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[svn-r985] Checking in changes from "HDF5 Release 1.0" CVS branch that have not yet been checked into "HDF5 Development" branch. General ======= Various "copy edit" types of repairs. Revisions to document cross-linking. Added structural links tying all docs together (banners at top and bottom of documents, similar to Reference Manual banners of the Beta release). Set background color to white in all documents. NCSAfooterlogo.gif hdf2.jpg New image files to make the documents more self-contained (i.e., to prevent loading images from NCSA and HDF home servers). index.html Redesigned to isolate links external to the installation in a single location. Intro to HDF5 ============= H5.intro.html Fixed banner linking Intro to other docs. Set all URLs to be relative within the distribution; nothing points back to the HDF server. Updates to "Limits of the Current Release" and "Changes in the Current Release." HDF5 User's Guide ================= Changed several User Guide section titles such that all sections that are primarily about a particular interface are now titled in the format "The xxxxx Interface (H5x)". H5.user.html Commented out links to developer docs since they are marked in MANIFEST as not being for distribution in the release. Removed 2nd and 3rd indices from page. Changed "freeform" lists of sections (TOCs) to aligned tables. Datatypes.html Removed the sentence "I'm deferring definition until later since they're probably not as important as the other data types." from Section 3.3, "Properties of Date and Time Atomic Types." Added info regarding 'char' versus 'string' datatypes. Added as Section 3.7, "Character and String Datatype Issues." References.html Commented out substantial material (at end of document) from References planning document that is not appropriate for the User Guide but that is worth keeping around. Groups.html Final edits from elimination of "current working group." HDF5 Reference Manual ===================== Removed "Draft" from the <title>__</title> lines. RM_H5Front.html Removed 2nd and 3rd indices from page. Changed "freeform" lists of sections (TOCs) to aligned tables. RM_H5F.html RM_H5P.html Add file mounting information.
1998-12-22 06:52:56 +08:00
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<!-- #EndLibraryItem --><h1>DDL in BNF for HDF5</h1>
<h2>1. Introduction</h2>
This document contains the data description language (DDL) for an HDF5 file.
The description is in Backus-Naur Form.
<h2>2. Explanation of Symbols</h2>
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This section contains a brief explanation of the symbols used in the DDL.
<PRE>
::= defined as
&lt;tname&gt; a token with the name tname
&lt;a&gt; | &lt;b&gt; one of &lt;a&gt; or &lt;b&gt;
&lt;a&gt;<FONT SIZE=1.7>opt</FONT> zero or one occurrence of &lt;a&gt;
&lt;a&gt;* zero or more occurrence of &lt;a&gt;
&lt;a&gt;+ one or more occurrence of &lt;a&gt;
[0-9] an element in the range between 0 and 9
`[' the token within the quotes (used for special characters)
TBD To Be Decided
</pre>
<h2>3. The DDL</h2>
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<dir>
<pre>
&lt;file&gt; ::= HDF5 &lt;file_name&gt; { &lt;file_super_block&gt;<FONT SIZE=1.7>opt</FONT> &lt;root_group&gt; }
&lt;file_name&gt; ::= &lt;identifier&gt;
&lt;file_super_block&gt; ::= BOOT_BLOCK { &lt;super_block_content&gt; }
&lt;super_block_content&gt; ::= TBD
&lt;root_group&gt; ::= GROUP "/" {
&lt;unamed_datatype&gt;*
&lt;object_id&gt;<FONT SIZE=1.7>opt</FONT>
&lt;group_comment&gt;<FONT SIZE=1.7>opt</FONT>
&lt;group_attribute&gt;*
&lt;group_member&gt;*
}
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&lt;datatype&gt; ::= &lt;atomic_type&gt; | &lt;compound_type&gt; | &lt;variable_length_type&gt; | &lt;array_type&gt;
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&lt;unamed_datatype&gt; ::= DATATYPE &lt;unamed_type_name&gt; { &lt;datatype&gt; }
&lt;unamed_type_name&gt; ::= the assigned name for unamed type is in the form of
#oid, where oid is the object id of the type
&lt;atomic_type&gt; ::= &lt;integer&gt; | &lt;float&gt; | &lt;time&gt; | &lt;string&gt; |
&lt;bitfield&gt; | &lt;opaque&gt; | &lt;reference&gt; | &lt;enum&gt;
&lt;integer&gt; ::= H5T_STD_I8BE | H5T_STD_I8LE |
H5T_STD_I16BE | H5T_STD_I16LE |
H5T_STD_I32BE | H5T_STD_I32LE |
H5T_STD_I64BE | H5T_STD_I64LE |
H5T_STD_U8BE | H5T_STD_U8LE |
H5T_STD_U16BE | H5T_STD_U16LE |
H5T_STD_U32BE | H5T_STD_U32LE |
H5T_STD_U64BE | H5T_STD_U64LE |
H5T_NATIVE_CHAR | H5T_NATIVE_UCHAR |
H5T_NATIVE_SHORT | H5T_NATIVE_USHORT |
H5T_NATIVE_INT | H5T_NATIVE_UINT |
H5T_NATIVE_LONG | H5T_NATIVE_ULONG |
H5T_NATIVE_LLONG | H5T_NATIVE_ULLONG
&lt;float&gt; ::= H5T_IEEE_F32BE | H5T_IEEE_F32LE |
H5T_IEEE_F64BE | H5T_IEEE_F64LE |
H5T_NATIVE_FLOAT | H5T_NATIVE_DOUBLE |
H5T_NATIVE_LDOUBLE
&lt;time&gt; ::= TBD
&lt;string&gt; ::= H5T_STRING { STRSIZE &lt;strsize&gt; ;
STRPAD &lt;strpad&gt; ;
CSET &lt;cset&gt; ;
CTYPE &lt;ctype&gt; ; }
&lt;strsize&gt; ::= &lt;int_value&gt;
&lt;strpad&gt; ::= H5T_STR_NULLTERM | H5T_STR_NULLPAD | H5T_STR_SPACEPAD
&lt;cset&gt; ::= H5T_CSET_ASCII
&lt;ctype&gt; ::= H5T_C_S1 | H5T_FORTRAN_S1
&lt;bitfield&gt; ::= TBD
&lt;opaque&gt; ::= H5T_OPAQUE { &lt;identifier&gt; }
&lt;reference&gt; ::= H5T_REFERENCE { &lt;ref_type&gt; }
&lt;ref_type&gt; ::= H5T_STD_REF_OBJECT | H5T_STD_REF_DSETREG
&lt;compound_type&gt; ::= H5T_COMPOUND { &lt;member_type_def&gt;+ }
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&lt;member_type_def&gt; ::= &lt;datatype&gt; &lt;field_name&gt; ;
&lt;field_name&gt; ::= &lt;identifier&gt;
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&lt;variable_length_type&gt; ::= H5T_VLEN { &lt;datatype&gt; }
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&lt;array_type&gt; ::= H5T_ARRAY { &lt;dim_sizes&gt; &lt;datatype&gt; }
&lt;dim_sizes&gt; ::= `['&lt;dimsize&gt;`]' | `['&lt;dimsize&gt;`]'&lt;dim_sizes&gt;
&lt;dimsize&gt; ::= &lt;int_value&gt;
&lt;attribute&gt; ::= ATTRIBUTE &lt;attr_name&gt; { &lt;dataset_type&gt;
&lt;dataset_space&gt;
&lt;data&gt;<FONT SIZE=1.7>opt</FONT> }
&lt;attr_name&gt; ::= &lt;identifier&gt;
&lt;dataset_type&gt; ::= DATATYPE &lt;path_name&gt; | &lt;datatype&gt;
&lt;enum&gt; ::= H5T_ENUM { &lt;enum_base_type&gt; &lt;enum_def&gt;+ }
&lt;enum_base_type&gt; ::= &lt;integer&gt;
// Currently enums can only hold integer type data, but they may be expanded
// in the future to hold any datatype
&lt;enum_def&gt; ::= &lt;enum_symbol&gt; &lt;enum_val&gt;;
&lt;enum_symbol&gt; ::= &lt;identifier&gt;
&lt;enum_val&gt; ::= &lt;int_value&gt;
&lt;path_name&gt; ::= &lt;path_part&gt;+
&lt;path_part&gt; ::= /&lt;identifier&gt;
&lt;dataspace&gt; ::= &lt;scalar_space&gt; | &lt;simple_space&gt; | &lt;complex_space&gt;
&lt;scalar_space&gt; ::= SCALAR
&lt;simple_space&gt; ::= SIMPLE { &lt;current_dims&gt; / &lt;max_dims&gt; }
&lt;complex_space&gt; ::= COMPLEX { &lt;complex_space_definition&gt; }
&lt;dataset_space&gt; ::= DATASPACE &lt;path_name&gt; | &lt;dataspace&gt;
&lt;current_dims&gt; ::= &lt;dims&gt;
&lt;max_dims&gt; ::= `(' &lt;max_dim_list&gt; `)'
&lt;max_dim_list&gt; ::= &lt;max_dim&gt; | &lt;max_dim&gt;, &lt;max_dim_list&gt;
&lt;max_dim&gt; ::= &lt;int_value&gt; | H5S_UNLIMITED
&lt;complex_space_definition&gt; ::= TBD
&lt;data&gt; ::= DATA { &lt;scalar_space_data&gt; | &lt;simple_space_data&gt; | &lt;complex_space_data&gt; } | &lt;subset&gt;
&lt;scalar_space_data&gt; ::= &lt;any_element&gt;
&lt;any_element&gt; ::= &lt;atomic_element&gt; | &lt;compound_element&gt; |
&lt;variable_length_element&gt; | &lt;array_element&gt;
&lt;any_data_seq&gt; ::= &lt;any_element&gt; | &lt;any_element&gt;, &lt;any_data_seq&gt;
&lt;atomic_element&gt; :: = &lt;integer_data&gt; | &lt;float_data&gt; | &lt;time_data&gt; |
&lt;string_data&gt; | &lt;bitfield_data&gt; | &lt;opaque_data&gt; |
&lt;enum_data&gt; | &lt;reference_data&gt;
&lt;subset&gt; ::= SUBSET { &lt;start&gt;;
&lt;stride&gt;;
&lt;count&gt;;
&lt;block&gt;;
DATA { &lt;simple_space_data&gt; }
}
&lt;start&gt; ::= START (&lt;coor_list&gt;)
&lt;stride&gt; ::= STRIDE (&lt;pos_list&gt;)
&lt;count&gt; ::= COUNT (&lt;coor_list&gt;)
&lt;block&gt; ::= BLOCK (&lt;coor_list&gt;)
&lt;coor_list&gt; ::= &lt;int_value&gt;, &lt;coor_list&gt; | &lt;int_value&gt;
&lt;integer_data&gt; ::= &lt;int_value&gt;
&lt;float_data&gt; ::= a floating point number
&lt;time_data&gt; ::= TBD
&lt;string_data&gt; ::= a string
// A string is enclosed in double quotes.
// If a string is displayed on more than one line, string concatenate
// operator '//'is used.
&lt;bitfield_data&gt; ::= TBD
&lt;opaque_data&gt; ::= TBD
&lt;enum_data&gt; ::= &lt;enum_symbol&gt;
&lt;reference_data&gt; ::= &lt;object_ref_data&gt; | &lt;data_region_data&gt; | NULL
&lt;object_ref_data&gt; ::= &lt;object_type&gt; &lt;object_num&gt;
&lt;object_type&gt; ::= DATASET | GROUP | DATATYPE
&lt;object_id&gt; ::= OBJECTID { &lt;object_num&gt; }
&lt;object_num&gt; ::= &lt;int_value&gt;:&lt;int_value&gt; | &lt;int_value&gt;
&lt;data_region_data&gt; ::= H5T_STD_REF_DSETREG &lt;object_num&gt; { &lt;data_region_data_list&gt; }
&lt;data_region_data_list&gt; ::= &lt;data_region_data_info&gt;, &lt;data_region_data_list&gt; | &lt;data_region_data_info&gt;
&lt;data_region_data_info&gt; ::= &lt;region_info&gt; | &lt;point_info&gt;
&lt;region_info&gt; ::= (&lt;region_vals&gt;)
&lt;region_vals&gt; ::= &lt;lower_bound&gt;:&lt;upper_bound&gt;, &lt;region_vals&gt; | &lt;lower_bound&gt;:&lt;upper_bound&gt;
&lt;lower_bound&gt; ::= &lt;int_value&gt;
&lt;upper_bound&gt; ::= &lt;int_value&gt;
&lt;point_info&gt; ::= (&lt;point_vals&gt;)
&lt;point_vals&gt; ::= &lt;int_value&gt; | &lt;int_value&gt;, &lt;point_vals&gt;
&lt;compound_element&gt; ::= { &lt;any_data_seq&gt; }
&lt;atomic_simple_data&gt; :: = &lt;atomic_element&gt;, &lt;atomic_simple_data&gt; | &lt;atomic_element&gt;
&lt;simple_space_data&gt; :: = &lt;any_data_seq&gt;
&lt;variable_length_element&gt; ::= ( &lt;any_data_seq&gt; )
&lt;array_element&gt; ::= `[' &lt;any_data_seq&gt; `]'
&lt;complex_space_data&gt; ::= TBD
&lt;named_datatype&gt; ::= DATATYPE &lt;type_name&gt; { &lt;datatype&gt; }
&lt;type_name&gt; ::= &lt;identifier&gt;
&lt;named_dataspace&gt; ::= TBD
&lt;hardlink&gt; ::= HARDLINK &lt;path_name&gt;
&lt;group&gt; ::= GROUP &lt;group_name&gt; { &lt;hardlink&gt; | &lt;group_info&gt; }
&lt;group_comment&gt; ::= COMMENT &lt;string_data&gt;
&lt;group_name&gt; ::= &lt;identifier&gt;
&lt;group_info&gt; ::= &lt;object_id&gt;<FONT SIZE=1.7>opt</FONT> &lt;group_comment&gt;<FONT SIZE=1.7>opt</FONT> &lt;group_attribute&gt;* &lt;group_member&gt;*
&lt;group_attribute&gt; ::= &lt;attribute&gt;
&lt;group_member&gt; ::= &lt;named_datatype&gt; | &lt;named_dataspace&gt; | &lt;group&gt; |
&lt;dataset&gt; | &lt;softlink&gt;
&lt;dataset&gt; ::= DATASET &lt;dataset_name&gt; { &lt;hardlink&gt; | &lt;dataset_info&gt; }
&lt;dataset_info&gt; ::= &lt;dataset_type&gt; &lt;dataset_space&gt; &lt;storagelayout&gt;<FONT SIZE=1.7>opt</FONT>
&lt;compression&gt;<FONT SIZE=1.7>opt</FONT> &lt;dataset_attribute&gt;* &lt;object_id&gt;<FONT SIZE=1.7>opt</FONT>
&lt;data&gt;<FONT SIZE=1.7>opt</FONT>
// Tokens above can be in any order as long as &lt;data&gt; is
// after &lt;dataset_type&gt; and &lt;dataset_space&gt;.
&lt;dataset_name&gt; ::= &lt;identifier&gt;
&lt;storagelayout&gt; :: = STORAGELAYOUT &lt;contiguous_layout&gt; |
STORAGELAYOUT &lt;chunked_layout&gt; |
STORAGELAYOUT &lt;compact_layout&gt; |
STORAGELAYOUT &lt;external_layout&gt;
&lt;contiguous_layout&gt; ::= {CONTIGUOUS} // default
&lt;chunked_layout&gt; ::= {CHUNKED &lt;dims&gt; }
&lt;dims&gt; ::= (&lt;dims_values&gt;)
&lt;dims_values&gt; ::= &lt;int_value&gt; | &lt;int_value&gt;, &lt;dims_values&gt;
&lt;compact_layout&gt; ::= TBD
&lt;external_layout&gt; ::= {EXTERNAL &lt;external_file&gt;+ }
&lt;external_file&gt; ::= (&lt;file_name&gt; &lt;offset&gt; &lt;size&gt;)
&lt;offset&gt; ::= &lt;int_value&gt;
&lt;size&gt; ::= &lt;int_value&gt;
&lt;compression&gt; :: = COMPRESSION { TBD }
&lt;dataset_attribute&gt; ::= &lt;attribute&gt;
&lt;softlink&gt; ::= SOFTLINK &lt;softlink_name&gt; { LINKTARGET &lt;target&gt; }
&lt;softlink_name&gt; ::= &lt;identifier&gt;
&lt;target&gt; ::= &lt;identifier&gt;
&lt;identifier&gt; ::= a string
// character '/' should be used with care.
&lt;pos_list&gt; ::= &lt;pos_int&gt;, &lt;pos_list&gt; | &lt;pos_int&gt;
&lt;int_value&gt; ::= 0 | &lt;pos_int&gt;
&lt;pos_int&gt; ::= [1-9][0-9]*
</PRE>
</DIR>
<H2>4. An Example of an HDF5 File in DDL</H2>
<DIR>
<PRE>
HDF5 "example.h5" {
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GROUP "/" {
ATTRIBUTE "attr1" {
DATATYPE H5T_STRING {
STRSIZE 17;
STRPAD H5T_STR_NULLTERM;
CSET H5T_CSET_ASCII;
CTYPE H5T_C_S1;
}
DATASPACE SCALAR
DATA {
"string attribute"
}
}
DATASET "dset1" {
DATATYPE H5T_STD_I32BE
DATASPACE SIMPLE { ( 10, 10 ) / ( 10, 10 ) }
DATA {
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
0, 1, 2, 3, 4, 5, 6, 7, 8, 9
}
}
DATASET "dset2" {
DATATYPE H5T_COMPOUND {
H5T_STD_I32BE "a";
H5T_IEEE_F32BE "b";
H5T_IEEE_F64BE "c";
}
DATASPACE SIMPLE { ( 5 ) / ( 5 ) }
DATA {
{
1,
0.1,
0.01
},
{
2,
0.2,
0.02
},
{
3,
0.3,
0.03
},
{
4,
0.4,
0.04
},
{
5,
0.5,
0.05
}
}
}
GROUP "group1" {
COMMENT "This is a comment for group1";
DATASET "dset3" {
DATATYPE "/type1"
DATASPACE SIMPLE { ( 5 ) / ( 5 ) }
DATA {
{
[ 0, 1, 2, 3 ],
[ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1,
0.2, 0.2, 0.2, 0.2, 0.2, 0.2,
0.3, 0.3, 0.3, 0.3, 0.3, 0.3,
0.4, 0.4, 0.4, 0.4, 0.4, 0.4,
0.5, 0.5, 0.5, 0.5, 0.5, 0.5 ]
},
{
[ 0, 1, 2, 3 ],
[ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1,
0.2, 0.2, 0.2, 0.2, 0.2, 0.2,
0.3, 0.3, 0.3, 0.3, 0.3, 0.3,
0.4, 0.4, 0.4, 0.4, 0.4, 0.4,
0.5, 0.5, 0.5, 0.5, 0.5, 0.5 ]
},
{
[ 0, 1, 2, 3 ],
[ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1,
0.2, 0.2, 0.2, 0.2, 0.2, 0.2,
0.3, 0.3, 0.3, 0.3, 0.3, 0.3,
0.4, 0.4, 0.4, 0.4, 0.4, 0.4,
0.5, 0.5, 0.5, 0.5, 0.5, 0.5 ]
},
{
[ 0, 1, 2, 3 ],
[ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1,
0.2, 0.2, 0.2, 0.2, 0.2, 0.2,
0.3, 0.3, 0.3, 0.3, 0.3, 0.3,
0.4, 0.4, 0.4, 0.4, 0.4, 0.4,
0.5, 0.5, 0.5, 0.5, 0.5, 0.5 ]
},
{
[ 0, 1, 2, 3 ],
[ 0.1, 0.1, 0.1, 0.1, 0.1, 0.1,
0.2, 0.2, 0.2, 0.2, 0.2, 0.2,
0.3, 0.3, 0.3, 0.3, 0.3, 0.3,
0.4, 0.4, 0.4, 0.4, 0.4, 0.4,
0.5, 0.5, 0.5, 0.5, 0.5, 0.5 ]
}
}
}
}
DATASET "dset3" {
DATATYPE H5T_VLEN { H5T_STD_I32LE }
DATASPACE SIMPLE { ( 4 ) / ( 4 ) }
DATA {
(0), (10, 11), (20, 21, 22), (30, 31, 32, 33)
}
}
GROUP "group2" {
HARDLINK "/group1"
}
SOFTLINK "slink1" {
LINKTARGET "somevalue"
}
DATATYPE "type1" H5T_COMPOUND {
H5T_ARRAY { [4] H5T_STD_I32BE } "a";
H5T_ARRAY { [5][6] H5T_IEEE_F32BE } "b";
}
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}
}
</pre>
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</dir>
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<a href="index.html">HDF5 documents and links</a>&nbsp;<br>
<a href="H5.intro.html">Introduction to HDF5</a>&nbsp;<br>
<a href="RM_H5Front.html">HDF5 Reference Manual</a>&nbsp;<br>
<a href="http://hdf.ncsa.uiuc.edu/HDF5/doc/UG/index.html">HDF5 User's Guide for Release 1.6</a>&nbsp;<br>
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And in this document, the
<a href="H5.user.html"><strong>HDF5 User's Guide from Release 1.4.5:</strong></a>&nbsp;&nbsp;&nbsp;&nbsp;
<br>
<a href="Files.html">Files</a>&nbsp;&nbsp;
<a href="Datasets.html">Datasets</a>&nbsp;&nbsp;
<a href="Datatypes.html">Datatypes</a>&nbsp;&nbsp;
<a href="Dataspaces.html">Dataspaces</a>&nbsp;&nbsp;
<a href="Groups.html">Groups</a>&nbsp;&nbsp;
<br>
<a href="References.html">References</a>&nbsp;&nbsp;
<a href="Attributes.html">Attributes</a>&nbsp;&nbsp;
<a href="Properties.html">Property Lists</a>&nbsp;&nbsp;
<a href="Errors.html">Error Handling</a>&nbsp;&nbsp;
<br>
<a href="Filters.html">Filters</a>&nbsp;&nbsp;
<a href="Caching.html">Caching</a>&nbsp;&nbsp;
<a href="Chunking.html">Chunking</a>&nbsp;&nbsp;
<a href="MountingFiles.html">Mounting Files</a>&nbsp;&nbsp;
<br>
<a href="Performance.html">Performance</a>&nbsp;&nbsp;
<a href="Debugging.html">Debugging</a>&nbsp;&nbsp;
<a href="Environment.html">Environment</a>&nbsp;&nbsp;
<a href="ddl.html">DDL</a>&nbsp;&nbsp;
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1998-10-30 09:09:28 +08:00
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<!-- #EndLibraryItem --><!-- #BeginLibraryItem "/ed_libs/Footer.lbi" --><address>
<a href="mailto:hdfhelp@ncsa.uiuc.edu">HDF Help Desk</a>
<br>
Describes HDF5 Release 1.7, the unreleased development branch; working toward HDF5 Release 1.8.0
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Last modified: 17 November 2000
1998-10-30 09:09:28 +08:00
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