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test_s3.py
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test_s3.py
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from __future__ import print_function, division, absolute_import
import io
import sys
import os
from contextlib import contextmanager
from distutils.version import LooseVersion
import pytest
import numpy as np
s3fs = pytest.importorskip('s3fs')
boto3 = pytest.importorskip('boto3')
moto = pytest.importorskip('moto')
httpretty = pytest.importorskip('httpretty')
from toolz import concat, valmap, partial
from dask import compute
from dask.bytes.s3 import DaskS3FileSystem
from dask.bytes.core import read_bytes, open_files, get_pyarrow_filesystem
from dask.bytes.compression import compress, files as compress_files, seekable_files
compute = partial(compute, scheduler='sync')
test_bucket_name = 'test'
files = {'test/accounts.1.json': (b'{"amount": 100, "name": "Alice"}\n'
b'{"amount": 200, "name": "Bob"}\n'
b'{"amount": 300, "name": "Charlie"}\n'
b'{"amount": 400, "name": "Dennis"}\n'),
'test/accounts.2.json': (b'{"amount": 500, "name": "Alice"}\n'
b'{"amount": 600, "name": "Bob"}\n'
b'{"amount": 700, "name": "Charlie"}\n'
b'{"amount": 800, "name": "Dennis"}\n')}
@contextmanager
def ensure_safe_environment_variables():
"""
Get a context manager to safely set environment variables
All changes will be undone on close, hence environment variables set
within this contextmanager will neither persist nor change global state.
"""
saved_environ = dict(os.environ)
try:
yield
finally:
os.environ.clear()
os.environ.update(saved_environ)
@pytest.fixture()
def s3():
with ensure_safe_environment_variables():
# temporary workaround as moto fails for botocore >= 1.11 otherwise,
# see https://github.com/spulec/moto/issues/1924 & 1952
os.environ.setdefault("AWS_ACCESS_KEY_ID", "foobar_key")
os.environ.setdefault("AWS_SECRET_ACCESS_KEY", "foobar_secret")
# writable local S3 system
import moto
with moto.mock_s3():
client = boto3.client('s3')
client.create_bucket(Bucket=test_bucket_name, ACL='public-read-write')
for f, data in files.items():
client.put_object(Bucket=test_bucket_name, Key=f, Body=data)
yield s3fs.S3FileSystem(anon=True)
httpretty.HTTPretty.disable()
httpretty.HTTPretty.reset()
@contextmanager
def s3_context(bucket, files):
with ensure_safe_environment_variables():
# temporary workaround as moto fails for botocore >= 1.11 otherwise,
# see https://github.com/spulec/moto/issues/1924 & 1952
os.environ.setdefault("AWS_ACCESS_KEY_ID", "foobar_key")
os.environ.setdefault("AWS_SECRET_ACCESS_KEY", "foobar_secret")
with moto.mock_s3():
client = boto3.client('s3')
client.create_bucket(Bucket=bucket, ACL='public-read-write')
for f, data in files.items():
client.put_object(Bucket=bucket, Key=f, Body=data)
yield DaskS3FileSystem(anon=True)
for f, data in files.items():
try:
client.delete_object(Bucket=bucket, Key=f, Body=data)
except Exception:
pass
finally:
httpretty.HTTPretty.disable()
httpretty.HTTPretty.reset()
@pytest.fixture()
@pytest.mark.slow
def s3_with_yellow_tripdata(s3):
"""
Fixture with sample yellowtrip CSVs loaded into S3.
Provides the following CSVs:
* s3://test/nyc-taxi/2015/yellow_tripdata_2015-01.csv
* s3://test/nyc-taxi/2014/yellow_tripdata_2015-mm.csv
for mm from 01 - 12.
"""
pd = pytest.importorskip('pandas')
data = {'VendorID': {0: 2, 1: 1, 2: 1, 3: 1, 4: 1},
'tpep_pickup_datetime': {0: '2015-01-15 19:05:39',
1: '2015-01-10 20:33:38',
2: '2015-01-10 20:33:38',
3: '2015-01-10 20:33:39',
4: '2015-01-10 20:33:39'},
'tpep_dropoff_datetime': {0: '2015-01-15 19:23:42',
1: '2015-01-10 20:53:28',
2: '2015-01-10 20:43:41',
3: '2015-01-10 20:35:31',
4: '2015-01-10 20:52:58'},
'passenger_count': {0: 1, 1: 1, 2: 1, 3: 1, 4: 1},
'trip_distance': {0: 1.59, 1: 3.3, 2: 1.8, 3: 0.5, 4: 3.0},
'pickup_longitude': {0: -73.993896484375,
1: -74.00164794921875,
2: -73.96334075927734,
3: -74.00908660888672,
4: -73.97117614746094},
'pickup_latitude': {0: 40.7501106262207,
1: 40.7242431640625,
2: 40.80278778076172,
3: 40.71381759643555,
4: 40.762428283691406},
'RateCodeID': {0: 1, 1: 1, 2: 1, 3: 1, 4: 1},
'store_and_fwd_flag': {0: 'N', 1: 'N', 2: 'N', 3: 'N', 4: 'N'},
'dropoff_longitude': {0: -73.97478485107422,
1: -73.99441528320312,
2: -73.95182037353516,
3: -74.00432586669923,
4: -74.00418090820312},
'dropoff_latitude': {0: 40.75061798095703,
1: 40.75910949707031,
2: 40.82441329956055,
3: 40.71998596191406,
4: 40.742652893066406},
'payment_type': {0: 1, 1: 1, 2: 2, 3: 2, 4: 2},
'fare_amount': {0: 12.0, 1: 14.5, 2: 9.5, 3: 3.5, 4: 15.0},
'extra': {0: 1.0, 1: 0.5, 2: 0.5, 3: 0.5, 4: 0.5},
'mta_tax': {0: 0.5, 1: 0.5, 2: 0.5, 3: 0.5, 4: 0.5},
'tip_amount': {0: 3.25, 1: 2.0, 2: 0.0, 3: 0.0, 4: 0.0},
'tolls_amount': {0: 0.0, 1: 0.0, 2: 0.0, 3: 0.0, 4: 0.0},
'improvement_surcharge': {0: 0.3, 1: 0.3, 2: 0.3, 3: 0.3, 4: 0.3},
'total_amount': {0: 17.05, 1: 17.8, 2: 10.8, 3: 4.8, 4: 16.3}}
sample = pd.DataFrame(data)
df = sample.take(np.arange(5).repeat(10000))
file = io.BytesIO()
sfile = io.TextIOWrapper(file)
df.to_csv(sfile, index=False)
key = "nyc-taxi/2015/yellow_tripdata_2015-01.csv"
client = boto3.client('s3')
client.put_object(Bucket=test_bucket_name, Key=key, Body=file)
key = "nyc-taxi/2014/yellow_tripdata_2014-{:0>2d}.csv"
for i in range(1, 13):
file.seek(0)
client.put_object(Bucket=test_bucket_name,
Key=key.format(i),
Body=file)
yield
def test_get_s3():
s3 = DaskS3FileSystem(key='key', secret='secret')
assert s3.key == 'key'
assert s3.secret == 'secret'
s3 = DaskS3FileSystem(username='key', password='secret')
assert s3.key == 'key'
assert s3.secret == 'secret'
with pytest.raises(KeyError):
DaskS3FileSystem(key='key', username='key')
with pytest.raises(KeyError):
DaskS3FileSystem(secret='key', password='key')
def test_open_files_write(s3):
paths = ['s3://' + test_bucket_name + '/more/' + f for f in files]
fils = open_files(paths, mode='wb')
for fil, data in zip(fils, files.values()):
with fil as f:
f.write(data)
sample, values = read_bytes('s3://' + test_bucket_name + '/more/test/accounts.*')
results = compute(*concat(values))
assert set(list(files.values())) == set(results)
def test_read_bytes(s3):
sample, values = read_bytes('s3://' + test_bucket_name + '/test/accounts.*')
assert isinstance(sample, bytes)
assert sample[:5] == files[sorted(files)[0]][:5]
assert sample.endswith(b'\n')
assert isinstance(values, (list, tuple))
assert isinstance(values[0], (list, tuple))
assert hasattr(values[0][0], 'dask')
assert sum(map(len, values)) >= len(files)
results = compute(*concat(values))
assert set(results) == set(files.values())
def test_read_bytes_sample_delimiter(s3):
sample, values = read_bytes('s3://' + test_bucket_name + '/test/accounts.*',
sample=80, delimiter=b'\n')
assert sample.endswith(b'\n')
sample, values = read_bytes('s3://' + test_bucket_name + '/test/accounts.1.json',
sample=80, delimiter=b'\n')
assert sample.endswith(b'\n')
sample, values = read_bytes('s3://' + test_bucket_name + '/test/accounts.1.json',
sample=2, delimiter=b'\n')
assert sample.endswith(b'\n')
def test_read_bytes_non_existing_glob(s3):
with pytest.raises(IOError):
read_bytes('s3://' + test_bucket_name + '/non-existing/*')
def test_read_bytes_blocksize_none(s3):
_, values = read_bytes('s3://' + test_bucket_name + '/test/accounts.*',
blocksize=None)
assert sum(map(len, values)) == len(files)
def test_read_bytes_blocksize_on_large_data(s3_with_yellow_tripdata):
_, L = read_bytes(
's3://{}/nyc-taxi/2015/yellow_tripdata_2015-01.csv'.format(
test_bucket_name),
blocksize=None, anon=True)
assert len(L) == 1
_, L = read_bytes('s3://{}/nyc-taxi/2014/*.csv'.format(test_bucket_name),
blocksize=None, anon=True)
assert len(L) == 12
@pytest.mark.parametrize('blocksize', [5, 15, 45, 1500])
def test_read_bytes_block(s3, blocksize):
_, vals = read_bytes('s3://' + test_bucket_name + '/test/account*',
blocksize=blocksize)
assert (list(map(len, vals)) ==
[(len(v) // blocksize + 1) for v in files.values()])
results = compute(*concat(vals))
assert (sum(len(r) for r in results) ==
sum(len(v) for v in files.values()))
ourlines = b"".join(results).split(b'\n')
testlines = b"".join(files.values()).split(b'\n')
assert set(ourlines) == set(testlines)
@pytest.mark.parametrize('blocksize', [5, 15, 45, 1500])
def test_read_bytes_delimited(s3, blocksize):
_, values = read_bytes('s3://' + test_bucket_name + '/test/accounts*',
blocksize=blocksize, delimiter=b'\n')
_, values2 = read_bytes('s3://' + test_bucket_name + '/test/accounts*',
blocksize=blocksize, delimiter=b'foo')
assert ([a.key for a in concat(values)] !=
[b.key for b in concat(values2)])
results = compute(*concat(values))
res = [r for r in results if r]
assert all(r.endswith(b'\n') for r in res)
ourlines = b''.join(res).split(b'\n')
testlines = b"".join(files[k] for k in sorted(files)).split(b'\n')
assert ourlines == testlines
# delimiter not at the end
d = b'}'
_, values = read_bytes('s3://' + test_bucket_name + '/test/accounts*',
blocksize=blocksize, delimiter=d)
results = compute(*concat(values))
res = [r for r in results if r]
# All should end in } except EOF
assert sum(r.endswith(b'}') for r in res) == len(res) - 2
ours = b"".join(res)
test = b"".join(files[v] for v in sorted(files))
assert ours == test
@pytest.mark.parametrize('fmt,blocksize',
[(fmt, None) for fmt in compress_files] +
[(fmt, 10) for fmt in seekable_files])
def test_compression(s3, fmt, blocksize):
with s3_context('compress', valmap(compress[fmt], files)):
sample, values = read_bytes('s3://compress/test/accounts.*',
compression=fmt, blocksize=blocksize)
assert sample.startswith(files[sorted(files)[0]][:10])
assert sample.endswith(b'\n')
results = compute(*concat(values))
assert b''.join(results) == b''.join([files[k] for k in sorted(files)])
@pytest.mark.parametrize('mode', ['rt', 'rb'])
def test_open_files(s3, mode):
myfiles = open_files('s3://' + test_bucket_name + '/test/accounts.*',
mode=mode)
assert len(myfiles) == len(files)
for lazy_file, path in zip(myfiles, sorted(files)):
with lazy_file as f:
data = f.read()
sol = files[path]
assert data == sol if mode == 'rb' else sol.decode()
double = lambda x: x * 2
def test_modification_time_read_bytes():
with s3_context('compress', files):
_, a = read_bytes('s3://compress/test/accounts.*')
_, b = read_bytes('s3://compress/test/accounts.*')
assert [aa._key for aa in concat(a)] == [bb._key for bb in concat(b)]
with s3_context('compress', valmap(double, files)):
_, c = read_bytes('s3://compress/test/accounts.*')
assert [aa._key for aa in concat(a)] != [cc._key for cc in concat(c)]
def test_read_csv_passes_through_options():
dd = pytest.importorskip('dask.dataframe')
with s3_context('csv', {'a.csv': b'a,b\n1,2\n3,4'}) as s3:
df = dd.read_csv('s3://csv/*.csv', storage_options={'s3': s3})
assert df.a.sum().compute() == 1 + 3
def test_read_text_passes_through_options():
db = pytest.importorskip('dask.bag')
with s3_context('csv', {'a.csv': b'a,b\n1,2\n3,4'}) as s3:
df = db.read_text('s3://csv/*.csv', storage_options={'s3': s3})
assert df.count().compute(scheduler='sync') == 3
@pytest.mark.parametrize("engine", ['pyarrow', 'fastparquet'])
def test_parquet(s3, engine):
dd = pytest.importorskip('dask.dataframe')
lib = pytest.importorskip(engine)
if engine == 'pyarrow' and LooseVersion(lib.__version__) == '0.13.0':
pytest.skip('pyarrow 0.13.0 not supported for parquet')
import pandas as pd
import numpy as np
url = 's3://%s/test.parquet' % test_bucket_name
data = pd.DataFrame({'i32': np.arange(1000, dtype=np.int32),
'i64': np.arange(1000, dtype=np.int64),
'f': np.arange(1000, dtype=np.float64),
'bhello': np.random.choice(
[u'hello', u'you', u'people'],
size=1000).astype("O")},
index=pd.Index(np.arange(1000), name='foo'))
df = dd.from_pandas(data, chunksize=500)
df.to_parquet(url, engine=engine)
files = [f.split('/')[-1] for f in s3.ls(url)]
assert '_common_metadata' in files
assert 'part.0.parquet' in files
df2 = dd.read_parquet(url, index='foo', engine=engine)
assert len(df2.divisions) > 1
pd.util.testing.assert_frame_equal(data, df2.compute())
def test_parquet_wstoragepars(s3):
dd = pytest.importorskip('dask.dataframe')
pytest.importorskip('fastparquet')
import pandas as pd
import numpy as np
url = 's3://%s/test.parquet' % test_bucket_name
data = pd.DataFrame({'i32': np.array([0, 5, 2, 5])})
df = dd.from_pandas(data, chunksize=500)
df.to_parquet(url, write_index=False)
dd.read_parquet(url, storage_options={'default_fill_cache': False})
assert s3.current().default_fill_cache is False
dd.read_parquet(url, storage_options={'default_fill_cache': True})
assert s3.current().default_fill_cache is True
dd.read_parquet(url, storage_options={'default_block_size': 2**20})
assert s3.current().default_block_size == 2**20
with s3.current().open(url + '/_metadata') as f:
assert f.blocksize == 2**20
@pytest.mark.skipif(sys.platform == 'win32',
reason="pathlib and moto clash on windows")
def test_pathlib_s3(s3):
pathlib = pytest.importorskip("pathlib")
with pytest.raises(ValueError):
url = pathlib.Path('s3://bucket/test.accounts.*')
sample, values = read_bytes(url, blocksize=None)
def test_get_pyarrow_fs_s3(s3):
pa = pytest.importorskip('pyarrow')
fs = DaskS3FileSystem(anon=True)
assert isinstance(get_pyarrow_filesystem(fs), pa.filesystem.S3FSWrapper)