zpwiki/pages/students/2016/lukas_pokryvka/dp2021/lungCancer/util/disk.py

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import gzip
from diskcache import FanoutCache, Disk
from diskcache.core import BytesType, MODE_BINARY, BytesIO
from util.logconf import logging
log = logging.getLogger(__name__)
# log.setLevel(logging.WARN)
log.setLevel(logging.INFO)
# log.setLevel(logging.DEBUG)
class GzipDisk(Disk):
def store(self, value, read, key=None):
"""
Override from base class diskcache.Disk.
Chunking is due to needing to work on pythons < 2.7.13:
- Issue #27130: In the "zlib" module, fix handling of large buffers
(typically 2 or 4 GiB). Previously, inputs were limited to 2 GiB, and
compression and decompression operations did not properly handle results of
2 or 4 GiB.
:param value: value to convert
:param bool read: True when value is file-like object
:return: (size, mode, filename, value) tuple for Cache table
"""
# pylint: disable=unidiomatic-typecheck
if type(value) is BytesType:
if read:
value = value.read()
read = False
str_io = BytesIO()
gz_file = gzip.GzipFile(mode='wb', compresslevel=1, fileobj=str_io)
for offset in range(0, len(value), 2**30):
gz_file.write(value[offset:offset+2**30])
gz_file.close()
value = str_io.getvalue()
return super(GzipDisk, self).store(value, read)
def fetch(self, mode, filename, value, read):
"""
Override from base class diskcache.Disk.
Chunking is due to needing to work on pythons < 2.7.13:
- Issue #27130: In the "zlib" module, fix handling of large buffers
(typically 2 or 4 GiB). Previously, inputs were limited to 2 GiB, and
compression and decompression operations did not properly handle results of
2 or 4 GiB.
:param int mode: value mode raw, binary, text, or pickle
:param str filename: filename of corresponding value
:param value: database value
:param bool read: when True, return an open file handle
:return: corresponding Python value
"""
value = super(GzipDisk, self).fetch(mode, filename, value, read)
if mode == MODE_BINARY:
str_io = BytesIO(value)
gz_file = gzip.GzipFile(mode='rb', fileobj=str_io)
read_csio = BytesIO()
while True:
uncompressed_data = gz_file.read(2**30)
if uncompressed_data:
read_csio.write(uncompressed_data)
else:
break
value = read_csio.getvalue()
return value
def getCache(scope_str):
return FanoutCache('data-unversioned/cache/' + scope_str,
disk=GzipDisk,
shards=64,
timeout=1,
size_limit=3e11,
# disk_min_file_size=2**20,
)
# def disk_cache(base_path, memsize=2):
# def disk_cache_decorator(f):
# @functools.wraps(f)
# def wrapper(*args, **kwargs):
# args_str = repr(args) + repr(sorted(kwargs.items()))
# file_str = hashlib.md5(args_str.encode('utf8')).hexdigest()
#
# cache_path = os.path.join(base_path, f.__name__, file_str + '.pkl.gz')
#
# if not os.path.exists(os.path.dirname(cache_path)):
# os.makedirs(os.path.dirname(cache_path), exist_ok=True)
#
# if os.path.exists(cache_path):
# return pickle_loadgz(cache_path)
# else:
# ret = f(*args, **kwargs)
# pickle_dumpgz(cache_path, ret)
# return ret
#
# return wrapper
#
# return disk_cache_decorator
#
#
# def pickle_dumpgz(file_path, obj):
# log.debug("Writing {}".format(file_path))
# with open(file_path, 'wb') as file_obj:
# with gzip.GzipFile(mode='wb', compresslevel=1, fileobj=file_obj) as gz_file:
# pickle.dump(obj, gz_file, pickle.HIGHEST_PROTOCOL)
#
#
# def pickle_loadgz(file_path):
# log.debug("Reading {}".format(file_path))
# with open(file_path, 'rb') as file_obj:
# with gzip.GzipFile(mode='rb', fileobj=file_obj) as gz_file:
# return pickle.load(gz_file)
#
#
# def dtpath(dt=None):
# if dt is None:
# dt = datetime.datetime.now()
#
# return str(dt).rsplit('.', 1)[0].replace(' ', '--').replace(':', '.')
#
#
# def safepath(s):
# s = s.replace(' ', '_')
# return re.sub('[^A-Za-z0-9_.-]', '', s)