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diff --git a/doc/html/Tutor/crtdat.html b/doc/html/Tutor/crtdat.html deleted file mode 100644 index aafb8ea..0000000 --- a/doc/html/Tutor/crtdat.html +++ /dev/null @@ -1,497 +0,0 @@ -<HTML><HEAD> -<TITLE>HDF5 Tutorial - Creating a Dataset -</TITLE> -</HEAD> - -<body bgcolor="#ffffff"> - -<!-- BEGIN MAIN BODY --> - - - [ <A HREF="title.html"><I>HDF5 Tutorial Top</I></A> ] -<H1> -<BIG><BIG><BIG><FONT COLOR="#c101cd">Creating a Dataset</FONT> -</BIG></BIG></BIG></H1> - -<hr noshade size=1> - -<BODY> -<H2>Contents:</H2> -<UL> - <LI> <A HREF="#def">What is a Dataset</A>? - <LI> Programming Example - <UL> - <LI> <A HREF="#desc">Description</A> - <LI> <A HREF="#rem">Remarks</A> - <LI> <A HREF="#fc">File Contents</A> - <LI> <A HREF="#ddl">Dataset Definition in DDL</A> - </UL> -</UL> -<HR> -<A NAME="def"> -<H2>What is a Dataset?</h2> -<P> -A dataset is a multidimensional array of data elements, together with -supporting metadata. To create a dataset, the application program must specify -the location at which to create the dataset, the dataset name, the datatype -and dataspace of the data array, and the dataset creation property list. -<P> - <H3> Datatypes</H3> - A datatype is a collection of datatype properties, all of which can - be stored on disk, and which when taken as a whole, provide complete - information for data conversion to or from that datatype. -<P> - There are two categories of datatypes in HDF5: atomic and compound - datatypes. An <i>atomic datatype</i> is a datatype which cannot be - decomposed into smaller datatype units at the API level. - These include the integer, float, date and time, string, bitfield, and - opaque datatypes. - A <i>compound datatype</i> is a collection of one or more - atomic datatypes and/or small arrays of such datatypes. -<P> - Figure 5.1 shows the HDF5 datatypes. Some of the HDF5 predefined - atomic datatypes are listed in Figures 5.2a and 5.2b. - In this tutorial, we consider only HDF5 predefined integers. - For further information on datatypes, see - <a href="../Datatypes.html">The Datatype Interface (H5T)</a> in the - <cite>HDF5 User's Guide</cite>. -<P> - <B>Fig 5.1</B> <I>HDF5 datatypes</I> -<PRE> - - +-- integer - +-- floating point - +---- atomic ----+-- date and time - | +-- character string - HDF5 datatypes --| +-- bitfield - | +-- opaque - | - +---- compound - -</PRE> - -<table width="100%" border="0" cellpadding="4"> -<tr><td valign=top> - - <B>Fig. 5.2a</B> <I>Examples of HDF5 predefined datatypes</I> - -<table width="95%" border="1" cellpadding="0"> - <tr bgcolor="#ffcc99" bordercolor="#FFFFFF"> - <td width="20%"><b>Datatype</b></td> - <td width="80%"><b>Description</b></td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_STD_I32LE</code></td> - <td width="80%">Four-byte, little-endian, signed, two's complement integer</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_STD_U16BE</code></td> - <td width="80%">Two-byte, big-endian, unsigned integer</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_IEEE_F32BE</code></td> - <td width="80%">Four-byte, big-endian, IEEE floating point</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_IEEE_F64LE</code></td> - <td width="80%">Eight-byte, little-endian, IEEE floating point</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_C_S1</code></td> - <td width="80%">One-byte, null-terminated string of eight-bit characters</td> - </tr> -</table> - -</td><td valign=top> - - <B>Fig. 5.2b</B> <I>Examples of HDF5 predefined native datatypes</I> -<table width="95%" border="1" cellpadding="4"> - <tr bgcolor="#ffcc99" bordercolor="#FFFFFF"> - <td width="20%"><b>Native Datatype</b></td> - <td width="80%"><b>Corresponding C or FORTRAN Type</b></td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><B>C:</B></td> - <td width="80%"> </td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_INT</code></td> - <td width="80%">int</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_FLOAT</code></td> - <td width="80%">float</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_CHAR</code></td> - <td width="80%">char</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_DOUBLE</code></td> - <td width="80%">double</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_LDOUBLE</code></td> - <td width="80%">long double</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><B>FORTRAN:</B></td> - <td width="80%"> </td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_INT</code></td> - <td width="80%">integer</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_REAL</code></td> - <td width="80%">real</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_DOUBLE</code></td> - <td width="80%">double precision</td> - </tr> - <tr bordercolor="#FFFFFF"> - <td bgcolor="#99cccc" width="20%"><code>H5T_NATIVE_CHAR</code></td> - <td width="80%">character</td> - </tr> -</table> - -</table> - - <H3> Datasets and Dataspaces</H3> - - A dataspace describes the dimensionality of the data array. A dataspace - is either a regular N-dimensional array of data points, called a simple - dataspace, or a more general collection of data points organized in - another manner, called a complex dataspace. Figure 5.3 shows HDF5 dataspaces. - In this tutorial, we only consider simple dataspaces. -<P> - <B>Fig 5.3</B> <I>HDF5 dataspaces</I> -<PRE> - - +-- simple - HDF5 dataspaces --| - +-- complex - -</PRE> - The dimensions of a dataset can be fixed (unchanging), or they may be - unlimited, which means that they are extensible. A dataspace can also - describe a portion of a dataset, making it possible to do partial I/O - operations on selections. - - <h3>Dataset Creation Property Lists</H3> - - When creating a dataset, HDF5 allows the user to specify how raw data is - organized and/or compressed on disk. This information is - stored in a dataset creation property list and passed to the dataset - interface. The raw data on disk can be stored contiguously (in the same - linear way that it is organized in memory), partitioned into chunks, - stored externally, etc. In this tutorial, we use the - default dataset creation property list; that is, contiguous storage layout - and no compression are used. For more information about - dataset creation property lists, - see <a href="../Datasets.html">The Dataset Interface (H5D)</a> - in the <cite>HDF5 User's Guide</cite>. - -<P> -In HDF5, datatypes and dataspaces are independent objects which are created -separately from any dataset that they might be attached to. Because of this, -the creation of a dataset requires definition of the datatype and dataspace. -In this tutorial, we use HDF5 predefined datatypes (integer) and consider -only simple dataspaces. Hence, only the creation of dataspace objects is -needed. -<P> - -To create an empty dataset (no data written) the following steps need to be -taken: -<OL> -<LI> Obtain the location identifier where the dataset is to be created. -<LI> Define the dataset characteristics and the dataset creation property list. - <UL> - <LI> Define a datatype. - <LI> Define a dataspace. - <LI> Specify the dataset creation property list. -</UL> -<LI> Create the dataset. -<LI> Close the datatype, the dataspace, and the property list if necessary. -<LI> Close the dataset. -</OL> -To create a simple dataspace, the calling program must contain a -call to create and close the dataspace. For example: -<P> -<I>C</I>: -<PRE> - space_id = H5Screate_simple (rank, dims, maxdims); - status = H5Sclose (space_id ); -</PRE> -<I>FORTRAN</I>: -<PRE> - CALL h5screate_simple_f (rank, dims, space_id, hdferr, maxdims=max_dims) - <i>or</i> - CALL h5screate_simple_f (rank, dims, space_id, hdferr) - - CALL h5sclose_f (space_id, hdferr) -</PRE> - -To create a dataset, the calling program must contain calls to create -and close the dataset. For example: -<P> -<I>C</I>: -<PRE> - dset_id = H5Dcreate (hid_t loc_id, const char *name, hid_t type_id, - hid_t space_id, hid_t creation_prp); - status = H5Dclose (dset_id); -</PRE> -<I>FORTRAN</I>: -<PRE> - CALL h5dcreate_f (loc_id, name, type_id, space_id, dset_id, & - hdferr, creation_prp=creat_plist_id) - <i>or</i> - CALL h5dcreate_f (loc_id, name, type_id, space_id, dset_id, hdferr) - - CALL h5dclose_f (dset_id, hdferr) -</PRE> -If using the pre-defined datatypes in FORTRAN, then a call must -be made to initialize and terminate access to the pre-defined datatypes: -<PRE> - CALL h5init_types_f (hdferr) - CALL h5close_types_f (hdferr) -</PRE> -<code>h5init_types_f</code> must be called before any HDF5 library -subroutine calls are made; -<code>h5close_types_f</code> must be called after the final HDF5 library -subroutine call. -See the programming example below for an illustration of the use of -these calls. - -<P> -<H2> Programming Example</H2> -<A NAME="desc"> -<H3><U>Description</U></H3> -The following example shows how to create an empty dataset. -It creates a file called <code>dset.h5</code> in the C version -(<code>dsetf.h5</code> in Fortran), defines the dataset dataspace, creates a -dataset which is a 4x6 integer array, and then closes the dataspace, -the dataset, and the file. <BR> -<UL> -[ <A HREF="examples/h5_crtdat.c">C Example</A> ] - -- <code>h5_crtdat.c</code><BR> -[ <A HREF="examples/dsetexample.f90">Fortran Example</A> ] - -- <code>dsetexample.f90</code><BR> -[ <A HREF="examples/java/CreateDataset.java">Java Example</A> ] - -- <code>CreateDataset.java</code> -</UL> - -<B>NOTE:</B> To download a tar file of the examples, including a Makefile, -please go to the <A HREF="references.html">References</A> page of this tutorial. - -<A NAME="rem"> -<H3><U>Remarks</U></H3> -<UL> -<LI><code>H5Screate_simple</code>/<code>h5screate_simple_f</code> -creates a new simple dataspace and returns a dataspace identifier. -<PRE> -<I>C</I>: - hid_t H5Screate_simple (int rank, const hsize_t * dims, - const hsize_t * maxdims) -<I>FORTRAN</I>: - h5screate_simple_f (rank, dims, space_id, hdferr, maxdims) - - rank INTEGER - dims(*) INTEGER(HSIZE_T) - space_id INTEGER(HID_T) - hdferr INTEGER - (Valid values: 0 on success and -1 on failure) - maxdims(*) INTEGER(HSIZE_T), OPTIONAL -</PRE> -<UL> - <LI> The <I>rank</I> parameter specifies the rank, i.e., the number of - dimensions, of the dataset. - - <LI> The <I>dims</I> parameter specifies the size of the dataset. - - <LI>The <I>maxdims</I> parameter specifies the upper limit on the - size of the dataset. - If this parameter is NULL in C (or not specified in FORTRAN), - then the upper limit is the same as the dimension - sizes specified by the <I>dims</I> parameter. - <LI>The function returns the dataspace identifier in C if successful; - otherwise it returns a negative value. - In FORTRAN, the dataspace identifier - is returned in the <I>space_id</I> parameter. If the call is successul - then a 0 is returned in <I>hdferr</I>; otherwise a -1 is returned. -</UL> -<P> -<LI><code>H5Dcreate</code>/<code>h5dcreate_f</code> creates a dataset -at the specified location and returns a dataset identifier. -<PRE> -<I>C</I>: - hid_t H5Dcreate (hid_t loc_id, const char *name, hid_t type_id, - hid_t space_id, hid_t creation_prp) -<I>FORTRAN</I>: - h5dcreate_f (loc_id, name, type_id, space_id, dset_id, & - hdferr, creation_prp) - - loc_id INTEGER(HID_T) - name CHARACTER(LEN=*) - type_id INTEGER(HID_T) - space_id INTEGER(HID_T) - dset_id INTEGER(HID_T) - hdferr INTEGER - (Valid values: 0 on success and -1 on failure) - creation_prp INTEGER(HID_T), OPTIONAL -</PRE> -<UL> - <LI> The <I>loc_id</I> parameter is the location identifier. -<P> - <LI> The <I>name</I> parameter is the name of the dataset to create. - -<P> - <LI> The <I>type_id</I> parameter specifies the datatype identifier. - -<P> - <LI> The <I>space_id</I> parameter is the dataspace identifier. - -<P> - <LI> The <I>creation_prp</I> parameter specifies the - dataset creation property list. - <code>H5P_DEFAULT</code> in C and <code>H5P_DEFAULT_F</code> in FORTRAN - specify the default dataset creation property list. - This parameter is optional in FORTRAN; if it is omitted, - the default dataset creation property list will be used. -<P> - <LI> The C function returns the dataset identifier if successful and - a negative value otherwise. The FORTRAN call returns the - dataset identifier in <I>dset_id</I>. If it is successful, then 0 is - returned in <I>hdferr</I>; otherwise a -1 is returned. - -</UL> -<P> -<LI><code>H5Dcreate</code>/<code>h5dcreate_f</code> creates an empty array -and initializes the data to 0. -<P> -<LI> When a dataset is no longer accessed by a program, -<code>H5Dclose</code>/<code>h5dclose_f</code> must be called to release -the resource used by the dataset. This call is mandatory. -<PRE> -<I>C</I>: - hid_t H5Dclose (hid_t dset_id) -<I>FORTRAN</I>: - h5dclose_f (dset_id, hdferr) - - dset_id INTEGER(HID_T) - hdferr INTEGER - (Valid values: 0 on success and -1 on failure) -</PRE> -</UL> - -<A NAME="fc"> -<H3><U>File Contents</U></H3> -The contents of the file <code>dset.h5</code> (<code>dsetf.h5</code> -for FORTRAN) are shown in <B>Figure 5.4</B> and <B>Figures 5.5a </B> -and <B>5.5b</B>. -<P> -<table border="0"> -<tr align=left><td> -<B>Figure 5.4</B> <I>Contents of <code>dset.h5</code> ( <code>dsetf.h5</code>)</i> -</td></tr><tr align=center><td> -<IMG src="img002.gif"> </PRE> -</td></tr></table> - -<table width="100%" border="1" cellspacing="4" bordercolor="#FFFFFF"> - <tr bordercolor="#FFFFFF"> - <td width="50%"><b>Figure 5.5a</b> <i><code>dset.h5</code> in DDL</i> </td> - <td width="50%"><b>Figure 5.5b</b> <i><code>dsetf.h5</code> in DDL</i> </td> - </tr> - <tr bordercolor="#000000"> - <td width="35%"> - <PRE> -HDF5 "dset.h5" { -GROUP "/" { - DATASET "dset" { - DATATYPE { H5T_STD_I32BE } - DATASPACE { SIMPLE ( 4, 6 ) / ( 4, 6 ) } - DATA { - 0, 0, 0, 0, 0, 0, - 0, 0, 0, 0, 0, 0, - 0, 0, 0, 0, 0, 0, - 0, 0, 0, 0, 0, 0 - } - } -} -} -</PRE> - </td> - <td width="35%"> - <pre> -HDF5 "dsetf.h5" { -GROUP "/" { - DATASET "dset" { - DATATYPE { H5T_STD_I32BE } - DATASPACE { SIMPLE ( 6, 4 ) / ( 6, 4 ) } - DATA { - 0, 0, 0, 0, - 0, 0, 0, 0, - 0, 0, 0, 0, - 0, 0, 0, 0, - 0, 0, 0, 0, - 0, 0, 0, 0 - } - } -} -} -</pre> - </td> - </tr> -</table> - -<p> -Note in Figures 5.5a and 5.5b that -<code>H5T_STD_I32BE</code>, a 32-bit Big Endian integer, -is an HDF atomic datatype. - - -<A NAME="ddl"> -<h3><U>Dataset Definition in DDL</U></H3> -The following is the simplified DDL dataset definition: -<P> - <B>Fig. 5.6</B> <I>HDF5 Dataset Definition</I> -<PRE> - <dataset> ::= DATASET "<dataset_name>" { <datatype> - <dataspace> - <data> - <dataset_attribute>* } - - <datatype> ::= DATATYPE { <atomic_type> } - - <dataspace> ::= DATASPACE { SIMPLE <current_dims> / <max_dims> } - - <dataset_attribute> ::= <attribute> -</PRE> - - -<!-- BEGIN FOOTER INFO --> - -<P><hr noshade size=1> -<font face="arial,helvetica" size="-1"> - <a href="http://www.ncsa.uiuc.edu/"><img border=0 -src="footer-ncsalogo.gif" - width=78 height=27 alt="NCSA"><br> - The National Center for Supercomputing Applications</A><br> - <a href="http://www.uiuc.edu/">University of Illinois - at Urbana-Champaign</a><br> - <br> -<!-- <A HREF="helpdesk.mail.html"> --> -<A HREF="mailto:hdfhelp@@ncsa.uiuc.edu"> -hdfhelp@@ncsa.uiuc.edu</A> -<br> -<BR> <H6>Last Modified: June 22, 2001</H6><BR> -<!-- modified by Barbara Jones - bljones@@ncsa.uiuc.edu --> -<!-- modified by Frank Baker - fbaker@@ncsa.uiuc.edu --> -</FONT> -<BR> -<!-- <A HREF="mailto:hdfhelp@@ncsa.uiuc.edu"> --> - -</BODY> -</HTML> - |