1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
|
usage: h5dump [OPTIONS] files
OPTIONS
-h, --help Print a usage message and exit
-n, --contents Print a list of the file contents and exit
-B, --superblock Print the content of the super block
-H, --header Print the header only; no data is displayed
-A, --onlyattr Print the header and value of attributes
-i, --object-ids Print the object ids
-r, --string Print 1-byte integer datasets as ASCII
-e, --escape Escape non printing characters
-V, --version Print version number and exit
-a P, --attribute=P Print the specified attribute
-d P, --dataset=P Print the specified dataset
-y, --noindex Do not print array indices with the data
-p, --properties Print dataset filters, storage layout and fill value
-f D, --filedriver=D Specify which driver to open the file with
-g P, --group=P Print the specified group and all members
-l P, --soft-link=P Print the value(s) of the specified soft link
-o F, --output=F Output raw data into file F
-b B, --binary=B Binary file output, of form B
-t P, --datatype=P Print the specified named datatype
-w N, --width=N Set the number of columns of output. A value of 0 (zero)
sets the number of columns to the maximum (65535).
Default width is 80 columns.
-m T, --format=T Set the floating point output format
-q Q, --sort_by=Q Sort groups and attributes by index Q
-z Z, --sort_order=Z Sort groups and attributes by order Z
-M L, --packedbits=L Print packed bits as unsigned integers, using mask
format L for an integer dataset specified with
option -d. L is a list of offset,length values,
separated by commas. Offset is the beginning bit in
the data value and length is the number of bits of
the mask.
-R, --region Print dataset pointed by region references
-x, --xml Output in XML using Schema
-u, --use-dtd Output in XML using DTD
-D U, --xml-dtd=U Use the DTD or schema at U
-X S, --xml-ns=S (XML Schema) Use qualified names n the XML
":": no namespace, default: "hdf5:"
E.g., to dump a file called `-f', use h5dump -- -f
--enable-error-stack Prints messages from the HDF5 error stack as they
occur.
--no-compact-subset Disable compact form of subsetting and allow the use
of "[" in datset names.
Subsetting is available by using the following options with a dataset
attribute. Subsetting is done by selecting a hyperslab from the data.
Thus, the options mirror those for performing a hyperslab selection.
One of the START, COUNT, STRIDE, or BLOCK parameters are mandatory if you do subsetting.
The STRIDE, COUNT, and BLOCK parameters are optional and will default to 1 in
each dimension. START is optional and will default to 0 in each dimension.
-s START, --start=START Offset of start of subsetting selection
-S STRIDE, --stride=STRIDE Hyperslab stride
-c COUNT, --count=COUNT Number of blocks to include in selection
-k BLOCK, --block=BLOCK Size of block in hyperslab
START, COUNT, STRIDE, and BLOCK - is a list of integers the number of which are equal to the
number of dimensions in the dataspace being queried
D - is the file driver to use in opening the file. Acceptable values
are "sec2", "family", "split", "multi", "direct", and "stream". Without
the file driver flag, the file will be opened with each driver in
turn and in the order specified above until one driver succeeds
in opening the file.
F - is a filename.
P - is the full path from the root group to the object.
N - is an integer greater than 1.
T - is a string containing the floating point format, e.g '%.3f'
U - is a URI reference (as defined in [IETF RFC 2396],
updated by [IETF RFC 2732])
B - is the form of binary output: NATIVE for a memory type, FILE for the
file type, LE or BE for pre-existing little or big endian types.
Must be used with -o (output file) and it is recommended that
-d (dataset) is used. B is an optional argument, defaults to NATIVE
Q - is the sort index type. It can be "creation_order" or "name" (default)
Z - is the sort order type. It can be "descending" or "ascending" (default)
Examples:
1) Attribute foo of the group /bar_none in file quux.h5
h5dump -a /bar_none/foo quux.h5
2) Selecting a subset from dataset /foo in file quux.h5
h5dump -d /foo -s "0,1" -S "1,1" -c "2,3" -k "2,2" quux.h5
3) Saving dataset 'dset' in file quux.h5 to binary file 'out.bin'
using a little-endian type
h5dump -d /dset -b LE -o out.bin quux.h5
4) Display two packed bits (bits 0-1 and bits 4-6) in the dataset /dset
h5dump -d /dset -M 0,1,4,3 quux.h5
5) Dataset foo in files multi1.h5 multi2.h5 multi3.h5
h5dump -d /foo multi1.h5 multi2.h5 multi3.h5
h5dump error: Bad mask list(-1,1)
|
