIO): |
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def readinto(self, b): |
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raise Exception('I am broken') |
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f = h5py.File(BrokenBytesIO(), 'w') |
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f.create_dataset('test', data=list(range(12))) |
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self.assertRaises(Exception, list, f['test']) |
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def test_exception_write(self): |
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class BrokenBytesIO(io.BytesIO): |
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allow_write = False |
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def write(self, b): |
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if self.allow_write: |
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return super().write(b) |
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else: |
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raise Exception('I am broken') |
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bio = BrokenBytesIO() |
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f = h5py.File(bio, 'w') |
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try: |
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self.assertRaises(Exception, f.create_dataset, 'test', |
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data=list(range(12))) |
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finally: |
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bio.allow_write = True |
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f.close() |
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@ut.skip("Incompletely closed files can cause segfaults") |
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def test_exception_close(self): |
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fileobj = io.BytesIO() |
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f = h5py.File(fileobj, 'w') |
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fileobj.close() |
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self.assertRaises(Exception, f.close) |
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def test_exception_writeonly(self): |
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fileobj = open(os.path.join(self.tempdir, 'a.h5'), 'wb') |
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with self.assertRaises(io.UnsupportedOperation): |
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f = h5py.File(fileobj, 'w') |
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group = f.create_group("group") |
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group.create_dataset("data", data='foo', dtype=h5py.string_dtype()) |
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def test_method_vanish(self): |
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fileobj = io.BytesIO() |
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f = h5py.File(fileobj, 'w') |
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f.create_dataset('test', data=list(range(12))) |
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self.assertEqual(list(f['test'][:]), list(range(12))) |
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fileobj.readinto = None |
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self.assertRaises(Exception, list, f['test']) |
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class TestTrackOrder(TestCase): |
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def populate(self, f): |
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for i in range(100): |
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if i % 10 == 0: |
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f.create_group(str(i)) |
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else: |
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f[str(i)] = [i] |
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def test_track_order(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w', track_order=True) |
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self.populate(f) |
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self.assertEqual(list(f), |
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[str(i) for i in range(100)]) |
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def test_no_track_order(self): |
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fname = self.mktemp() |
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f = h5py.File(fname, 'w', track_order=False) |
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self.populate(f) |
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self.assertEqual(list(f), |
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sorted([str(i) for i in range(100)])) |
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class TestFileMetaBlockSize(TestCase): |
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""" |
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Feature: The meta block size can be manipulated, changing how metadata |
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is aggregated and the offset of the first dataset. |
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""" |
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def test_file_create_with_meta_block_size_4096(self): |
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meta_block_size = 4096 |
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with File( |
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self.mktemp(), 'w', |
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meta_block_size=meta_block_size, |
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libver="latest" |
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) as f: |
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f["test"] = 5 |
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self.assertEqual(f.meta_block_size, meta_block_size) |
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self.assertGreaterEqual(f["test"].id.get_offset(), meta_block_size) |
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def test_file_create_with_meta_block_size_512(self): |
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meta_block_size = 512 |
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libver = "latest" |
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with File( |
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self.mktemp(), 'w', |
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meta_block_size=meta_block_size, |
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libver=libver |
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) as f: |
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f["test"] = 3 |
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self.assertEqual(f.meta_block_size, meta_block_size) |
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self.assertGreaterEqual(f["test"].id.get_offset(), meta_block_size) |
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self.assertLess(f["test"].id.get_offset(), meta_block_size*2) |
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