xinyazhang · May 27, 2021 06:37
diff --git a/npz_head.py b/npz_head.py
 #!/usr/bin/env python3

 '''
 Copyright © 2020, 2021 Xinya Zhang <xinyazhang@utexas.edu>

 Permission is hereby granted, free of charge, to any person obtaining a copy
 of this software and associated documentation files (the "Software"), to deal
 in the Software without restriction, including without limitation the rights
 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
 copies of the Software, and to permit persons to whom the Software is
 furnished to do so, subject to the following conditions:

 The above copyright notice and this permission notice shall be included in all
 copies or substantial portions of the Software.

 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
 SOFTWARE.
 '''

 import numpy as np
 import h5py
 import lzma
 import io
 from scipy.io import loadmat,savemat
 import pathlib
 import os
 import sys
 import argparse

 def _load_csv(fn):
    return np.loadtxt(fn, delimiter=','), False

 def _load_hdf5(fn):
    return h5py.File(fn, 'r'), True

 def _load_xz(fn):
    p = pathlib.PosixPath(fn)
    #memfile = io.BytesIO(lzma.open(fn, 'r').read())
    memfile = io.BytesIO(lzma.open(fn, 'r').read())
    nest_suffix = p.with_suffix('').suffix
    if nest_suffix not in _SUFFIX_TO_LOADER:
        raise NotImplementedError("Parser for {} file is not implemented".format(p.suffix))
    return _SUFFIX_TO_LOADER[nest_suffix](memfile)

 def _load_np(fn):
    return np.load(fn, allow_pickle=True), False

 def _loadmat(fn):
    try:
        d = loadmat(fn, verify_compressed_data_integrity=False)
        return d, False
    except:
        return _load_hdf5(fn)

 def _load_npz(fn):
    return np.load(fn), False

 def _load_txt(fn):
    return np.loadtxt(fn), False

 _SUFFIX_TO_LOADER = {
        '.npz': _load_npz,
        '.txt': _load_txt,
        '.csv': _load_csv,
        '.mat': _loadmat,
        '.hdf5': _load_hdf5,
        '.xz': _load_xz
        }

 def h5py_dataset_iterator(g, prefix=''):
    for key in g.keys():
        item = g[key]
        path = '{}/{}'.format(prefix, key)
        if isinstance(item, h5py.Dataset): # test for dataset
            yield (path, item)
        elif isinstance(item, h5py.Group): # test for group (go down)
            yield from h5py_dataset_iterator(item, path)

 def _kv_yielder(p):
    sfx = p.suffix
    d, is_hdf5 = _SUFFIX_TO_LOADER[p.suffix](str(p))
    if not is_hdf5:
        for k,v in d.items(): # Python 3 syntax
            if k.startswith('__'):
                continue
            yield k, v
    else:
        for (k, v) in h5py_dataset_iterator(d):
            yield k, v

 def kv_yielder(p, args):
    for k, v in _kv_yielder(p):
        if args.showkey:
            if k in args.showkey:
                yield k, v
        else:
            yield k, v


 def head(args):
    fns = args.files
    for fn in fns:
        try:
            p = pathlib.PosixPath(fn)
            print("==> {} <==".format(fn))
            for k, v in kv_yielder(p, args):
                print("{}: type {} shape {}".format(k, v.dtype, v.shape))
                if args.row is not None:
                    print("\tRow {}\n{}".format(args.row, v[args.row]))
                elif args.show:
                    print("\t{}".format(v))
        except Exception as e:
            print("Error in reading {}.\nDetails {}".format(fn, e), file=sys.stderr)

 def main():
    parser = argparse.ArgumentParser(formatter_class=argparse.ArgumentDefaultsHelpFormatter)
    parser.add_argument('files', help='NPZ File', nargs='+')
    parser.add_argument('--show', help='Show values as well as of size', action='store_true')
    parser.add_argument('--showkey', help='Show values as well as of size', default=[], nargs='*')
    parser.add_argument('--row', help='Show specific row', type=int, default=None)
    args = parser.parse_args()
    head(args)

 if __name__ == '__main__':
    main()
	#!/usr/bin/env python3

	'''
	Copyright © 2020, 2021 Xinya Zhang <xinyazhang@utexas.edu>

	Permission is hereby granted, free of charge, to any person obtaining a copy
	of this software and associated documentation files (the "Software"), to deal
	in the Software without restriction, including without limitation the rights
	to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
	copies of the Software, and to permit persons to whom the Software is
	furnished to do so, subject to the following conditions:

	The above copyright notice and this permission notice shall be included in all
	copies or substantial portions of the Software.

	THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
	IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
	FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
	AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
	LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
	OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
	SOFTWARE.
	'''

	import numpy as np
	import h5py
	import lzma
	import io
	from scipy.io import loadmat,savemat
	import pathlib
	import os
	import sys
	import argparse

	def _load_csv(fn):
	return np.loadtxt(fn, delimiter=','), False

	def _load_hdf5(fn):
	return h5py.File(fn, 'r'), True

	def _load_xz(fn):
	p = pathlib.PosixPath(fn)
	#memfile = io.BytesIO(lzma.open(fn, 'r').read())
	memfile = io.BytesIO(lzma.open(fn, 'r').read())
	nest_suffix = p.with_suffix('').suffix
	if nest_suffix not in _SUFFIX_TO_LOADER:
	raise NotImplementedError("Parser for {} file is not implemented".format(p.suffix))
	return _SUFFIX_TO_LOADER[nest_suffix](memfile)

	def _load_np(fn):
	return np.load(fn, allow_pickle=True), False

	def _loadmat(fn):
	try:
	d = loadmat(fn, verify_compressed_data_integrity=False)
	return d, False
	except:
	return _load_hdf5(fn)

	def _load_npz(fn):
	return np.load(fn), False

	def _load_txt(fn):
	return np.loadtxt(fn), False

	_SUFFIX_TO_LOADER = {
	'.npz': _load_npz,
	'.txt': _load_txt,
	'.csv': _load_csv,
	'.mat': _loadmat,
	'.hdf5': _load_hdf5,
	'.xz': _load_xz
	}

	def h5py_dataset_iterator(g, prefix=''):
	for key in g.keys():
	item = g[key]
	path = '{}/{}'.format(prefix, key)
	if isinstance(item, h5py.Dataset): # test for dataset
	yield (path, item)
	elif isinstance(item, h5py.Group): # test for group (go down)
	yield from h5py_dataset_iterator(item, path)

	def _kv_yielder(p):
	sfx = p.suffix
	d, is_hdf5 = _SUFFIX_TO_LOADER[p.suffix](str(p))
	if not is_hdf5:
	for k,v in d.items(): # Python 3 syntax
	if k.startswith('__'):
	continue
	yield k, v
	else:
	for (k, v) in h5py_dataset_iterator(d):
	yield k, v

	def kv_yielder(p, args):
	for k, v in _kv_yielder(p):
	if args.showkey:
	if k in args.showkey:
	yield k, v
	else:
	yield k, v


	def head(args):
	fns = args.files
	for fn in fns:
	try:
	p = pathlib.PosixPath(fn)
	print("==> {} <==".format(fn))
	for k, v in kv_yielder(p, args):
	print("{}: type {} shape {}".format(k, v.dtype, v.shape))
	if args.row is not None:
	print("\tRow {}\n{}".format(args.row, v[args.row]))
	elif args.show:
	print("\t{}".format(v))
	except Exception as e:
	print("Error in reading {}.\nDetails {}".format(fn, e), file=sys.stderr)

	def main():
	parser = argparse.ArgumentParser(formatter_class=argparse.ArgumentDefaultsHelpFormatter)
	parser.add_argument('files', help='NPZ File', nargs='+')
	parser.add_argument('--show', help='Show values as well as of size', action='store_true')
	parser.add_argument('--showkey', help='Show values as well as of size', default=[], nargs='*')
	parser.add_argument('--row', help='Show specific row', type=int, default=None)
	args = parser.parse_args()
	head(args)

	if __name__ == '__main__':
	main()
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