mirror of
https://github.com/HDFGroup/hdf5.git
synced 2024-11-21 01:04:10 +08:00
4ee64d4c71
Glossary.html selection: added 2nd definition. Filters.html Added reference in section 4 to zlib website.
450 lines
16 KiB
HTML
450 lines
16 KiB
HTML
<html>
|
|
<head><title>
|
|
HDF5/Tools API Specification
|
|
</title></head>
|
|
|
|
<body bgcolor="#FFFFFF">
|
|
|
|
|
|
<hr>
|
|
<center>
|
|
<table border=0 width=98%>
|
|
<tr><td valign=top align=left>
|
|
<a href="H5.intro.html">Introduction to HDF5</a> <br>
|
|
<a href="H5.user.html">HDF5 User Guide</a> <br>
|
|
<a href="index.html">Other HDF5 documents and links</a> <br>
|
|
<!--
|
|
<a href="Glossary.html">Glossary</a><br>
|
|
-->
|
|
</td>
|
|
<td valign=top align=right>
|
|
And in this document, the
|
|
<a href="RM_H5Front.html">HDF5 Reference Manual</a>
|
|
<br>
|
|
<a href="RM_H5.html">H5</a>
|
|
<a href="RM_H5A.html">H5A</a>
|
|
<a href="RM_H5D.html">H5D</a>
|
|
<a href="RM_H5E.html">H5E</a>
|
|
<a href="RM_H5F.html">H5F</a>
|
|
<a href="RM_H5G.html">H5G</a>
|
|
<a href="RM_H5I.html">H5I</a>
|
|
<br>
|
|
<a href="RM_H5P.html">H5P</a>
|
|
<a href="RM_H5R.html">H5R</a>
|
|
<a href="RM_H5RA.html">H5RA</a>
|
|
<a href="RM_H5S.html">H5S</a>
|
|
<a href="RM_H5T.html">H5T</a>
|
|
<a href="RM_H5Z.html">H5Z</a>
|
|
Tools
|
|
</td></tr>
|
|
</table>
|
|
</center>
|
|
<hr>
|
|
|
|
|
|
<center>
|
|
<h1>HDF5 Tools</h1>
|
|
</center>
|
|
|
|
<h2>HDF5 Tool Interfaces</h2>
|
|
<p>
|
|
These tools enable the user to examine HDF5 files interactively.
|
|
|
|
|
|
<table border=0>
|
|
<tr><td valign=top>
|
|
<ul>
|
|
<li><a href="#Tools-Dump">h5dump</a> -- A tool for displaying
|
|
HDF5 file contents
|
|
<li><a href="#Tools-Ls">h5ls</a> -- A tool for listing specified
|
|
features of HDF5 file contents
|
|
<li><a href="#Tools-Repart">h5repart</a> -- A tool for repartitioning
|
|
a file, creating a family of files
|
|
<li><a href="#Tools-H5toh4">h5toh4</a> -- A tool for converting an
|
|
HDF5 file to an HDF4 file.
|
|
</ul>
|
|
</td></tr>
|
|
</table>
|
|
|
|
<p>
|
|
|
|
|
|
<hr>
|
|
<dl>
|
|
<dt><strong>Tool Name:</strong> <a name="Tools-Dump">h5dump</a>
|
|
<dt><strong>Syntax:</strong>
|
|
<dd><code>h5dump
|
|
[-h]
|
|
[-bb]
|
|
[-header]
|
|
[-V]
|
|
[-a </code><em>names</em><code>]
|
|
[-d </code><em>names</em><code>]
|
|
[-g </code><em>names</em><code>]
|
|
[-l </code><em>names</em><code>]
|
|
[-t </code><em>names</em><code>] </code>
|
|
<em>file</em>
|
|
<dt><strong>Purpose:</strong>
|
|
<dd>Displays HDF5 file contents.
|
|
<dt><strong>Description:</strong>
|
|
<dd><code>h5dump</code> enables the user to interactively examine
|
|
the contents of an HDF5 file and dump those contents,
|
|
in human readable form, to an ASCII file.
|
|
<p>
|
|
<code>h5dump</code> displays HDF5 file content on
|
|
standard output. It may display the content of the
|
|
whole HDF5 file or selected objects, which can be groups,
|
|
datasets, links, attributes, or data types.
|
|
<p>
|
|
The <code>-header</code> option displays object
|
|
header information only.
|
|
<p>
|
|
Names are the absolute names of the objects.
|
|
<code>h5dump</code> displays objects in the order same as the
|
|
command order. If a name does not start with a slash,
|
|
<code>h5dump</code> begins searching for the specified object
|
|
starting at the root group.
|
|
<p>
|
|
If an object is hard linked with multiple names,
|
|
<code>h5dump</code> displays the content of the object in the
|
|
first occurrence. Only the link information is displayed in
|
|
later occurrences.
|
|
<p>
|
|
<code>h5dump</code> assigns a name for any unnamed data type in
|
|
the form of <code>#</code><em>oid1</em><code>:</code><em>oid2</em>,
|
|
where <em>oid1</em> and <em>oid2</em> are the object identifiers
|
|
assigned by the library. The unnamed types are displayed within
|
|
the root group.
|
|
<p>
|
|
Data types are displayed with standard type names. For example,
|
|
if a data set is created with <code>H5T_NATIVE_INT</code> type
|
|
and the standard type name for integer on that machine is
|
|
<code>H5T_STD_I32BE</code>, <code>h5dump</code> displays
|
|
<code>H5T_STD_I32BE</code> as the type of the data set.
|
|
<p>
|
|
The <code>h5dump</code> output is described in detail in the
|
|
<a href="ddl.html"><cite>DDL for HDF5</cite></a>, the
|
|
<cite>Data Description Language</cite> document.
|
|
<dt><strong>Options and Parameters:</strong>
|
|
<dl>
|
|
<dt><code>-h</code>
|
|
<dd>Prints information on this command and exits.
|
|
<dt><code>-bb</code>
|
|
<dd>Displays the contents of the boot block. The default is
|
|
not to display.
|
|
<dt><code>-header</code>
|
|
<dd>Displays header information only; no data is displayed.
|
|
<dt><code>-V</code>
|
|
<dd>Displays version information and exits.
|
|
<dt><code>-a</code> <em>names</em>
|
|
<dd>Displays the specified attribute(s).
|
|
<dt><code>-d</code> <em>names</em>
|
|
<dd>Displays the specified dataset(s).
|
|
<dt><code>-g</code> <em>names</em>
|
|
<dd>Displays the specified group(s) and all the members.
|
|
<dt><code>-l</code> <em>names</em>
|
|
<dd>Displays the values of the specified soft link(s).
|
|
<dt><code>-t</code> <em>names</em>
|
|
<dd>Displays the specified named data type(s).
|
|
<dt><em>file</em>
|
|
<dd>The file to be examined.
|
|
</dl>
|
|
<dt><strong>Current Status:</strong>
|
|
<dd>The current version of <code>h5dump</code> displays the
|
|
following information:
|
|
<ul>
|
|
<li>Group
|
|
<ul>
|
|
<li>group attribute (see Attribute)
|
|
<li>group member
|
|
</ul>
|
|
<li>Dataset
|
|
<ul>
|
|
<li>dataset attribute (see Attribute)
|
|
<li>dataset type (see Data type)
|
|
<li>dataset space (see Data space)
|
|
<li>dataset data
|
|
</ul>
|
|
<li>Attribute
|
|
<ul>
|
|
<li>attribute type (see Data type)
|
|
<li>attribute space (see Data space)
|
|
<li>attribute data
|
|
</ul>
|
|
<li>Data type
|
|
<ul>
|
|
<li>integer type
|
|
<dt>- H5T_STD_I8BE, H5T_STD_I8LE, H5T_STD_I16BE, ...
|
|
<li>floating point type
|
|
<dt>- H5T_IEEE_F32BE, H5T_IEEE_F32LE, H5T_IEEE_F64BE, ...
|
|
<li>string type
|
|
<li>compound type
|
|
<dt>- named, unnamed and transient compound type
|
|
<dt>- integer, floating or string type member
|
|
<li>reference type
|
|
<dt>- object references
|
|
<dt>- data regions
|
|
<li>enum type
|
|
</ul>
|
|
<li>Data space
|
|
<ul>
|
|
<li>scalar and simple space
|
|
</ul>
|
|
<li>Soft link
|
|
<li>Hard link
|
|
<li>Loop detection
|
|
</ul>
|
|
|
|
<dt><strong>See Also:</strong>
|
|
<dd>HDF5 Data Description Language syntax
|
|
(<a href="ddl.html"><cite>DDL for HDF5</cite></a>)
|
|
</dl>
|
|
|
|
|
|
<hr>
|
|
<dl>
|
|
<dt><strong>Tool Name:</strong> <a name="Tools-Ls">h5ls</a>
|
|
<dt><strong>Syntax:</strong>
|
|
<dd><code>h5ls
|
|
[</code><em>options</em><code>]</code><em>
|
|
file</em><code>
|
|
[</code><em>objects...</em><code>]</code>
|
|
<dt><strong>Purpose:</strong>
|
|
<dd>Prints information about a file or dataset.
|
|
<dt><strong>Description:</strong>
|
|
<dd><code>h5ls</code> prints selected information about file objects
|
|
in the specified format.
|
|
<dt><strong>Options and Parameters:</strong>
|
|
<dl>
|
|
<dt><code>-h</code> or <code>-?</code> or <code>--help</code>
|
|
<dd>Print a usage message and exit.
|
|
<dt><code>-d</code> or <code>--dump</code>
|
|
<dd>Print the values of datasets.
|
|
<dt><code>-w</code><em>N</em> or <code>--width=</code><em>N</em>
|
|
<dd>Set the number of columns of output.
|
|
<dt><code>-v</code> or <code>--verbose</code>
|
|
<dd>Generate more verbose output.
|
|
<dt><code>-V</code> or <code>--version</code>
|
|
<dd>Print version number and exit.
|
|
<dt><em>file</em>
|
|
<dd>The file name may include a printf(3C) integer format
|
|
such as <code>%%05d</code> to open a file family.
|
|
<dt><em>objects</em>
|
|
<dd>The names of zero or more objects about which information
|
|
should be displayed. If a group is mentioned then
|
|
information about each of its members is displayed.
|
|
If no object names are specified then information about
|
|
all of the objects in the root group is displayed.
|
|
</dl>
|
|
<!--
|
|
<dt><strong>Current Status:</strong>
|
|
<dd>
|
|
<dt><strong>See Also:</strong>
|
|
<dd>
|
|
-->
|
|
</dl>
|
|
|
|
|
|
<hr>
|
|
<dl>
|
|
<dt><strong>Tool Name:</strong> <a name="Tools-Repart">h5repart</a>
|
|
<dt><strong>Syntax:</strong>
|
|
<dd><code>h5repart
|
|
[-v]
|
|
[-V]
|
|
[-[b|m]</code><em>N</em><code>[g|m|k]]</code>
|
|
<em>source_file
|
|
dest_file</em>
|
|
<dt><strong>Purpose:</strong>
|
|
<dd>Repartitions a file or family of files.
|
|
<dt><strong>Description:</strong>
|
|
<dd><code>h5repart</code> splits a single file into a family of
|
|
files, joins a family of files into a single file, or copies
|
|
one family of files to another while changing the size of the
|
|
family members. <code>h5repart</code> can also be used to
|
|
copy a single file to a single file with holes.
|
|
<p>
|
|
Sizes associated with the <code>-b</code> and <code>-m</code>
|
|
options may be suffixed with <code>g</code> for gigabytes,
|
|
<code>m</code> for megabytes, or <code>k</code> for kilobytes.
|
|
<p>
|
|
File family names include an integer <code>printf</code>
|
|
format such as <code>%d</code>.
|
|
|
|
<dt><strong>Options and Parameters:</strong>
|
|
<dl>
|
|
<dt><code>-v</code>
|
|
<dd>Produce verbose output.
|
|
<dt><code>-V</code>
|
|
<dd>Print a version number and exit.
|
|
<dt><code>-b</code><em>N</em>
|
|
<dd>The I/O block size, defaults to 1kB
|
|
<dt><code>-m</code><em>N</em>
|
|
<dd>The destination member size or 1GB
|
|
<dt><em>source_file</em>
|
|
<dd>The name of the source file
|
|
<dt><em>dest_file</em>
|
|
<dd>The name of the destination files
|
|
</dl>
|
|
<!--
|
|
<dt><strong>Current Status:</strong>
|
|
<dd>
|
|
<dt><strong>See Also:</strong>
|
|
<dd>
|
|
-->
|
|
</dl>
|
|
|
|
|
|
<hr>
|
|
<dl>
|
|
<dt><strong>Tool Name:</strong> <a name="Tools-H5toh4">h5toh4</a>
|
|
<dt><strong>Syntax:</strong>
|
|
<dd><code>h5toh4 -h</code><br>
|
|
<code>h5toh4 </code><em>
|
|
h5file
|
|
h4file</em><br>
|
|
<code>h5toh4 </code><em>
|
|
h5file</em><br>
|
|
<code>h5toh4 -m </code><em>
|
|
h5file1
|
|
h5file2
|
|
h5file3</em> ...
|
|
<dt><strong>Purpose:</strong>
|
|
<dd>Converts an HDF5 file into an HDF4 file.
|
|
<dt><strong>Description:</strong>
|
|
<dd><code>h5toh4</code> is an HDF5 utility which reads
|
|
an HDF5 file, <em>h5file</em>, and converts all
|
|
supported objects and pathways to produce an HDF4 file,
|
|
<em>h4file</em>. If <em>h4file</em> already exists,
|
|
it will be replaced.
|
|
<p>
|
|
If only one file name is given, the name must end in
|
|
<code>.h5</code> and is assumed to represent the
|
|
HDF5 input file. <code>h5toh4</code> replaces the
|
|
<code>.h5</code> suffix with <code>.hdf</code> to form
|
|
the name of the resulting HDF4 file and proceeds as above.
|
|
If a file with the name of the intended HDF4 file already
|
|
exists, <code>h5toh4</code> exits with an error without
|
|
changing the contents of any file.
|
|
<p>
|
|
The <code>-m</code> option allows multiple HDF5 file
|
|
arguments. Each file name is treated the same as the
|
|
single file name case above.
|
|
<p>
|
|
The <code>-h</code> option causes the following
|
|
syntax summary to be displayed:<br>
|
|
<pre> h5toh4 file.h5 file.hdf
|
|
h5toh4 file.h5
|
|
h5toh4 -m file1.h5 file2.h5 ...</pre>
|
|
|
|
<p>
|
|
|
|
The following HDF5 objects occurring in an HDF5 file are
|
|
converted to HDF4 objects in the HDF4 file:
|
|
|
|
<ul>
|
|
<li>HDF5 group objects are converted into HDF4 Vgroup
|
|
objects. HDF5 hardlinks and softlinks pointing to
|
|
objects are converted to HDF4 Vgroup references.
|
|
<li>HDF5 dataset objects of integer datatype are
|
|
converted into HDF4 SDS objects. These datasets
|
|
may have up to 32 fixed dimensions.
|
|
The slowest varying dimension may be extendable.
|
|
8-bit, 16-bit, and 32-bit integer datatypes are
|
|
supported.
|
|
<li>HDF5 dataset objects of floating point datatype
|
|
are converted into HDF4 SDS objects.
|
|
These datasets may have up to 32 fixed dimensions.
|
|
The slowest varying dimension may be extendable.
|
|
32-bit and 64-bit floating point datatypes are
|
|
supported.
|
|
<li>HDF5 dataset objects of single dimension and
|
|
compound datatype are converted into HDF4 Vdata
|
|
objects. The length of that single dimension may
|
|
be fixed or extendable. The members of the
|
|
compound datatype are constrained to be no more
|
|
than rank 4.
|
|
<li>HDF5 dataset objects of single dimension and fixed length string
|
|
datatype are converted into HDF4 Vdata objects. The HDF4 Vdata is a
|
|
single field whose order is the length of the HDF5 string type. The
|
|
number of records of the Vdata is the length of the single dimension
|
|
which may be fixed or extendable.
|
|
</ul>
|
|
|
|
Other objects are not converted and are not recorded
|
|
in the resulting <em>h4file</em>.
|
|
<p>
|
|
Attributes associated with any of the supported HDF5
|
|
objects are carried over to the HDF4 objects.
|
|
Attributes may be of integer, floating point, or fixed length string datatype
|
|
and they may have up to 32 fixed dimensions.
|
|
<p>
|
|
All datatypes are converted to big-endian.
|
|
Floating point datatypes are converted to IEEE format.
|
|
|
|
|
|
<dt><strong>Options and Parameters:</strong>
|
|
<dl>
|
|
<dt><code>-h</code>
|
|
<dd>Displays a syntax summary.
|
|
<dt><code>-m</code>
|
|
<dd>Converts multiple HDF5 files to multiple HDF4 files.
|
|
<dt><em>h5file</em>
|
|
<dd>The HDF5 file to be converted.
|
|
<dt><em>h4file</em>
|
|
<dd>The HDF4 file to be created.
|
|
</dl>
|
|
<!--
|
|
<dt><strong>Current Status:</strong>
|
|
<dd>
|
|
<dt><strong>See Also:</strong>
|
|
<dd>
|
|
-->
|
|
</dl>
|
|
|
|
|
|
<hr>
|
|
<center>
|
|
<table border=0 width=98%>
|
|
<tr><td valign=top align=left>
|
|
<a href="H5.intro.html">Introduction to HDF5</a> <br>
|
|
<a href="H5.user.html">HDF5 User Guide</a> <br>
|
|
<a href="index.html">Other HDF5 documents and links</a> <br>
|
|
<!--
|
|
<a href="Glossary.html">Glossary</a><br>
|
|
-->
|
|
</td>
|
|
<td valign=top align=right>
|
|
And in this document, the
|
|
<a href="RM_H5Front.html">HDF5 Reference Manual</a>
|
|
<br>
|
|
<a href="RM_H5.html">H5</a>
|
|
<a href="RM_H5A.html">H5A</a>
|
|
<a href="RM_H5D.html">H5D</a>
|
|
<a href="RM_H5E.html">H5E</a>
|
|
<a href="RM_H5F.html">H5F</a>
|
|
<a href="RM_H5G.html">H5G</a>
|
|
<a href="RM_H5I.html">H5I</a>
|
|
<br>
|
|
<a href="RM_H5P.html">H5P</a>
|
|
<a href="RM_H5R.html">H5R</a>
|
|
<a href="RM_H5RA.html">H5RA</a>
|
|
<a href="RM_H5S.html">H5S</a>
|
|
<a href="RM_H5T.html">H5T</a>
|
|
<a href="RM_H5Z.html">H5Z</a>
|
|
Tools
|
|
</td></tr>
|
|
</table>
|
|
</center>
|
|
<hr>
|
|
|
|
|
|
<address>
|
|
<a href="mailto:hdfhelp@ncsa.uiuc.edu">HDF Help Desk</a>
|
|
|
|
<br>
|
|
Last modified: 29 April 1999
|
|
|
|
</body>
|
|
</html>
|