summaryrefslogtreecommitdiffstats
path: root/develop/_intro_par_chunk.html
blob: 4f0ecc0090fafb62d2e02938d034a0324aa10556 (plain)
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
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta http-equiv="Content-Type" content="text/xhtml;charset=UTF-8"/>
<meta http-equiv="X-UA-Compatible" content="IE=9"/>
<meta name="generator" content="Doxygen 1.10.0"/>
<meta name="viewport" content="width=device-width, initial-scale=1"/>
<title>HDF5: Writing by Chunk</title>
<link href="tabs.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="jquery.js"></script>
<script type="text/javascript" src="dynsections.js"></script>
<link href="navtree.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="resize.js"></script>
<script type="text/javascript" src="navtreedata.js"></script>
<script type="text/javascript" src="navtree.js"></script>
<script type="text/javascript" src="cookie.js"></script>
<link href="search/search.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="search/searchdata.js"></script>
<script type="text/javascript" src="search/search.js"></script>
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:d3d9a9a6595521f9666a5e94cc830dab83b65699&amp;dn=expat.txt MIT */
  $(function() { init_search(); });
/* @license-end */
</script>
<link href="doxygen.css" rel="stylesheet" type="text/css" />
<link href="hdf5doxy.css" rel="stylesheet" type="text/css">
<!-- <link href="hdf5doxy.css" rel="stylesheet" type="text/css"/>
 -->
<script type="text/javascript" src="hdf5_navtree_hacks.js"></script>
</head>
<body>
<div style="background:#FFDDDD;font-size:120%;text-align:center;margin:0;padding:5px">Please, help us to better serve our user community by answering the following short survey:  <a href="https://www.hdfgroup.org/website-survey/">https://www.hdfgroup.org/website-survey/</a></div>
<div id="top"><!-- do not remove this div, it is closed by doxygen! -->
<div id="titlearea">
<table cellspacing="0" cellpadding="0">
 <tbody>
 <tr style="height: 56px;">
  <td id="projectlogo"><img alt="Logo" src="HDFG-logo.png"/></td>
  <td id="projectalign" style="padding-left: 0.5em;">
   <div id="projectname"><a href="https://www.hdfgroup.org">HDF5</a>
   &#160;<span id="projectnumber">1.15.0.2908dd1</span>
   </div>
   <div id="projectbrief">API Reference</div>
  </td>
   <td>        <div id="MSearchBox" class="MSearchBoxInactive">
        <span class="left">
          <span id="MSearchSelect"                onmouseover="return searchBox.OnSearchSelectShow()"                onmouseout="return searchBox.OnSearchSelectHide()">&#160;</span>
          <input type="text" id="MSearchField" value="" placeholder="Search" accesskey="S"
               onfocus="searchBox.OnSearchFieldFocus(true)" 
               onblur="searchBox.OnSearchFieldFocus(false)" 
               onkeyup="searchBox.OnSearchFieldChange(event)"/>
          </span><span class="right">
            <a id="MSearchClose" href="javascript:searchBox.CloseResultsWindow()"><img id="MSearchCloseImg" border="0" src="search/close.svg" alt=""/></a>
          </span>
        </div>
</td>
 </tr>
 </tbody>
</table>
</div>
<!-- end header part -->
<!-- Generated by Doxygen 1.10.0 -->
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:d3d9a9a6595521f9666a5e94cc830dab83b65699&amp;dn=expat.txt MIT */
var searchBox = new SearchBox("searchBox", "search/",'.html');
/* @license-end */
</script>
</div><!-- top -->
<div id="side-nav" class="ui-resizable side-nav-resizable">
  <div id="nav-tree">
    <div id="nav-tree-contents">
      <div id="nav-sync" class="sync"></div>
    </div>
  </div>
  <div id="splitbar" style="-moz-user-select:none;" 
       class="ui-resizable-handle">
  </div>
</div>
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:d3d9a9a6595521f9666a5e94cc830dab83b65699&amp;dn=expat.txt MIT */
$(function(){initNavTree('_intro_par_chunk.html',''); initResizable(); });
/* @license-end */
</script>
<div id="doc-content">
<!-- window showing the filter options -->
<div id="MSearchSelectWindow"
     onmouseover="return searchBox.OnSearchSelectShow()"
     onmouseout="return searchBox.OnSearchSelectHide()"
     onkeydown="return searchBox.OnSearchSelectKey(event)">
</div>

<!-- iframe showing the search results (closed by default) -->
<div id="MSearchResultsWindow">
<div id="MSearchResults">
<div class="SRPage">
<div id="SRIndex">
<div id="SRResults"></div>
<div class="SRStatus" id="Loading">Loading...</div>
<div class="SRStatus" id="Searching">Searching...</div>
<div class="SRStatus" id="NoMatches">No Matches</div>
</div>
</div>
</div>
</div>

<div><div class="header">
  <div class="headertitle"><div class="title">Writing by Chunk</div></div>
</div><!--header-->
<div class="contents">
<div class="textblock"><p>Navigate back: <a class="el" href="index.html">Main</a> / <a class="el" href="_getting_started.html">Getting Started with HDF5</a> / <a class="el" href="_intro_par_h_d_f5.html">A Brief Introduction to Parallel HDF5</a> </p><hr  />
<p>In this example each process writes a "chunk" of data to a dataset. The C and Fortran 90 examples result in the same data layout in the file.</p>
<table class="doxtable">
<tr>
<th><b>Figure a</b> C Example </th><th><b>Figure b</b> Fortran Example </th></tr>
<tr>
<td><div class="image">
<img src="pchunk_figa.gif" alt=""/>
</div>
  </td><td><div class="image">
<img src="pchunk_figb.gif" alt=""/>
</div>
   </td></tr>
</table>
<p>For this example, four processes are used, and a 4 x 2 chunk is written to the dataset by each process.</p>
<p>To do this, you would: </p><ul>
<li>Use the block parameter to specify a chunk of size 4 x 2 (or 2 x 4 for Fortran). </li>
<li>Use a different offset (start) for each process, based on the chunk size: <table class="doxtable">
<tr>
<th rowspan="3"><b>C</b></th><th>Process 0</th><th>Process 1</th><th>Process 2</th><th>Process 3 </th></tr>
<tr>
<td>offset[0] = 0</td><td>offset[0] = 0</td><td>offset[0] = 4</td><td>offset[0] = 4 </td></tr>
<tr>
<td>offset[1] = 0</td><td>offset[1] = 2</td><td>offset[1] = 0</td><td>offset[1] = 2 </td></tr>
<tr>
<th rowspan="3"><b>Fortran</b></th><th>Process 0</th><th>Process 1</th><th>Process 2</th><th>Process 3 </th></tr>
<tr>
<td>offset(1) = 0</td><td>offset(1) = 2</td><td>offset(1) = 0</td><td>offset(1) = 2 </td></tr>
<tr>
<td>offset(2) = 0</td><td>offset(2) = 0</td><td>offset(2) = 4</td><td>offset(2) = 4  </td></tr>
</table>
</li>
</ul>
<p>For example, the offset and block parameters for Process 2 would look like: </p><table class="doxtable">
<tr>
<th><b>Figure a</b> C Example </th><th><b>Figure b</b> Fortran Example </th></tr>
<tr>
<td><div class="image">
<img src="pchunk_figc.gif" alt=""/>
</div>
  </td><td><div class="image">
<img src="pchunk_figd.gif" alt=""/>
</div>
   </td></tr>
</table>
<p>Below are example programs for writing hyperslabs by pattern in Parallel HDF5: </p><table class="doxtable">
<tr>
<td><a href="https://github.com/HDFGroup/hdf5/blob/develop/HDF5Examples/C/H5PAR/ph5_hyperslab_by_chunk.c">hyperslab_by_chunk.c</a>   </td></tr>
<tr>
<td><a href="https://github.com/HDFGroup/hdf5/blob/develop/HDF5Examples/FORTRAN/H5PAR/ph5_f90_hyperslab_by_chunk.F90">hyperslab_by_chunk.F90</a>   </td></tr>
</table>
<p>The following is the output from h5dump for the HDF5 file created in this example: </p><div class="fragment"><div class="line">HDF5 <span class="stringliteral">&quot;SDS_chnk.h5&quot;</span> {</div>
<div class="line">GROUP <span class="stringliteral">&quot;/&quot;</span> {</div>
<div class="line">   DATASET <span class="stringliteral">&quot;IntArray&quot;</span> {</div>
<div class="line">      DATATYPE  <a class="code hl_define" href="group___p_d_t_s_t_d.html#ga37e8a6be7ee64587c2a282b965019bb8">H5T_STD_I32BE</a>  </div>
<div class="line">      DATASPACE  SIMPLE { ( 8, 4 ) / ( 8, 4 ) } </div>
<div class="line">      DATA {</div>
<div class="line">         1, 1, 2, 2,</div>
<div class="line">         1, 1, 2, 2,</div>
<div class="line">         1, 1, 2, 2,</div>
<div class="line">         1, 1, 2, 2,</div>
<div class="line">         3, 3, 4, 4,</div>
<div class="line">         3, 3, 4, 4,</div>
<div class="line">         3, 3, 4, 4,</div>
<div class="line">         3, 3, 4, 4</div>
<div class="line">      } </div>
<div class="line">   } </div>
<div class="line">} </div>
<div class="line">} </div>
<div class="ttc" id="agroup___p_d_t_s_t_d_html_ga37e8a6be7ee64587c2a282b965019bb8"><div class="ttname"><a href="group___p_d_t_s_t_d.html#ga37e8a6be7ee64587c2a282b965019bb8">H5T_STD_I32BE</a></div><div class="ttdeci">#define H5T_STD_I32BE</div><div class="ttdef"><b>Definition</b> H5Tpublic.h:305</div></div>
</div><!-- fragment --><p> The h5dump utility is written in C so the output is in C order.</p>
<hr  />
<p> Navigate back: <a class="el" href="index.html">Main</a> / <a class="el" href="_getting_started.html">Getting Started with HDF5</a> / <a class="el" href="_intro_par_h_d_f5.html">A Brief Introduction to Parallel HDF5</a> </p>
</div></div><!-- contents -->
</div><!-- PageDoc -->
</div><!-- doc-content -->
<!-- start footer part -->
<div id="nav-path" class="navpath"><!-- id is needed for treeview function! -->
  <ul>
    <li class="footer">Generated by
    <a href="http://www.doxygen.org/index.html">
    <img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.10.0 </li>
  </ul>
</div>
</body>
</html>