| [5] | 1 | <!DOCTYPE html PUBLIC "-//w3c//dtd html 4.0 transitional//en"> |
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| 2 | <html><head> |
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| [504] | 14 | |
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| [392] | 22 | <meta content="text/html; charset=ISO-8859-1" http-equiv="Content-Type"> <meta content="Mozilla/4.73 [en] (X11; U; HP-UX B.10.20 9000/782) [Netscape]" name="GENERATOR"> <meta content="Siegfried Raasch" name="Author"> <meta content="parallel LES model" name="Keywords"><title>PALM technical/numerical documentation</title></head><body><font size="+4">PALM |
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| [5] | 23 | </font>a |
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| 24 | <b>pa</b>rallelized |
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| 25 | <b>L</b>ES <b>m</b>odel |
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| [62] | 26 | <br><hr width="100%"> |
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| 27 | <br><font size="+2">technical/numerical documentation</font> |
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| 28 | <br> |
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| 29 | <br> |
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| 30 | <br><table nosave="" cellpadding="0" cellspacing="0"> <caption> <br> </caption><tbody> |
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| [482] | 31 | </tbody><tbody> </tbody> <tbody> <tr nosave=""> <td nosave=""><b>Current fixed release:</b></td> <td><span style="font-weight: bold;">3.7a<br> |
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| [481] | 32 | </span></td> </tr> |
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| [62] | 33 | <tr nosave=""> <td nosave=""><b>Last |
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| 34 | change of this document</b>: </td> <td nosave=""><b>$Id: technical_documentation.html 525 2010-03-30 02:08:09Z raasch $</b></td> </tr> |
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| 35 | </tbody> |
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| 36 | </table><hr width="100%"> |
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| [5] | 37 | <p><font size="+2">Table of contents</font> |
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| [62] | 38 | <br> |
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| 39 | <br> |
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| 40 | </p><ul> <a href="#Kapitel1.0">1.0</a> |
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| 41 | History of changes <p><a href="#Kapitel2.0">2.0</a> |
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| [493] | 42 | How to change the source |
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| 43 | code and how to document modifications<br> |
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| 44 | </p> <p><a href="#Kapitel3.0">3.0</a> |
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| [481] | 45 | Description of selected model numerics<br> |
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| [5] | 46 | </p> |
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| [392] | 47 | </ul><b></b><br> |
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| 48 | |
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| [62] | 49 | <h2><a name="Kapitel1.0"></a>1.0 |
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| 50 | History of changes</h2> |
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| [481] | 51 | The following table documents all changes to the PALM repository since 2009. Older changes can be found <a href="tec_doc_1998-2008.html">here</a>.<br> |
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| 52 | <br> |
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| [482] | 53 | Entries in the fifth column specify the type of the change: |
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| [5] | 54 | change |
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| 55 | of existing code (C), new code (N) or bugfix (B). More detailed |
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| 56 | information |
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| [481] | 57 | about the changes may sometimes be found in the header comment lines of the |
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| [5] | 58 | respective |
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| 59 | routines. |
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| [62] | 60 | <br> |
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| 61 | <br> |
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| [481] | 62 | <table style="text-align: left; width: 100%; vertical-align: top;" border="1" cellpadding="2" cellspacing="2"> |
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| 63 | <tbody> |
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| 64 | <tr> |
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| [482] | 65 | <td style="vertical-align: middle; width: 27px;"><big><span style="font-weight: bold;">date</span></big><br> |
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| [392] | 66 | </td> |
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| [481] | 67 | <td style="width: 38px;"><big><span style="font-weight: bold;">author</span></big><br> |
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| [392] | 68 | </td> |
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| [481] | 69 | <td style="width: 42px;"><big><span style="font-weight: bold;">svn revision</span></big><br> |
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| [392] | 70 | </td> |
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| [516] | 71 | <td style="width: 40px;"><big><span style="font-weight: bold;">last release</span></big><br> |
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| [392] | 72 | </td> |
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| [481] | 73 | <td style="width: 27px;"><big><span style="font-weight: bold;">type</span></big><br> |
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| 74 | </td> |
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| 75 | <td style="width: 497px;"><big><span style="font-weight: bold;">description</span></big><br> |
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| 76 | </td> |
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| 77 | <td style="width: 189px;"><big><span style="font-weight: bold;">affected routines</span></big><br> |
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| 78 | </td> |
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| 79 | </tr> |
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| [482] | 80 | |
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| 81 | |
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| 82 | |
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| 83 | |
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| 84 | |
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| 85 | |
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| 86 | |
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| 87 | |
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| 88 | |
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| 89 | |
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| [481] | 90 | <tr> |
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| [525] | 91 | <td style="vertical-align: top;">30/03/10<br> |
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| 92 | </td> |
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| 93 | <td style="vertical-align: top;">SR<br> |
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| 94 | </td> |
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| 95 | <td style="vertical-align: top;">525<br> |
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| 96 | </td> |
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| 97 | <td style="vertical-align: top;">3.7a<br> |
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| 98 | </td> |
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| 99 | <td style="vertical-align: top;">B<br> |
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| 100 | </td> |
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| 101 | <td style="vertical-align: top;">Bugfix: "/" in netcdf profile variable names replaced by ":"<br> |
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| 102 | </td> |
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| 103 | <td style="vertical-align: top;">check_parameters<br> |
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| 104 | </td> |
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| 105 | </tr> |
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| 106 | <tr> |
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| [520] | 107 | <td style="vertical-align: top;">19/03/10<br> |
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| 108 | </td> |
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| 109 | <td style="vertical-align: top;">SR<br> |
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| 110 | </td> |
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| 111 | <td style="vertical-align: top;">520<br> |
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| 112 | </td> |
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| 113 | <td style="vertical-align: top;">3.7a<br> |
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| 114 | </td> |
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| 115 | <td style="vertical-align: top;">N<br> |
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| 116 | </td> |
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| 117 | <td style="vertical-align: top;">NetCDF4 support for particle |
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| 118 | data. Total number of particles is allowed to increase during the run, |
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| 119 | when netcdf_data_format > <span style="font-style: italic;">2</span> is used.<br> |
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| 120 | </td> |
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| 121 | <td style="vertical-align: top;">advec_particles, check_open, netcdf<br> |
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| 122 | </td> |
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| 123 | </tr> |
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| 124 | <tr> |
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| 125 | <td style="vertical-align: top;"><br> |
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| 126 | </td> |
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| 127 | <td style="vertical-align: top;"><br> |
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| 128 | </td> |
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| 129 | <td style="vertical-align: top;"><br> |
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| 130 | </td> |
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| 131 | <td style="vertical-align: top;"><br> |
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| 132 | </td> |
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| 133 | <td style="vertical-align: top;">C<br> |
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| 134 | </td> |
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| 135 | <td style="vertical-align: top;">Special characters like * and " |
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| 136 | are now allowed for NetCDF variable names. Replacement of these |
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| 137 | characters has been removed (routine clean_netcdf_varname removed)<br> |
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| 138 | </td> |
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| 139 | <td style="vertical-align: top;"><br> |
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| 140 | </td> |
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| 141 | </tr> |
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| 142 | <tr> |
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| [516] | 143 | <td style="vertical-align: top;">18/03/10<br> |
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| 144 | </td> |
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| 145 | <td style="vertical-align: top;">SR<br> |
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| 146 | </td> |
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| 147 | <td style="vertical-align: top;">516<br> |
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| 148 | </td> |
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| 149 | <td style="vertical-align: top;">3.7a<br> |
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| 150 | </td> |
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| 151 | <td style="vertical-align: top;">N<br> |
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| 152 | </td> |
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| 153 | <td style="vertical-align: top;">Simple installation method has been documented (see chapter 5.0). Respective scripts and configuration files have been updated.<br> |
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| 154 | </td> |
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| 155 | <td style="vertical-align: top;">palm_simple_install, palm_simple_run<br> |
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| 156 | </td> |
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| 157 | </tr> |
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| 158 | <tr> |
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| 159 | <td style="vertical-align: top;"><br> |
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| 160 | </td> |
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| 161 | <td style="vertical-align: top;"><br> |
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| 162 | </td> |
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| 163 | <td style="vertical-align: top;"><br> |
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| 164 | </td> |
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| 165 | <td style="vertical-align: top;"><br> |
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| 166 | </td> |
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| 167 | <td style="vertical-align: top;">B<br> |
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| 168 | </td> |
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| 169 | <td style="vertical-align: top;">opt=1 is forced for PGI-compiler in routine<span style="font-family: Courier New,Courier,monospace;"> buoyancy </span>by compiler-directive. Otherwise, program aborts with SIGFPE.<br> |
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| 170 | </td> |
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| 171 | <td style="vertical-align: top;">buoyancy<br> |
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| 172 | </td> |
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| 173 | </tr> |
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| 174 | <tr> |
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| [513] | 175 | <td style="vertical-align: top;">16/03/10<br> |
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| [509] | 176 | </td> |
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| [513] | 177 | <td style="vertical-align: top;">RH<br> |
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| 178 | </td> |
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| 179 | <td style="vertical-align: top;">513<br> |
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| 180 | </td> |
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| 181 | <td style="vertical-align: top;">3.7a<br> |
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| 182 | </td> |
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| 183 | <td style="vertical-align: top;">N<br> |
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| 184 | </td> |
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| 185 | <td style="vertical-align: top;">NCL scripts can be run with the shell script <span style="font-family: Courier New,Courier,monospace;">palmplot.</span><br> |
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| 186 | </td> |
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| 187 | <td style="vertical-align: top;">palmplot .ncl.config.default cross_sections.ncl profiles.ncl<br> |
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| 188 | </td> |
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| 189 | </tr> |
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| 190 | <tr> |
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| 191 | <td style="vertical-align: top;">12/03/10<br> |
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| 192 | </td> |
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| [509] | 193 | <td style="vertical-align: top;">SR<br> |
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| 194 | </td> |
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| 195 | <td style="vertical-align: top;">509<br> |
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| 196 | </td> |
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| 197 | <td style="vertical-align: top;">3.7a<br> |
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| 198 | </td> |
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| 199 | <td style="vertical-align: top;">E<br> |
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| 200 | </td> |
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| 201 | <td style="vertical-align: top;">bugfix for rev 504: remode_md was given a wrong value<br> |
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| 202 | </td> |
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| 203 | <td style="vertical-align: top;">mbuild<br> |
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| 204 | </td> |
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| 205 | </tr> |
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| 206 | <tr> |
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| [506] | 207 | <td style="vertical-align: top;">08/03/10<br> |
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| 208 | </td> |
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| 209 | <td style="vertical-align: top;">SR<br> |
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| 210 | </td> |
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| 211 | <td style="vertical-align: top;">506<br> |
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| 212 | </td> |
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| 213 | <td style="vertical-align: top;">3.7a<br> |
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| 214 | </td> |
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| 215 | <td style="vertical-align: top;">C<br> |
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| 216 | </td> |
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| 217 | <td style="vertical-align: top;">hack for better usage of <span style="font-weight: bold;">mrun</span> on Kyoto computing center machine (<span style="font-family: Courier New,Courier,monospace;">lckyoto</span>)<br> |
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| 218 | </td> |
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| 219 | <td style="vertical-align: top;">mrun<br> |
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| 220 | </td> |
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| 221 | </tr> |
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| 222 | <tr> |
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| [504] | 223 | <td style="vertical-align: top;">03/03/10<br> |
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| 224 | </td> |
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| 225 | <td style="vertical-align: top;">SR<br> |
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| 226 | </td> |
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| 227 | <td style="vertical-align: top;">504<br> |
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| 228 | </td> |
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| 229 | <td style="vertical-align: top;">3.7a<br> |
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| 230 | </td> |
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| 231 | <td style="vertical-align: top;">C<br> |
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| 232 | </td> |
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| 233 | <td style="vertical-align: top;"><span style="font-family: Courier New,Courier,monospace;">combine_plot_fields</span> is now directly called within <span style="font-weight: bold;">mrun</span> and must not be given by an output command in the configuration file any more. Please remove the respective output command (<span style="font-family: Courier New,Courier,monospace;">OC:combine_plot_fields.x</span>) from your configuration file!<br> |
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| 234 | <br> |
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| 235 | Utility programs (<span style="font-family: Courier New,Courier,monospace;">combine_plot_fields</span>, <span style="font-family: Courier New,Courier,monospace;">interpret_config</span>) are created by <span style="font-weight: bold;">mbuild</span> separately for each block in the configuration file. Depending on option <span style="font-family: Courier New,Courier,monospace;">-K</span>, <span style="font-weight: bold;">mrun</span> is using the utility programs for the respective block.<br> |
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| 236 | <br> |
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| 237 | Utility programs are also compiled in parallel, depending on variable <span style="font-family: Courier New,Courier,monospace;">%mopts</span> in the configuration file..<br> |
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| 238 | <br> |
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| 239 | Default configuration files updated.<br> |
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| 240 | </td> |
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| 241 | <td style="vertical-align: top;">mbuild, mrun, UTIL/Makefile, SCRIPTS/.mrun.config.*<br> |
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| 242 | </td> |
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| 243 | </tr> |
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| 244 | <tr> |
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| [496] | 245 | <td style="vertical-align: top;">02/03/10<br> |
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| 246 | </td> |
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| 247 | <td style="vertical-align: top;">SR<br> |
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| 248 | </td> |
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| 249 | <td style="vertical-align: top;">496<br> |
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| 250 | </td> |
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| 251 | <td style="vertical-align: top;">3.7a<br> |
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| 252 | </td> |
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| 253 | <td style="vertical-align: top;">C<br> |
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| 254 | </td> |
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| 255 | <td style="vertical-align: top;">Particle data for restart runs are only written if environment variable <span style="font-family: Courier New,Courier,monospace;">write_binary</span> = <span style="font-style: italic;">.T.</span>, i.e. particle data are now handled in the same way as the other restart data.<br> |
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| 256 | </td> |
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| 257 | <td style="vertical-align: top;">palm<br> |
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| 258 | </td> |
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| 259 | </tr> |
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| 260 | <tr> |
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| [494] | 261 | <td style="vertical-align: top;">01/03/10<br> |
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| [486] | 262 | </td> |
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| 263 | <td style="vertical-align: top;">SR<br> |
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| 264 | </td> |
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| [494] | 265 | <td style="vertical-align: top;">494<br> |
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| [486] | 266 | </td> |
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| [494] | 267 | <td style="vertical-align: top;">3.7a<br> |
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| 268 | </td> |
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| 269 | <td style="vertical-align: top;">N<br> |
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| 270 | </td> |
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| 271 | <td style="vertical-align: top;">Output in NetCDF4-format.<br> |
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| 272 | <br> |
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| 273 | NetCDF4 allows for parallel I/O. Also, variables are not limited in |
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| 274 | size any more (i.e. arrays can be larger than 2GB). The new |
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| 275 | d3par-parameter <span style="font-family: Courier New,Courier,monospace;">netcdf_data_format</span>.can be used to select among the different NetCDF file formats (<span style="font-style: italic;">1</span>: classic format, <span style="font-style: italic;">2</span>: 64-bit-offset format (this is now the default), <span style="font-style: italic;">3</span>: NetCDF4/HDF5 format, <span style="font-style: italic;">4</span>: NetCDF4 format with NF90_CLASSIC_MODEL bit set). Setting <span style="font-family: Courier New,Courier,monospace;">netcdf_data_format</span> > <span style="font-style: italic;">2</span> |
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| 276 | only affects 2d- and 3d-output, i.e. there is no parallel output for |
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| 277 | profiles, time series, spectra, and particles. Parallel output of |
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| 278 | particle data may realized in the future.<br> |
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| 279 | <br> |
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| 280 | In case of parallel output, all PEs write into one file, which means that postprocessing the data with <span style="font-family: Courier New,Courier,monospace;">combine_plot_fields</span> |
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| 281 | (merging data from single files - one per PE - into one file) is not |
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| 282 | neccessary. In this case, flag files are automatically set, telling <span style="font-family: Courier New,Courier,monospace;">combine_plot_fields</span> that nothing is to be done.<br> |
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| 283 | <br> |
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| 284 | Using NetCDF4 format requires a NetCDF4/HDF library. Respective |
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| 285 | settings for -I, -L, and -l compiler/loader options for the SGI-ICE at |
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| 286 | HLRN can be found in the new example configuration file <span style="font-family: Courier New,Courier,monospace;">..../trunk/SCRIPTS/.mrun.config.imuk_ice2_netcdf4</span><br> |
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| 287 | <br> |
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| 288 | <span style="font-weight: bold;">Attention:</span><br> |
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| 289 | So far, NetCDF parallel I/O has only been tested a little. Further |
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| 290 | performance optimizations may be required, especially in case of large |
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| 291 | data sets (e.g. data chunking, or lustre file system settings with <span style="font-family: Courier New,Courier,monospace;">lfs setstripe</span>). <span style="font-weight: bold;">Please report bugs and performance problems immediately!</span><br> |
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| 292 | <br> |
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| 293 | <span style="font-family: Courier New,Courier,monospace;">combine_plot_fields</span> outputs cpu-time needed for file merging.<br> |
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| 294 | <br> |
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| 295 | Modules to be loaded for compilation (mbuild) or job execution (mrun) can/should now be given in the configuration file (<span style="font-family: Courier New,Courier,monospace;">.mrun.config</span>) using variable <span style="font-family: Courier New,Courier,monospace;">modules</span>. Example:<br> |
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| 296 | <br> |
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| 297 | <span style="font-family: Courier New,Courier,monospace;"> %modules ifort/11.0.069:netcdf lcsgih parallel</span><br> |
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| 298 | <br> |
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| 299 | This method replaces the (undocumented) <span style="font-family: Courier New,Courier,monospace;">mpilib</span>-variable.<br> |
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| 300 | <br> |
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| 301 | <span style="font-weight: bold;">WARNING:</span><br> |
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| [497] | 302 | <span style="font-weight: bold;">All fixed settings of modules in the scripts mbuild, mrun, and subjob have been removed! Please set the <span style="font-family: Courier New,Courier,monospace;">modules</span> variable appropriately and remove the mpilib variable in your configuration file.<br> |
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| 303 | <br> |
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| 304 | </span>Compilation time can be reduced be using parallel make. The |
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| 305 | number of allowed simultaneous compiler calls (threads) is set in the |
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| 306 | configuration file using variable <span style="font-family: Courier New,Courier,monospace;">mopt</span>, e.g.<br> |
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| 307 | <br> |
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| 308 | <span style="font-family: Courier New,Courier,monospace;"> %mopts -j:4 lcsgih parallel</span><br> |
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| 309 | <br> |
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| 310 | allows a maximum of 4 routines to be compiled simultaneously (provided |
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| 311 | that the makefile does not show any dependencies between these |
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| 312 | routines).<span style="font-weight: bold;"><br> |
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| 313 | </span> |
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| [494] | 314 | </td> |
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| 315 | <td style="vertical-align: top;">check_open, check_parameters, close_file, data_output_2d, data_output_3d, header, modules, netcdf, parin<br> |
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| 316 | <br> |
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| 317 | combine_plot_fields<br> |
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| 318 | <br> |
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| 319 | mbuild, mrun, subjob<br> |
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| 320 | </td> |
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| 321 | </tr> |
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| 322 | <tr> |
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| [486] | 323 | <td style="vertical-align: top;"><br> |
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| 324 | </td> |
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| 325 | <td style="vertical-align: top;"><br> |
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| 326 | </td> |
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| [494] | 327 | <td style="vertical-align: top;"><br> |
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| 328 | </td> |
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| 329 | <td style="vertical-align: top;"><br> |
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| 330 | </td> |
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| 331 | <td style="vertical-align: top;">C<br> |
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| 332 | </td> |
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| 333 | <td style="vertical-align: top;">d3par-parameters <span style="font-family: Courier New,Courier,monospace;">netcdf_64bit</span> and <span style="font-family: Courier New,Courier,monospace;">netcdf_64bit_3d</span> have been removed. Use the new d3par-variable <span style="font-family: Courier New,Courier,monospace;">netcdf_data_format</span> = <span style="font-style: italic;">2</span> |
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| 334 | for choosing the NetCDF 64bit-offset format (this is the default from |
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| 335 | now on). The offset-format can not be set independently for the |
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| 336 | 3d-output-data any more.<br> |
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| 337 | <br> |
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| 338 | d3par-parameters <span style="font-family: Courier New,Courier,monospace;">netcdf_format_mask</span>, <span style="font-family: Courier New,Courier,monospace;">netcdf_format_mask_av</span>, and variables <span style="font-family: Courier New,Courier,monospace;">nc_format_mask</span>, <span style="font-family: Courier New,Courier,monospace;">format_parallel_io</span> removed. They are replaced by the new parameter <span style="font-family: Courier New,Courier,monospace;">netcdf_data_format</span>. This change concerns the masked data output, which is still not documented.<br> |
|---|
| 339 | </td> |
|---|
| 340 | <td style="vertical-align: top;">check_open, close_file,<br> |
|---|
| 341 | data_output_mask, header, init_masks, modules, parin<br> |
|---|
| 342 | <br> |
|---|
| 343 | </td> |
|---|
| 344 | </tr> |
|---|
| 345 | <tr> |
|---|
| 346 | <td style="vertical-align: top;"><br> |
|---|
| 347 | </td> |
|---|
| 348 | <td style="vertical-align: top;"><br> |
|---|
| 349 | </td> |
|---|
| 350 | <td style="vertical-align: top;"><br> |
|---|
| 351 | </td> |
|---|
| 352 | <td style="vertical-align: top;"><br> |
|---|
| 353 | </td> |
|---|
| 354 | <td style="vertical-align: top;">B<br> |
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| 355 | </td> |
|---|
| 356 | <td style="vertical-align: top;">Bugfix in trunk/UTIL/Makefile: forgot to compile for interpret_config.<br> |
|---|
| 357 | <br> |
|---|
| 358 | Bugfix: timeseries data have to be collected by PE0 (user_statistics).<br> |
|---|
| 359 | </td> |
|---|
| 360 | <td style="vertical-align: top;">user_statistics<br> |
|---|
| 361 | <br> |
|---|
| 362 | trunk/UTIL/Makefile<br> |
|---|
| 363 | </td> |
|---|
| 364 | </tr> |
|---|
| 365 | <tr> |
|---|
| 366 | <td style="vertical-align: top;">05/02/10<br> |
|---|
| 367 | </td> |
|---|
| 368 | <td style="vertical-align: top;">SR<br> |
|---|
| 369 | </td> |
|---|
| 370 | <td style="vertical-align: top;">485<br> |
|---|
| 371 | </td> |
|---|
| 372 | <td style="vertical-align: top;">3.7a<br> |
|---|
| 373 | </td> |
|---|
| 374 | <td style="vertical-align: top;">B<br> |
|---|
| 375 | </td> |
|---|
| [486] | 376 | <td style="vertical-align: top;"><span style="font-family: Courier New,Courier,monospace;">ngp_3d</span>, <span style="font-family: Courier New,Courier,monospace;">ngp_3d_inner</span> |
|---|
| 377 | changed to 64 bit. Otherwise, on large grids > 2*10**9 grid points |
|---|
| 378 | some global statistics (e.g. total kinetic energy) have wrong values.<br> |
|---|
| 379 | </td> |
|---|
| 380 | <td style="vertical-align: top;">init_3d_model, modules<br> |
|---|
| 381 | </td> |
|---|
| 382 | </tr> |
|---|
| 383 | <tr> |
|---|
| 384 | <td style="vertical-align: top;">05/02/10<br> |
|---|
| 385 | </td> |
|---|
| 386 | <td style="vertical-align: top;">SR<br> |
|---|
| 387 | </td> |
|---|
| 388 | <td style="vertical-align: top;">484<br> |
|---|
| 389 | </td> |
|---|
| [494] | 390 | <td style="vertical-align: top;">3.7a<br> |
|---|
| [486] | 391 | </td> |
|---|
| 392 | <td style="vertical-align: top;">B<br> |
|---|
| 393 | </td> |
|---|
| 394 | <td style="vertical-align: top;">Typo in file headers removed ("current" instead of "actual").<br> |
|---|
| 395 | </td> |
|---|
| 396 | <td style="vertical-align: top;">many<br> |
|---|
| 397 | </td> |
|---|
| 398 | </tr> |
|---|
| 399 | <tr> |
|---|
| [482] | 400 | <td style="vertical-align: top; width: 27px;">05/02/10<br> |
|---|
| [481] | 401 | </td> |
|---|
| [482] | 402 | <td style="vertical-align: top; width: 38px;">SR<br> |
|---|
| [481] | 403 | </td> |
|---|
| [482] | 404 | <td style="vertical-align: top; width: 42px;">483<br> |
|---|
| [481] | 405 | </td> |
|---|
| [482] | 406 | <td style="vertical-align: top; width: 40px;">3.7a<br> |
|---|
| [481] | 407 | </td> |
|---|
| [482] | 408 | <td style="vertical-align: top; width: 27px;">N<br> |
|---|
| [481] | 409 | </td> |
|---|
| [482] | 410 | <td style="vertical-align: top; width: 497px;"><span style="font-family: Courier New,Courier,monospace;">compare_palm_logs </span>is additionally compiled with <span style="font-weight: bold;">mbuild</span> <span style="font-family: Courier New,Courier,monospace;">-u</span> . (<span style="font-family: Courier New,Courier,monospace;">Makefile</span> in <span style="font-family: Courier New,Courier,monospace;">trunk/UTIL</span>)<br> |
|---|
| 411 | <br> |
|---|
| 412 | make options (<span style="font-family: Courier New,Courier,monospace;">mopts</span>) to be set by configuration file implemented. (<span style="font-weight: bold;">mrun</span>, <span style="font-weight: bold;">mbuild</span>)<br> |
|---|
| 413 | <br> |
|---|
| 414 | <span style="font-family: Courier New,Courier,monospace;">humidity</span> = <span style="font-style: italic;">.T.</span> can be used for runs with topography. <span style="font-family: Courier New,Courier,monospace;">wall_humidityflux</span> and<br><span style="font-family: Courier New,Courier,monospace;"> |
|---|
| 415 | wall_scalarflux</span> are the corresponding new inipar parameters.<br> |
|---|
| 416 | (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>, <span style="font-family: Courier New,Courier,monospace;">parin</span>)<br> |
|---|
| 417 | <br> |
|---|
| 418 | Large scale vertical motion (subsidence/ascent) can be added as |
|---|
| 419 | additional source to the prognostic equation for potential temperature. |
|---|
| 420 | See new parameters <span style="font-family: Courier New,Courier,monospace;">large_scale_subsidence</span>, <span style="font-family: Courier New,Courier,monospace;">ws_vertical_gradient</span>, and <span style="font-family: Courier New,Courier,monospace;">ws_vertical_gradient_level</span>. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, <span style="font-family: Courier New,Courier,monospace;">header</span>, <span style="font-family: Courier New,Courier,monospace;">Makefile</span>, <span style="font-family: Courier New,Courier,monospace;">modules</span>, <span style="font-family: Courier New,Courier,monospace;">parin</span>, <span style="font-family: Courier New,Courier,monospace;">prognostic_equations</span>, <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, <span style="font-family: Courier New,Courier,monospace;">subsidence</span>, <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| [486] | 421 | <br>Scripts have been updated for Cray-XT5 machine (lcxt5m) and Hitachi-machine (lckyoto).<br> |
|---|
| [482] | 422 | <br> |
|---|
| 423 | A simple method for installing and running palm (with limited features) has been added. (<span style="font-family: Courier New,Courier,monospace;">Makefile</span>, new scripts <span style="font-weight: bold;">palm_simple_install</span>, <span style="font-weight: bold;">palm_simple_run</span>)<br> |
|---|
| 424 | <br> |
|---|
| 425 | Masked data output has been implemented but it is not documented in the |
|---|
| 426 | user manual so far. This feature can already use NetCDF4 file format. |
|---|
| 427 | (check_open, check_parameters, close_file, modules, netcdf, parin, |
|---|
| 428 | time_integration, user_parin, new: data_output_mask, init_masks, |
|---|
| 429 | user_data_output_mask)<br> |
|---|
| [481] | 430 | </td> |
|---|
| [482] | 431 | <td style="vertical-align: top; width: 189px;">check_open, check |
|---|
| 432 | parameters, close_file, header, init_3d_model, Makefile, mbuild, modules, mrun, |
|---|
| 433 | netcdf, parin, prognostic_equations, read_var_list, time_integration, user_parin, write_var_list<br> |
|---|
| 434 | <br><span style="font-weight: bold;"> |
|---|
| 435 | new:</span> data_output_mask, init_masks, palm_simple_install, palm_simple_run, subsidence, user_data_output_mask<br> |
|---|
| 436 | <br> |
|---|
| [481] | 437 | </td> |
|---|
| 438 | </tr> |
|---|
| 439 | <tr> |
|---|
| 440 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| 441 | </td> |
|---|
| 442 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| 443 | </td> |
|---|
| 444 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| 445 | </td> |
|---|
| 446 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| 447 | </td> |
|---|
| [482] | 448 | <td style="vertical-align: top; width: 27px;">C<br> |
|---|
| [481] | 449 | </td> |
|---|
| [482] | 450 | <td style="vertical-align: top; width: 497px;">2d-decomposition is default for Cray-XT machines. (<span style="font-family: Courier New,Courier,monospace;">init_pegrid</span>)<br> |
|---|
| 451 | <br><span style="font-family: Courier New,Courier,monospace;"> |
|---|
| 452 | var_ts</span> is replaced by <span style="font-family: Courier New,Courier,monospace;">dots_max</span>. (<span style="font-family: Courier New,Courier,monospace;">modules</span>, <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>)<br> |
|---|
| 453 | <br> |
|---|
| 454 | Every cloud droplet has now an own weighting factor and can be deleted |
|---|
| 455 | due to collisions. Condensation and collision of cloud droplets are |
|---|
| 456 | adjusted accordingly. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>)<br> |
|---|
| 457 | <br> |
|---|
| 458 | Collision efficiency for large cloud droplets has changed according to table of Rogers and Yau. (<span style="font-family: Courier New,Courier,monospace;">collision_efficiency</span>)<br> |
|---|
| [481] | 459 | </td> |
|---|
| [482] | 460 | <td style="vertical-align: top; width: 189px;">advec_particles, collision_efficiency, init_3d_model, init_pegrid, modules<br> |
|---|
| [481] | 461 | </td> |
|---|
| 462 | </tr> |
|---|
| 463 | <tr> |
|---|
| 464 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| 465 | </td> |
|---|
| 466 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| 467 | </td> |
|---|
| 468 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| 469 | </td> |
|---|
| 470 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| 471 | </td> |
|---|
| [482] | 472 | <td style="vertical-align: top; width: 27px;">B<br> |
|---|
| [481] | 473 | </td> |
|---|
| [482] | 474 | <td style="vertical-align: top; width: 497px;">Bugfix for generating serial jobs. (<span style="font-weight: bold;">subjob</span>)<br> |
|---|
| 475 | <br> |
|---|
| 476 | Bugfix: index problem concerning gradient_level indices removed. (<span style="font-family: Courier New,Courier,monospace;">header</span>)<br> |
|---|
| 477 | <br> |
|---|
| 478 | Dimension of array <span style="font-family: Courier New,Courier,monospace;">stat</span> in cascade change to prevent type problems with mpi2 libraries. (<span style="font-family: Courier New,Courier,monospace;">poisfft_hybrid</span>)<br> |
|---|
| 479 | <br> |
|---|
| 480 | Loop was split to make runs reproducible when using ifort compiler. (<span style="font-family: Courier New,Courier,monospace;">disturb_field</span>)<br> |
|---|
| 481 | <br> |
|---|
| 482 | Bugfix: exchange of ghost points for <span style="font-family: Courier New,Courier,monospace;">prho</span> included. (<span style="font-family: Courier New,Courier,monospace;">time_integration</span>)<br> |
|---|
| 483 | <br> |
|---|
| 484 | Bugfix in calculation of time-averaged surface heatfluxes. (<span style="font-family: Courier New,Courier,monospace;">sum_up_3d_data</span>)<br> |
|---|
| 485 | <br> |
|---|
| 486 | Bugfix in calculation of precipitation_rate. (<span style="font-family: Courier New,Courier,monospace;">calc_precipitation</span>)<br> |
|---|
| 487 | <br> |
|---|
| 488 | Bugfix: initial data assignments to some dvrp arrays changed due to error messages from gfortran compiler. (<span style="font-family: Courier New,Courier,monospace;">modules</span>)<br> |
|---|
| 489 | <br> |
|---|
| 490 | Bugfix in calculation of cloud droplet velocity. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>)<br> |
|---|
| 491 | <br> |
|---|
| 492 | Bugfix in transfer of particles at south/left edge. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>)<br> |
|---|
| 493 | <br> |
|---|
| 494 | Bugfix in calculation of collision efficiency. (<span style="font-family: Courier New,Courier,monospace;">collision_efficiency</span>)<span style="font-family: Courier New,Courier,monospace;"></span><span style="font-family: Courier New,Courier,monospace;"></span><br> |
|---|
| [481] | 495 | </td> |
|---|
| [482] | 496 | <td style="vertical-align: top; width: 189px;">advec_particles, |
|---|
| 497 | calc_precipitation, collision_efficiency, disturb_field, header, |
|---|
| 498 | modules, poisfft_hybrid, subjob, sum_up_3d_data, |
|---|
| 499 | time_integration<br> |
|---|
| 500 | <br> |
|---|
| [481] | 501 | </td> |
|---|
| 502 | </tr> |
|---|
| 503 | <tr> |
|---|
| 504 | <td style="vertical-align: top; width: 27px;">23/09/09<br> |
|---|
| 505 | </td> |
|---|
| 506 | <td style="vertical-align: top; width: 38px;">SR<br> |
|---|
| 507 | </td> |
|---|
| 508 | <td style="vertical-align: top; width: 42px;">392<br> |
|---|
| 509 | </td> |
|---|
| 510 | <td style="vertical-align: top; width: 40px;">3.7<br> |
|---|
| 511 | </td> |
|---|
| 512 | <td style="vertical-align: top; width: 27px;">N<br> |
|---|
| 513 | </td> |
|---|
| 514 | <td style="vertical-align: top; width: 497px;"><span style="font-weight: bold;">Most |
|---|
| 515 | important changes:</span> |
|---|
| [392] | 516 | atmosphere-ocean coupling has been improved and steering of |
|---|
| 517 | dvr-software is more user-friendly now. Beside that, the release |
|---|
| 518 | contains a lot of optimizations, changes, and bugfixes which have |
|---|
| 519 | accumulated over the last months.<br> |
|---|
| [481] | 520 | |
|---|
| [392] | 521 | <br> |
|---|
| [481] | 522 | |
|---|
| [392] | 523 | The atmosphere-ocean coupling allows to use independent precursor runs |
|---|
| 524 | in order to account for different spin-up times. The time when coupling |
|---|
| [481] | 525 | has to be started is given by new inipar parameter <span style="font-family: Courier New,Courier,monospace;">coupling_start_time</span>. |
|---|
| 526 | The precursor ocean run has to be started using new <span style="font-weight: bold;">mrun</span> option "<span style="font-family: Courier New,Courier,monospace;">-y</span>" in |
|---|
| 527 | order to add the appendix "<span style="font-family: Courier New,Courier,monospace;">_O</span>" to all |
|---|
| 528 | output files. (<span style="font-family: Courier New,Courier,monospace;">check_for_restart</span>, |
|---|
| 529 | <span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 530 | <span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 531 | <span style="font-family: Courier New,Courier,monospace;">data_output_3d</span>, |
|---|
| 532 | <span style="font-family: Courier New,Courier,monospace;">data_output_profiles</span>, |
|---|
| 533 | <span style="font-family: Courier New,Courier,monospace;">data_output_ptseries</span>, |
|---|
| 534 | <span style="font-family: Courier New,Courier,monospace;">data_output_spectra</span>, |
|---|
| 535 | <span style="font-family: Courier New,Courier,monospace;">data_output_tseries</span>, |
|---|
| 536 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 537 | <span style="font-family: Courier New,Courier,monospace;">init_coupling</span>, |
|---|
| 538 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 539 | <span style="font-family: Courier New,Courier,monospace;">mrun</span>, |
|---|
| 540 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 541 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 542 | <span style="font-family: Courier New,Courier,monospace;">surface_coupler</span>, |
|---|
| 543 | <span style="font-family: Courier New,Courier,monospace;">time_integration</span>, |
|---|
| 544 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| [392] | 545 | |
|---|
| 546 | <br> |
|---|
| [481] | 547 | |
|---|
| [392] | 548 | Clipping of dvrp output implemented. Default colourtable for particles |
|---|
| 549 | implemented, particle attributes (color, dvrp_size) can be set with new |
|---|
| [481] | 550 | parameters <span style="font-family: Courier New,Courier,monospace;">particle_color</span>, |
|---|
| 551 | <span style="font-family: Courier New,Courier,monospace;">particle_dvrpsize</span>, |
|---|
| 552 | <span style="font-family: Courier New,Courier,monospace;">color_interval</span>, |
|---|
| 553 | <span style="font-family: Courier New,Courier,monospace;">dvrpsize_interval</span>. |
|---|
| 554 | Slicer attributes (dvrp) are set with new routine <span style="font-family: Courier New,Courier,monospace;">set_slicer_attributes_dvrp</span> |
|---|
| 555 | and are controlled with existing parameters <span style="font-family: Courier New,Courier,monospace;">slicer_range_limits</span>. |
|---|
| 556 | (<span style="font-family: Courier New,Courier,monospace;">init_dvrp</span>, |
|---|
| 557 | <span style="font-family: Courier New,Courier,monospace;">data_output_dvrp</span>, |
|---|
| 558 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 559 | <span style="font-family: Courier New,Courier,monospace;">set_slicer_attributes_dvrp</span>, |
|---|
| 560 | <span style="font-family: Courier New,Courier,monospace;">user_data_output_dvrp</span>)<br> |
|---|
| [392] | 561 | |
|---|
| 562 | <br> |
|---|
| [481] | 563 | |
|---|
| [392] | 564 | Polygon reduction for topography and ground plate isosurface. Reduction |
|---|
| 565 | level for buildings can be chosen with parameter cluster_size. (<span style="font-family: Courier New,Courier,monospace;">init_dvrp</span>)<br> |
|---|
| 566 | |
|---|
| 567 | <br> |
|---|
| 568 | |
|---|
| [481] | 569 | Variables <span style="font-family: Courier New,Courier,monospace;">bc_lr</span> |
|---|
| 570 | / <span style="font-family: Courier New,Courier,monospace;">bc_ns</span> |
|---|
| 571 | in most subroutines replaced by LOGICAL variables <span style="font-family: Courier New,Courier,monospace;">bc_lr_cyc</span>,<br> |
|---|
| 572 | |
|---|
| 573 | <span style="font-family: Courier New,Courier,monospace;">bc_ns_cyc</span> |
|---|
| 574 | for speed optimization. This gives a significant speedup of more than |
|---|
| 575 | 10%. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 576 | <span style="font-family: Courier New,Courier,monospace;">diffusion_u</span>, |
|---|
| 577 | <span style="font-family: Courier New,Courier,monospace;">diffusion_v</span>, |
|---|
| 578 | <span style="font-family: Courier New,Courier,monospace;">diffusion_w</span>, |
|---|
| 579 | <span style="font-family: Courier New,Courier,monospace;">modules</span>)<br> |
|---|
| 580 | |
|---|
| [392] | 581 | <br> |
|---|
| [481] | 582 | |
|---|
| [392] | 583 | Scripts have been adapted for machine lck (Yonsei Univ.). (<span style="font-family: Courier New,Courier,monospace;">mrun</span>, <span style="font-family: Courier New,Courier,monospace;">mbuild</span>, <span style="font-family: Courier New,Courier,monospace;">subjob</span>)<br> |
|---|
| [481] | 584 | |
|---|
| [392] | 585 | <br> |
|---|
| [481] | 586 | |
|---|
| 587 | Additional timestep criterion in case of simulations with plant canopy. |
|---|
| 588 | (<span style="font-family: Courier New,Courier,monospace;">timestep</span>)<br> |
|---|
| 589 | |
|---|
| [392] | 590 | <br> |
|---|
| [481] | 591 | |
|---|
| 592 | Check for illegal entries in <span style="font-family: Courier New,Courier,monospace;">section_xy</span>|<span style="font-family: Courier New,Courier,monospace;">xz</span>|<span style="font-family: Courier New,Courier,monospace;">yz</span> that |
|---|
| 593 | exceed <span style="font-family: Courier New,Courier,monospace;">nz+1</span>|<span style="font-family: Courier New,Courier,monospace;">ny+1</span>|<span style="font-family: Courier New,Courier,monospace;">nx+1</span>. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>)<br> |
|---|
| 594 | |
|---|
| [392] | 595 | <br> |
|---|
| [481] | 596 | |
|---|
| 597 | External pressure gradient can be used as driving force. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 598 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 599 | <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>, |
|---|
| 600 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 601 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 602 | <span style="font-family: Courier New,Courier,monospace;">prognostic_equations</span>, |
|---|
| 603 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 604 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 605 | |
|---|
| [392] | 606 | <br> |
|---|
| [481] | 607 | |
|---|
| 608 | New topography case '<span style="font-style: italic;">single_street_canyon</span>'. |
|---|
| 609 | (<span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 610 | <span style="font-family: Courier New,Courier,monospace;">init_grid</span>, |
|---|
| 611 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 612 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 613 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 614 | <span style="font-family: Courier New,Courier,monospace;">user_check_parameters</span>, |
|---|
| 615 | <span style="font-family: Courier New,Courier,monospace;">user_header</span>, |
|---|
| 616 | <span style="font-family: Courier New,Courier,monospace;">user_init_grid</span>, |
|---|
| 617 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 618 | |
|---|
| [392] | 619 | <br> |
|---|
| [481] | 620 | |
|---|
| 621 | Option to predefine a target bulk velocity for <span style="font-family: Courier New,Courier,monospace;">conserve_volume_flow</span>. |
|---|
| 622 | (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 623 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 624 | <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>, |
|---|
| 625 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 626 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 627 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 628 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 629 | |
|---|
| [392] | 630 | <br> |
|---|
| [481] | 631 | |
|---|
| 632 | Option for user defined 2D data output in xy cross sections at z=<span style="font-family: Courier New,Courier,monospace;">nzb</span>+1. (<span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 633 | <span style="font-family: Courier New,Courier,monospace;">user_data_output_2d</span>)<br> |
|---|
| 634 | |
|---|
| [392] | 635 | <br> |
|---|
| [481] | 636 | |
|---|
| 637 | xy cross section output of surface heatfluxes (sensible and latent). (<span style="font-family: Courier New,Courier,monospace;">average_3d_data</span>, |
|---|
| 638 | <span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 639 | <span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 640 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 641 | <span style="font-family: Courier New,Courier,monospace;">read_3d_binary</span>, |
|---|
| 642 | <span style="font-family: Courier New,Courier,monospace;">sum_up_3d_data</span>, |
|---|
| 643 | <span style="font-family: Courier New,Courier,monospace;">write_3d_binary</span>)</td> |
|---|
| 644 | <td style="vertical-align: top; width: 189px;">average_3d_data, |
|---|
| [392] | 645 | check_for_restart, check_parameters, data_output_2d, data_output_3d, |
|---|
| 646 | data_output_dvrp, data_output_profiles, data_output_ptseries, |
|---|
| 647 | data_output_spectra, data_output_tseries, diffusion_u, diffusion_v, |
|---|
| 648 | diffusion_w, init_coupling, init_dvrp, init_grid, init_3d_model, |
|---|
| 649 | header, mbuild, modules, mrun, package_parin, parin, |
|---|
| 650 | prognostic_equations, read_3d_binary, read_var_list, subjob, |
|---|
| 651 | sum_up_3d_data, surface_coupler, timestep, time_integration, |
|---|
| 652 | user_check_parameters, user_data_output_2d, user_data_output_dvrp, |
|---|
| 653 | user_header, user_init_grid, write_3d_binary, write_var_list<br> |
|---|
| [481] | 654 | |
|---|
| [392] | 655 | <br> |
|---|
| [481] | 656 | |
|---|
| 657 | <span style="font-weight: bold;">new:</span> |
|---|
| 658 | set_particle_attributes, set_slicer_attributes_dvrp</td> |
|---|
| [392] | 659 | </tr> |
|---|
| 660 | <tr> |
|---|
| [481] | 661 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| [392] | 662 | </td> |
|---|
| [481] | 663 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| [392] | 664 | </td> |
|---|
| [481] | 665 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| [392] | 666 | </td> |
|---|
| [481] | 667 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| [392] | 668 | </td> |
|---|
| [481] | 669 | <td style="vertical-align: top; width: 27px;">C<br> |
|---|
| 670 | </td> |
|---|
| 671 | <td style="vertical-align: top; width: 497px;">Output of messages replaced by |
|---|
| 672 | message handling routine. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>, |
|---|
| 673 | <span style="font-family: Courier New,Courier,monospace;">advec_s_bc</span>, |
|---|
| 674 | <span style="font-family: Courier New,Courier,monospace;">buoyancy</span>, |
|---|
| 675 | <span style="font-family: Courier New,Courier,monospace;">calc_spectra</span>, |
|---|
| 676 | <span style="font-family: Courier New,Courier,monospace;">check_for_restart</span>, |
|---|
| 677 | <span style="font-family: Courier New,Courier,monospace;">check_open</span>, |
|---|
| 678 | <span style="font-family: Courier New,Courier,monospace;">coriolis</span>, |
|---|
| 679 | <span style="font-family: Courier New,Courier,monospace;">cpu_log</span>, |
|---|
| 680 | <span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 681 | <span style="font-family: Courier New,Courier,monospace;">data_output_3d</span>, |
|---|
| 682 | <span style="font-family: Courier New,Courier,monospace;">data_output_dvrp</span>, |
|---|
| 683 | <span style="font-family: Courier New,Courier,monospace;">data_output_profiles</span>, |
|---|
| 684 | <span style="font-family: Courier New,Courier,monospace;">data_output_spectra</span>, |
|---|
| 685 | <span style="font-family: Courier New,Courier,monospace;">fft_xy</span>, |
|---|
| 686 | <span style="font-family: Courier New,Courier,monospace;">flow_statistics</span>, |
|---|
| 687 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 688 | <span style="font-family: Courier New,Courier,monospace;">init_1d_model</span>, |
|---|
| 689 | <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>, |
|---|
| 690 | <span style="font-family: Courier New,Courier,monospace;">init_dvrp</span>, |
|---|
| 691 | <span style="font-family: Courier New,Courier,monospace;">init_grid</span>, |
|---|
| 692 | <span style="font-family: Courier New,Courier,monospace;">init_particles</span>, |
|---|
| 693 | <span style="font-family: Courier New,Courier,monospace;">init_pegrid</span>, |
|---|
| 694 | <span style="font-family: Courier New,Courier,monospace;">netcdf</span>, |
|---|
| 695 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 696 | <span style="font-family: Courier New,Courier,monospace;">plant_canopy_model</span>, |
|---|
| 697 | <span style="font-family: Courier New,Courier,monospace;">poisfft_hybrid</span>, |
|---|
| 698 | <span style="font-family: Courier New,Courier,monospace;">poismg</span>, |
|---|
| 699 | <span style="font-family: Courier New,Courier,monospace;">read_3d_binary</span>, |
|---|
| 700 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 701 | <span style="font-family: Courier New,Courier,monospace;">surface_coupler</span>, |
|---|
| 702 | <span style="font-family: Courier New,Courier,monospace;">temperton_fft</span>, |
|---|
| 703 | <span style="font-family: Courier New,Courier,monospace;">timestep</span>, |
|---|
| 704 | <span style="font-family: Courier New,Courier,monospace;">user_actions</span>, |
|---|
| 705 | <span style="font-family: Courier New,Courier,monospace;">user_data_output_dvrp</span>, |
|---|
| 706 | <span style="font-family: Courier New,Courier,monospace;">user_dvrp_coltab</span>, |
|---|
| 707 | <span style="font-family: Courier New,Courier,monospace;">user_init_grid</span>, |
|---|
| 708 | <span style="font-family: Courier New,Courier,monospace;">user_init_plant_canopy</span>, |
|---|
| 709 | <span style="font-family: Courier New,Courier,monospace;">user_parin</span>, |
|---|
| 710 | <span style="font-family: Courier New,Courier,monospace;">user_read_restart_data</span>, |
|---|
| 711 | <span style="font-family: Courier New,Courier,monospace;">user_spectra</span>)<br> |
|---|
| [392] | 712 | |
|---|
| 713 | <br> |
|---|
| 714 | |
|---|
| [481] | 715 | Output of NetCDF messages with aid of message handling routine. (<span style="font-family: Courier New,Courier,monospace;">check_open</span>, |
|---|
| 716 | <span style="font-family: Courier New,Courier,monospace;">close_file</span>, |
|---|
| 717 | <span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 718 | <span style="font-family: Courier New,Courier,monospace;">data_output_3d</span>, |
|---|
| 719 | <span style="font-family: Courier New,Courier,monospace;">data_output_profiles</span>, |
|---|
| 720 | <span style="font-family: Courier New,Courier,monospace;">data_output_ptseries</span>, |
|---|
| 721 | <span style="font-family: Courier New,Courier,monospace;">data_output_spectra</span>, |
|---|
| 722 | <span style="font-family: Courier New,Courier,monospace;">data_output_tseries</span>, |
|---|
| 723 | <span style="font-family: Courier New,Courier,monospace;">netcdf</span><span style="font-family: Courier New,Courier,monospace;"></span>)<br> |
|---|
| 724 | |
|---|
| [392] | 725 | <br> |
|---|
| 726 | |
|---|
| [481] | 727 | __lcmuk changed to __lc to avoid problems with Intel compiler on |
|---|
| 728 | sgi-ice. (<span style="font-family: Courier New,Courier,monospace;">poisfft</span>)<br> |
|---|
| 729 | |
|---|
| [392] | 730 | <br> |
|---|
| [481] | 731 | |
|---|
| 732 | For extended NetCDF files, the updated title attribute includes an |
|---|
| 733 | update of time_average_text where appropriate. (<span style="font-family: Courier New,Courier,monospace;">netcdf</span>)<br> |
|---|
| 734 | |
|---|
| [392] | 735 | <br> |
|---|
| [481] | 736 | |
|---|
| [392] | 737 | In case of restart runs without extension, initial profiles are not |
|---|
| 738 | written to NetCDF-file anymore. So far, time axis always started at |
|---|
| [481] | 739 | t=0. (<span style="font-family: Courier New,Courier,monospace;">data_output_profiles</span>, |
|---|
| 740 | <span style="font-family: Courier New,Courier,monospace;">modules</span>, |
|---|
| 741 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 742 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 743 | |
|---|
| [392] | 744 | <br> |
|---|
| [481] | 745 | |
|---|
| 746 | <span style="font-family: Courier New,Courier,monospace;">initializing_actions</span>='<span style="font-style: italic;">read_data_for_recycling</span>' renamed to |
|---|
| 747 | '<span style="font-style: italic;">cyclic_fill</span>'. A cyclic fill |
|---|
| 748 | can now <br> |
|---|
| 749 | |
|---|
| 750 | be used independent of <span style="font-family: Courier New,Courier,monospace;">turbulent_inflow</span>. |
|---|
| 751 | (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 752 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 753 | <span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>)<br> |
|---|
| 754 | |
|---|
| [392] | 755 | <br> |
|---|
| [481] | 756 | |
|---|
| [392] | 757 | 2 NetCDF error numbers changed. (<span style="font-family: Courier New,Courier,monospace;">data_output_3d</span>)<br> |
|---|
| [481] | 758 | |
|---|
| [392] | 759 | <br> |
|---|
| [481] | 760 | |
|---|
| [392] | 761 | A link to the webspage appendix_a.html is printed for further |
|---|
| 762 | information about possible reasons of the error that appeared. (message)<br> |
|---|
| [481] | 763 | |
|---|
| [392] | 764 | <br> |
|---|
| [481] | 765 | |
|---|
| [392] | 766 | Temperature gradient criterion for estimating the boundary layer height |
|---|
| 767 | replaced by the gradient criterion of Sullivan et al. (1998). (<span style="font-family: Courier New,Courier,monospace;">flow_statistics</span>)<br> |
|---|
| [481] | 768 | |
|---|
| [392] | 769 | <br> |
|---|
| [481] | 770 | |
|---|
| 771 | NetCDF unit attribute in timeseries output in case of statistic regions |
|---|
| 772 | added. (<span style="font-family: Courier New,Courier,monospace;">netcdf</span>)<br> |
|---|
| 773 | |
|---|
| [392] | 774 | <br> |
|---|
| [481] | 775 | |
|---|
| 776 | Maximum number of tails is calculated from maximum number of particles |
|---|
| 777 | and <span style="font-family: Courier New,Courier,monospace;">skip_particles_for_tail</span>. |
|---|
| 778 | (<span style="font-family: Courier New,Courier,monospace;">init_particles</span>)<br> |
|---|
| 779 | |
|---|
| [392] | 780 | <br> |
|---|
| [481] | 781 | |
|---|
| 782 | Value of <span style="font-family: Courier New,Courier,monospace;">vertical_particle_advection</span> |
|---|
| 783 | is allowed to differ for each particle group. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>, |
|---|
| 784 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 785 | <span style="font-family: Courier New,Courier,monospace;">modules</span>) |
|---|
| [392] | 786 | <br> |
|---|
| [481] | 787 | |
|---|
| [392] | 788 | <br> |
|---|
| [481] | 789 | |
|---|
| 790 | First constant in array <span style="font-family: Courier New,Courier,monospace;">den</span> also |
|---|
| 791 | defined as type double. (<span style="font-family: Courier New,Courier,monospace;">eqn_state_seawater</span>)<br> |
|---|
| 792 | |
|---|
| [392] | 793 | <br> |
|---|
| [481] | 794 | |
|---|
| 795 | Parameter <span style="font-family: Courier New,Courier,monospace;">dvrp_psize</span> |
|---|
| 796 | moved from <span style="font-family: Courier New,Courier,monospace;">particles_par</span> |
|---|
| 797 | to <span style="font-family: Courier New,Courier,monospace;">dvrp_graphics_par</span>. |
|---|
| 798 | (<span style="font-family: Courier New,Courier,monospace;">package_parin</span>)<br> |
|---|
| 799 | |
|---|
| [392] | 800 | <br> |
|---|
| [481] | 801 | |
|---|
| 802 | <span style="font-family: Courier New,Courier,monospace;">topography_grid_convention</span> |
|---|
| 803 | moved from <span style="font-family: Courier New,Courier,monospace;">userpar</span> |
|---|
| 804 | to <span style="font-family: Courier New,Courier,monospace;">inipar</span> |
|---|
| 805 | (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>, |
|---|
| 806 | <span style="font-family: Courier New,Courier,monospace;">header</span>, |
|---|
| 807 | <span style="font-family: Courier New,Courier,monospace;">parin</span>, |
|---|
| 808 | <span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 809 | <span style="font-family: Courier New,Courier,monospace;">user_check_parameters</span>, |
|---|
| 810 | <span style="font-family: Courier New,Courier,monospace;">user_header</span>, |
|---|
| 811 | <span style="font-family: Courier New,Courier,monospace;">user_init_grid</span>, |
|---|
| 812 | <span style="font-family: Courier New,Courier,monospace;">user_parin</span>, |
|---|
| 813 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 814 | |
|---|
| [392] | 815 | <br> |
|---|
| [481] | 816 | |
|---|
| 817 | Default value of <span style="font-family: Courier New,Courier,monospace;">grid_matching</span> |
|---|
| 818 | changed to '<span style="font-style: italic;">strict</span>'. (<span style="font-family: Courier New,Courier,monospace;">modules</span>)<br> |
|---|
| 819 | |
|---|
| 820 | <br> |
|---|
| 821 | |
|---|
| 822 | Adjustments for runs on lcxt4 (necessary due to a software update on |
|---|
| 823 | CRAY) and for coupled runs on ibmy. (<span style="font-family: Courier New,Courier,monospace;">mrun</span>, <span style="font-family: Courier New,Courier,monospace;">subjob</span>)</td> |
|---|
| 824 | <td style="vertical-align: top; width: 189px;">advec_particles, |
|---|
| 825 | advec_s_bc, |
|---|
| [392] | 826 | buoyancy, calc_spectra, check_for_restart, check_open, |
|---|
| 827 | check_parameters, close_file, coriolis, cpu_log, data_output_2d, |
|---|
| 828 | data_output_3d, data_output_dvrp, data_output_profiles, |
|---|
| 829 | data_output_ptseries, data_output_spectra, data_output_tseries, |
|---|
| 830 | eqn_state_seawater, fft_xy, flow_statistics, header, init_1d_model, |
|---|
| 831 | init_3d_model, init_dvrp, init_grid, init_particles, init_pegrid, |
|---|
| 832 | message, mrun, netcdf, package_parin, parin, plant_canopy_model, |
|---|
| 833 | poisfft, poisfft_hybrid, poismg, read_3d_binary, read_var_list, subjob, |
|---|
| [481] | 834 | surface_coupler, temperton_fft, timestep, |
|---|
| 835 | user_actions,user_check_parameters, user_data_output_dvrp, |
|---|
| 836 | user_dvrp_coltab, user_header, user_init_grid, user_init_plant_canopy, |
|---|
| 837 | user_parin, user_read_restart_data, user_spectra, write_var_list </td> |
|---|
| [392] | 838 | </tr> |
|---|
| 839 | <tr> |
|---|
| [481] | 840 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| [392] | 841 | </td> |
|---|
| [481] | 842 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| [392] | 843 | </td> |
|---|
| [481] | 844 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| [392] | 845 | </td> |
|---|
| [481] | 846 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| [392] | 847 | </td> |
|---|
| [482] | 848 | <td style="vertical-align: top; width: 27px;">B<br> |
|---|
| [481] | 849 | </td> |
|---|
| 850 | <td style="vertical-align: top; width: 497px;">Bugfix: Initial hydrostatic |
|---|
| 851 | pressure profile in case of ocean runs is now calculated in 5 iteration |
|---|
| 852 | steps. (<span style="font-family: Courier New,Courier,monospace;">init_ocean</span>)<br> |
|---|
| 853 | |
|---|
| [392] | 854 | <br> |
|---|
| [481] | 855 | |
|---|
| 856 | Bugfix: wrong sign in buoyancy production of ocean part in case of not |
|---|
| 857 | using the reference density (only in 3D routine <span style="font-family: Courier New,Courier,monospace;">production_e</span>). |
|---|
| 858 | (<span style="font-family: Courier New,Courier,monospace;">production_e</span>)<br> |
|---|
| 859 | |
|---|
| [392] | 860 | <br> |
|---|
| [481] | 861 | |
|---|
| [392] | 862 | Bugfix: output of averaged 2d/3d quantities requires that an avaraging |
|---|
| 863 | interval has been set, respective error message is included. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>)<br> |
|---|
| [481] | 864 | |
|---|
| [392] | 865 | <br> |
|---|
| [481] | 866 | |
|---|
| 867 | Bugfix: Output on unit 14 only if requested by <span style="font-family: Courier New,Courier,monospace;">write_binary</span>. |
|---|
| 868 | (<span style="font-family: Courier New,Courier,monospace;">user_last_actions</span>)<br> |
|---|
| 869 | |
|---|
| [392] | 870 | <br> |
|---|
| [481] | 871 | |
|---|
| 872 | Bugfix to avoid zero division by <span style="font-family: Courier New,Courier,monospace;">km_neutral</span>. |
|---|
| 873 | (<span style="font-family: Courier New,Courier,monospace;">production_e</span>)<br> |
|---|
| 874 | |
|---|
| [392] | 875 | <br> |
|---|
| [481] | 876 | |
|---|
| [392] | 877 | Bugfix for extended NetCDF files: In order to avoid 'data mode' errors |
|---|
| [481] | 878 | if updated attributes are larger than their original size, <span style="font-family: Courier New,Courier,monospace;">NF90_PUT_ATT</span> |
|---|
| 879 | is called in 'define mode' enclosed by <span style="font-family: Courier New,Courier,monospace;">NF90_REDEF</span> |
|---|
| 880 | and <span style="font-family: Courier New,Courier,monospace;">NF90_ENDDEF</span> |
|---|
| [392] | 881 | calls. This implies a possible performance loss; an alternative |
|---|
| 882 | strategy would be to ensure equal attribute size in a job chain. (<span style="font-family: Courier New,Courier,monospace;">netcdf</span>)<br> |
|---|
| [481] | 883 | |
|---|
| [392] | 884 | <br> |
|---|
| [481] | 885 | |
|---|
| [392] | 886 | Bugfix: correction of initial volume flow for non-flat topography. (<span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>)<br> |
|---|
| [481] | 887 | |
|---|
| [392] | 888 | <br> |
|---|
| [481] | 889 | |
|---|
| [392] | 890 | Bugfix: zero initialization of arrays within buildings for '<span style="font-style: italic;">cyclic_fill</span>'. (<span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>)<br> |
|---|
| [481] | 891 | |
|---|
| [392] | 892 | <br> |
|---|
| [481] | 893 | |
|---|
| 894 | Bugfix: <span style="font-family: Courier New,Courier,monospace;">to_be_resorted</span> |
|---|
| 895 | => <span style="font-family: Courier New,Courier,monospace;">s_av</span> |
|---|
| 896 | for time-averaged scalars. (<span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>, |
|---|
| 897 | <span style="font-family: Courier New,Courier,monospace;">data_output_3d</span>)<br> |
|---|
| 898 | |
|---|
| [392] | 899 | <br> |
|---|
| [481] | 900 | |
|---|
| 901 | Bugfix: avoid that <span style="font-family: Courier New,Courier,monospace;">ngp_2dh_s_inner</span> |
|---|
| 902 | becomes zero. (<span style="font-family: Courier New,Courier,monospace;">init_3_model</span>)<br> |
|---|
| 903 | |
|---|
| [392] | 904 | <br> |
|---|
| [481] | 905 | |
|---|
| [392] | 906 | Typographical error: unit of wpt in dots_unit. (<span style="font-family: Courier New,Courier,monospace;">modules</span>)<br> |
|---|
| [481] | 907 | |
|---|
| [392] | 908 | <br> |
|---|
| [481] | 909 | |
|---|
| [392] | 910 | Bugfix: error in check, if particles moved further than one subdomain |
|---|
| 911 | length. This check must not be applied for newly released particles. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>)<br> |
|---|
| [481] | 912 | |
|---|
| [392] | 913 | <br> |
|---|
| [481] | 914 | |
|---|
| [392] | 915 | Bugfix: several tail counters are initialized, <span style="font-family: Courier New,Courier,monospace;">particle_tail_coordinates</span> |
|---|
| 916 | is only written to file if its third index is > 0, arrays for tails |
|---|
| 917 | are allocated with a minimum size of 10 tails if there is no tail |
|---|
| [481] | 918 | initially. (<span style="font-family: Courier New,Courier,monospace;">advec_particles</span>, |
|---|
| 919 | <span style="font-family: Courier New,Courier,monospace;">init_particles</span><span style="font-family: Courier New,Courier,monospace;"></span>)<br> |
|---|
| 920 | |
|---|
| [392] | 921 | <br> |
|---|
| [481] | 922 | |
|---|
| [392] | 923 | Bugfix: pressure included for profile output. (<span style="font-family: Courier New,Courier,monospace;">check_parameters</span>)<br> |
|---|
| [481] | 924 | |
|---|
| [392] | 925 | <br> |
|---|
| [481] | 926 | |
|---|
| 927 | Bugfix: Type of <span style="font-family: Courier New,Courier,monospace;">count</span> and <span style="font-family: Courier New,Courier,monospace;">count_rate</span> |
|---|
| 928 | changed to default <span style="font-family: Courier New,Courier,monospace;">INTEGER</span> on |
|---|
| 929 | NEC machines. (<span style="font-family: Courier New,Courier,monospace;">cpu_log</span>)<br> |
|---|
| 930 | |
|---|
| [392] | 931 | <br> |
|---|
| [481] | 932 | |
|---|
| 933 | Bugfix: output of particle time series only if particle advection is |
|---|
| 934 | switched on. (<span style="font-family: Courier New,Courier,monospace;">time_integration</span>)<br> |
|---|
| 935 | |
|---|
| [392] | 936 | <br> |
|---|
| [481] | 937 | |
|---|
| 938 | Bugfix: qsws was calculated in case of <span style="font-family: Courier New,Courier,monospace;">constant heatflux</span> |
|---|
| 939 | = <span style="font-family: Courier New,Courier,monospace;">.FALSE.</span>. |
|---|
| 940 | (<span style="font-family: Courier New,Courier,monospace;">prandtl_fluxes</span>)<br> |
|---|
| 941 | |
|---|
| [392] | 942 | <br> |
|---|
| [481] | 943 | |
|---|
| 944 | Bugfix: averaging along z is not allowed for 2d quantities (e.g. u* and |
|---|
| 945 | z0). (<span style="font-family: Courier New,Courier,monospace;">data_output_2d</span>)<br> |
|---|
| 946 | |
|---|
| [392] | 947 | <br> |
|---|
| [481] | 948 | |
|---|
| [392] | 949 | Typographical errors. (<span style="font-family: Courier New,Courier,monospace;">netcdf</span>)<br> |
|---|
| [481] | 950 | |
|---|
| [392] | 951 | <br> |
|---|
| [481] | 952 | |
|---|
| 953 | If the inversion height calculated by the prerun is zero, |
|---|
| 954 | inflow_damping_height must be explicitly specified. (<span style="font-family: Courier New,Courier,monospace;">init_3d_model</span>)<br> |
|---|
| 955 | |
|---|
| [392] | 956 | <br> |
|---|
| [481] | 957 | |
|---|
| [392] | 958 | Small bugfix concerning 3d 64bit netcdf output format. (<span style="font-family: Courier New,Courier,monospace;">header</span>)<br> |
|---|
| [481] | 959 | |
|---|
| [392] | 960 | <br> |
|---|
| [481] | 961 | |
|---|
| [392] | 962 | Bugfix: <span style="font-family: Courier New,Courier,monospace;">dt_fixed</span> |
|---|
| 963 | removed from the restart file, because otherwise, no change from a |
|---|
| [481] | 964 | fixed to a variable timestep would be possible in restart runs. (<span style="font-family: Courier New,Courier,monospace;">read_var_list</span>, |
|---|
| 965 | <span style="font-family: Courier New,Courier,monospace;">write_var_list</span>)<br> |
|---|
| 966 | |
|---|
| [392] | 967 | <br> |
|---|
| [481] | 968 | |
|---|
| 969 | Bugfix: initial setting of <span style="font-family: Courier New,Courier,monospace;">time_coupling</span> |
|---|
| 970 | in coupled restart runs. (<span style="font-family: Courier New,Courier,monospace;">time_integration</span>)</td> |
|---|
| 971 | <td style="vertical-align: top; width: 189px;">advec_particles, |
|---|
| [392] | 972 | check_parameters, cpu_log, data_output_2d, data_output_3d, header, |
|---|
| 973 | init_3d_model, init_particles, init_ocean, modules, netcdf, |
|---|
| 974 | prandtl_fluxes, production_e, read_var_list, time_integration, |
|---|
| 975 | user_last_actions, write_var_list<br> |
|---|
| [481] | 976 | |
|---|
| 977 | </td> |
|---|
| 978 | </tr> |
|---|
| 979 | <tr> |
|---|
| 980 | <td style="vertical-align: top; width: 27px;">02/02/09<br> |
|---|
| 981 | </td> |
|---|
| 982 | <td style="vertical-align: top; width: 38px;">SR<br> |
|---|
| 983 | </td> |
|---|
| 984 | <td style="vertical-align: top; width: 42px;">228<br> |
|---|
| 985 | </td> |
|---|
| 986 | <td style="vertical-align: top; width: 40px;">3.6<br> |
|---|
| 987 | </td> |
|---|
| 988 | <td style="vertical-align: top; width: 27px;">N<br> |
|---|
| 989 | </td> |
|---|
| 990 | <td style="vertical-align: top; width: 497px;">This |
|---|
| 991 | release contains further additions, changes, and bugfixes for the |
|---|
| 992 | SGI-ICE system, as well as important changes like the splitting of the |
|---|
| 993 | user-interface into single files, a complete revision of the |
|---|
| 994 | pre-compiling mechanism allowing to use different make-depositories |
|---|
| 995 | simultaneously, and a revision of the reading-mechanism from restart |
|---|
| 996 | files, which has no more restrictions in case that the previous and |
|---|
| 997 | current run have different domain/subdomain sizes. A new handling of |
|---|
| 998 | all kind of output messages is introduced with this release and will be |
|---|
| 999 | applied to all existing messages within the next releases.<br> |
|---|
| 1000 | |
|---|
| [392] | 1001 | <br> |
|---|
| [481] | 1002 | |
|---|
| 1003 | <span style="font-weight: bold;">New features are:</span><br style="font-weight: bold;"> |
|---|
| 1004 | |
|---|
| 1005 | <br> |
|---|
| 1006 | |
|---|
| 1007 | Restart runs on SGI-ICE are working. (mrun)<br> |
|---|
| 1008 | |
|---|
| 1009 | 2d-decomposition is default on SGI-ICE systems. (init_pegrid)<br> |
|---|
| 1010 | |
|---|
| 1011 | <br> |
|---|
| 1012 | |
|---|
| 1013 | Ocean-atmosphere coupling realized with MPI-1. mrun adjusted for this |
|---|
| 1014 | case (-Y option). Check that PALM is called with <span style="font-family: Courier New,Courier,monospace;">mrun</span>-option |
|---|
| 1015 | "<span style="font-style: italic;">-K parallel</span>" for coupling. |
|---|
| 1016 | Adjustments in <span style="font-family: Courier New,Courier,monospace;">mrun</span>, <span style="font-family: Courier New,Courier,monospace;">mbuild</span>, and |
|---|
| 1017 | <span style="font-family: Courier New,Courier,monospace;">subjob</span> |
|---|
| 1018 | for lcxt4.<br> |
|---|
| 1019 | |
|---|
| 1020 | <br> |
|---|
| 1021 | |
|---|
| 1022 | DVRP arguments changed to single precision, mode pathlines added.<br> |
|---|
| 1023 | |
|---|
| 1024 | <br> |
|---|
| 1025 | |
|---|
| 1026 | User can add additional routines in files <span style="font-family: Courier New,Courier,monospace;">user_additional_routines</span>.<br> |
|---|
| 1027 | |
|---|
| 1028 | <br> |
|---|
| 1029 | |
|---|
| 1030 | User can check user parameters and deduce further quantities in <span style="font-family: Courier New,Courier,monospace;">user_check_parameters</span></td> |
|---|
| 1031 | <td style="vertical-align: top; width: 189px;">check_for_restart, |
|---|
| 1032 | check_parameters, data_output_dvrp, init_dvrp, init_pegrid, local_stop, |
|---|
| 1033 | modules, package_parin, palm, surface_coupler, timestep<br> |
|---|
| 1034 | |
|---|
| 1035 | <br> |
|---|
| 1036 | |
|---|
| 1037 | Makefile, mbuild, mrun, subjob<br> |
|---|
| 1038 | |
|---|
| 1039 | <br> |
|---|
| 1040 | |
|---|
| 1041 | <span style="font-weight: bold;">new:</span><br> |
|---|
| 1042 | |
|---|
| 1043 | init_coupling, user_additional_routines, user_check_parameters</td> |
|---|
| 1044 | </tr> |
|---|
| 1045 | <tr> |
|---|
| 1046 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| [392] | 1047 | </td> |
|---|
| [481] | 1048 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| 1049 | </td> |
|---|
| 1050 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| 1051 | </td> |
|---|
| 1052 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| 1053 | </td> |
|---|
| 1054 | <td style="vertical-align: top; width: 27px;">C<br> |
|---|
| 1055 | </td> |
|---|
| 1056 | <td style="vertical-align: top; width: 497px;">User interface has been |
|---|
| 1057 | split into single files.<br> |
|---|
| 1058 | |
|---|
| 1059 | <br> |
|---|
| 1060 | |
|---|
| 1061 | Type of variables <span style="font-family: Courier New,Courier,monospace;">count</span> and <span style="font-family: Courier New,Courier,monospace;">count_rate</span> |
|---|
| 1062 | changed to INTEGER(8) in order to avoid "out of range" problems, which |
|---|
| 1063 | result in measured negative time intervals. (cpu_log, local_tremain, |
|---|
| 1064 | local_tremain_ini)<br> |
|---|
| 1065 | |
|---|
| 1066 | <br> |
|---|
| 1067 | |
|---|
| 1068 | Reading mechanism from restart files |
|---|
| 1069 | completely revised. The subdomain/total domain size is now allowed to |
|---|
| 1070 | vary arbitrarily between the current and previous run. (read_var_list, |
|---|
| 1071 | read_3d_binary, user_read_restart_data)<br> |
|---|
| 1072 | |
|---|
| 1073 | <br> |
|---|
| 1074 | |
|---|
| 1075 | Precompilation mechanism (<span style="font-family: Courier New,Courier,monospace;">mbuild</span>) |
|---|
| 1076 | completely revised: the source-tarfile remains in the source directory (<span style="font-family: Courier New,Courier,monospace;">trunk/SOURCE</span>). |
|---|
| 1077 | One depository per block (given in the config-file) is created. Always |
|---|
| 1078 | all files from the source directory are copied to the respective |
|---|
| 1079 | depository. No additional file checks are done any more (mrun version |
|---|
| 1080 | 2.1). The depository name used contains the conditions given by <span style="font-family: Courier New,Courier,monospace;">mrun</span>-option |
|---|
| 1081 | "<span style="font-family: Courier New,Courier,monospace;">-K</span>". |
|---|
| 1082 | (mbuild, mrun)<br> |
|---|
| 1083 | |
|---|
| 1084 | <br> |
|---|
| 1085 | |
|---|
| 1086 | Output messages (including required stop of execution) can now be |
|---|
| 1087 | handled with the new subroutine <span style="font-family: Courier New,Courier,monospace;">message</span>. |
|---|
| 1088 | All output messages will be replaced by this routine step by step |
|---|
| 1089 | within the next revisions.<br> |
|---|
| 1090 | |
|---|
| 1091 | <br> |
|---|
| 1092 | |
|---|
| 1093 | Neumann boundary condition at <span style="font-family: Courier New,Courier,monospace;">k=nzb</span> is |
|---|
| 1094 | explicitly set for better reading, although this has been already done |
|---|
| 1095 | in boundary_conds. (advec_s_bc)<br> |
|---|
| 1096 | |
|---|
| 1097 | <br> |
|---|
| 1098 | |
|---|
| 1099 | Origin of the xy-coordinate system shifted from the center of the first |
|---|
| 1100 | grid cell (indices <span style="font-family: Courier New,Courier,monospace;">i=0</span>, <span style="font-family: Courier New,Courier,monospace;">j=0</span>) to the |
|---|
| 1101 | south-left corner of this cell. (netcdf) Topography definition |
|---|
| 1102 | according to new user parameter <span style="font-family: Courier New,Courier,monospace;">topography_grid_convention</span>. |
|---|
| 1103 | (init_grid, modules, user_header, user_init_grid, user_parin)</td> |
|---|
| 1104 | <td style="vertical-align: top; width: 189px;">advec_s_bc, |
|---|
| 1105 | check_parameters, cpu_log, init_grid, local_stop, local_tremain, |
|---|
| 1106 | local_tremain_ini, modules, netcdf, read_3d_binary, read_var_list, |
|---|
| 1107 | user_read_restart_data<br> |
|---|
| 1108 | |
|---|
| 1109 | <br> |
|---|
| 1110 | |
|---|
| 1111 | Makefile, mbuild, mrun<br> |
|---|
| 1112 | |
|---|
| 1113 | <br> |
|---|
| 1114 | |
|---|
| 1115 | <span style="font-weight: bold;">removed:</span><br> |
|---|
| 1116 | |
|---|
| 1117 | user_interface<br> |
|---|
| 1118 | |
|---|
| 1119 | <br> |
|---|
| 1120 | |
|---|
| 1121 | <span style="font-weight: bold;">new:</span><br> |
|---|
| 1122 | |
|---|
| 1123 | message, |
|---|
| 1124 | user_3d_data_averaging, user_actions, user_advec_particles, |
|---|
| 1125 | user_check_data_output, user_check_data_output_pr, user_data_output_2d, |
|---|
| 1126 | user_data_output_3d, user_data_output_dvrp, user_define_netcdf_grid, |
|---|
| 1127 | user_dvrp_coltab, user_header, user_init_3d_model, user_init, |
|---|
| 1128 | user_init_grid, user_init_particles, user_init_plant_canopy, |
|---|
| 1129 | user_last_actions, user_parin, user_parin, user_particle_attributes, |
|---|
| 1130 | user_read_restart_data, user_spectra, user_statistics</td> |
|---|
| [392] | 1131 | </tr> |
|---|
| [481] | 1132 | <tr> |
|---|
| 1133 | <td style="vertical-align: top; width: 27px;"><br> |
|---|
| 1134 | </td> |
|---|
| 1135 | <td style="vertical-align: top; width: 38px;"><br> |
|---|
| 1136 | </td> |
|---|
| 1137 | <td style="vertical-align: top; width: 42px;"><br> |
|---|
| 1138 | </td> |
|---|
| 1139 | <td style="vertical-align: top; width: 40px;"><br> |
|---|
| 1140 | </td> |
|---|
| [482] | 1141 | <td style="vertical-align: top; width: 27px;">B<br> |
|---|
| [481] | 1142 | </td> |
|---|
| 1143 | <td style="vertical-align: top; width: 497px;">Bugfix: array <span style="font-family: Courier New,Courier,monospace;">d</span> is |
|---|
| 1144 | reallocated in case that multigrid is used. (calc_spectra)<br> |
|---|
| [392] | 1145 | |
|---|
| [481] | 1146 | <br> |
|---|
| 1147 | |
|---|
| 1148 | Bugfixes for nonparallel execution. (check_for_restart, cpu_statistics, |
|---|
| 1149 | inflow_turbulence, timestep)<br> |
|---|
| 1150 | |
|---|
| 1151 | <br> |
|---|
| 1152 | |
|---|
| 1153 | Size of <span style="font-family: Courier New,Courier,monospace;">pf3d |
|---|
| 1154 | </span>adjusted to the required output size (1 gridpoint less, |
|---|
| 1155 | along all three dimensions), because output of a subset of the data (<span style="font-family: Courier New,Courier,monospace;">pf3d(nxa:nxe...)</span>) |
|---|
| 1156 | in the NF90_PUT_VAR statement caused segmentation fault with the INTEL |
|---|
| 1157 | compiler. (combine_plot_fields)<br> |
|---|
| 1158 | |
|---|
| 1159 | <br> |
|---|
| 1160 | |
|---|
| 1161 | Bugfix: error in <span style="font-family: Courier New,Courier,monospace;">zu</span> index in |
|---|
| 1162 | case of <span style="font-family: Courier New,Courier,monospace;">section_xy=-1</span>. |
|---|
| 1163 | (header)<br> |
|---|
| 1164 | |
|---|
| 1165 | <br> |
|---|
| 1166 | |
|---|
| 1167 | Inconsistency |
|---|
| 1168 | removed: as the thermal stratification is not taken into account for |
|---|
| 1169 | the evaluation of the wall fluxes at vertical walls, the eddy viscosity |
|---|
| 1170 | <span style="font-family: Courier New,Courier,monospace;">km</span> |
|---|
| 1171 | must not be used for the evaluation of the velocity gradients <span style="font-family: Courier New,Courier,monospace;">dudy</span>, <span style="font-family: Courier New,Courier,monospace;">dwdy</span>, <span style="font-family: Courier New,Courier,monospace;">dvdx</span> and <span style="font-family: Courier New,Courier,monospace;">dwdx</span>. |
|---|
| 1172 | (production_e)<br> |
|---|
| 1173 | |
|---|
| 1174 | <br> |
|---|
| 1175 | |
|---|
| 1176 | Bugfix in calculating <span style="font-family: Courier New,Courier,monospace;">k</span> index in |
|---|
| 1177 | case of oceans runs. (sort_particles)<br> |
|---|
| 1178 | |
|---|
| 1179 | <br> |
|---|
| 1180 | |
|---|
| 1181 | Bugfix: no output of particle concentration and radius unless particles |
|---|
| 1182 | have been started. (data_output_2d)<br> |
|---|
| 1183 | |
|---|
| 1184 | <br> |
|---|
| 1185 | |
|---|
| 1186 | Bugfix: reading of <span style="font-family: Courier New,Courier,monospace;">spectrum_x|y</span> |
|---|
| 1187 | from restart files ignored if total numbers of grid points do not |
|---|
| 1188 | match. (read_3d_binary)<br> |
|---|
| 1189 | |
|---|
| 1190 | <br> |
|---|
| 1191 | |
|---|
| 1192 | Bugfix: abort in case that absolute temperature is below zero. |
|---|
| 1193 | (init_cloud_physics)</td> |
|---|
| 1194 | <td style="vertical-align: top; width: 189px;">advec_particles, |
|---|
| 1195 | calc_spectra, check_for_restart, cpu_statistics, data_output_2d, |
|---|
| 1196 | header, inflow_turbulence, init_cloud_physics, production_e, |
|---|
| 1197 | read_3d_binary, timestep<br> |
|---|
| 1198 | |
|---|
| 1199 | <br> |
|---|
| 1200 | |
|---|
| 1201 | combine_plot_fields</td> |
|---|
| 1202 | </tr> |
|---|
| 1203 | </tbody> |
|---|
| 1204 | </table> |
|---|
| 1205 | <b><blink></blink></b><br> |
|---|
| [62] | 1206 | <br> |
|---|
| 1207 | <h2><a name="Kapitel2.0"></a>2.0 How |
|---|
| [493] | 1208 | to change the source |
|---|
| 1209 | code and how to document modifications<br> |
|---|
| 1210 | </h2>Currently |
|---|
| [392] | 1211 | (Sep 23rd, 2009), only selected users are allowed to commit changes to |
|---|
| [493] | 1212 | the repository. Rules given below are preliminary, until we have switched to the "trac"-System.<br> |
|---|
| 1213 | <br> |
|---|
| 1214 | <ol> |
|---|
| 1215 | <li>Change source code in your current working copy. Document changes in the respective file headers unter "<span style="font-family: Courier New,Courier,monospace;">Current revisions:</span>". |
|---|
| 1216 | Additionally, document all changes in a local file (e.g. |
|---|
| 1217 | ~/palm/current_version/CURRENT_MODIFICATIONS), including the files that |
|---|
| 1218 | have been changed. Classify changes in three cases, new (N), changed |
|---|
| 1219 | (C), and bugfix (B). <span style="font-weight: bold;">Try to be as short and as precise as possible in describing the changes!</span><br> |
|---|
| 1220 | <br> |
|---|
| 1221 | </li> |
|---|
| 1222 | <li>Test the changed version, unless it works sufficiently.<br> |
|---|
| 1223 | <br> |
|---|
| 1224 | </li> |
|---|
| 1225 | |
|---|
| 1226 | <li>Commit the changes to the repository<br> |
|---|
| 1227 | <br> |
|---|
| 1228 | <span style="font-family: Courier New,Courier,monospace;"> svn commit -m "message string" trunk<br> |
|---|
| 1229 | </span><br> |
|---|
| 1230 | where "<span style="font-family: Courier New,Courier,monospace;">message string</span>" is a short, <span style="font-weight: bold;">meaningful</span> summary of the changes.<br> |
|---|
| 1231 | <br> |
|---|
| 1232 | Alternatively, in case that you have made quite a lot of changes, you |
|---|
| 1233 | can also give the contents of your file CURRENT_MODIFICATIONS as the |
|---|
| 1234 | log message:<br> |
|---|
| 1235 | <br> |
|---|
| 1236 | <span style="font-family: Courier New,Courier,monospace;"> svn commit -F CURRENT_MODIFICATIONS trunk</span><br> |
|---|
| 1237 | <br> |
|---|
| 1238 | </li> |
|---|
| 1239 | |
|---|
| 1240 | <li>Enter the changes into the technical documentation (under <span style="font-family: Courier New,Courier,monospace;">.../trunk/DOC/tec/technical_documentation.html</span>).<br> |
|---|
| 1241 | <br> |
|---|
| 1242 | </li> |
|---|
| 1243 | <li>Move the change comments in the file headers from "Current |
|---|
| 1244 | revisions:" to "Former revisions:". Set the current svn id in front of |
|---|
| 1245 | that.<br> |
|---|
| 1246 | <br> |
|---|
| 1247 | <span style="font-weight: bold;">Example:</span><br> |
|---|
| 1248 | <br> |
|---|
| 1249 | <span style="font-weight: bold;">before move:</span><br> |
|---|
| 1250 | <br> |
|---|
| 1251 | <span style="font-family: Courier New,Courier,monospace;">! Current revisions:</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1252 | <span style="font-family: Courier New,Courier,monospace;">! -----------------</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1253 | <span style="font-family: Courier New,Courier,monospace;">! <span style="font-weight: bold;">new dummy argument abcd</span></span><span style="font-family: Courier New,Courier,monospace;"></span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1254 | <span style="font-family: Courier New,Courier,monospace;">!</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1255 | <span style="font-family: Courier New,Courier,monospace;">! Former revisions:</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1256 | <span style="font-family: Courier New,Courier,monospace;">! -----------------</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| [516] | 1257 | <span style="font-family: Courier New,Courier,monospace;">! §Id: init_3d_model.f90 <span style="color: rgb(51, 102, 255); font-weight: bold;">425 2010-02-06 13:37:48Z raasch</span> §</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| [493] | 1258 | <span style="font-family: Courier New,Courier,monospace;">!</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1259 | <span style="font-family: Courier New,Courier,monospace;"></span><span style="font-family: Courier New,Courier,monospace;"></span><span style="font-family: Courier New,Courier,monospace;"></span><span style="font-family: Courier New,Courier,monospace;">! 407 2009-12-01 15:01:15Z maronga</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1260 | <span style="font-family: Courier New,Courier,monospace;">! var_ts is replaced by dots_max </span><br> |
|---|
| 1261 | <br> |
|---|
| 1262 | <span style="font-weight: bold;">after move:</span><br> |
|---|
| 1263 | <br> |
|---|
| 1264 | <span style="font-family: Courier New,Courier,monospace;">! Current revisions:</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1265 | |
|---|
| 1266 | <span style="font-family: Courier New,Courier,monospace;">! -----------------</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1267 | |
|---|
| 1268 | <span style="font-family: Courier New,Courier,monospace;">! </span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1269 | |
|---|
| 1270 | <span style="font-family: Courier New,Courier,monospace;">!</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1271 | |
|---|
| 1272 | <span style="font-family: Courier New,Courier,monospace;">! Former revisions:</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1273 | |
|---|
| 1274 | <span style="font-family: Courier New,Courier,monospace;">! -----------------</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1275 | |
|---|
| [516] | 1276 | <span style="font-family: Courier New,Courier,monospace;">! §Id: </span><span style="font-family: Courier New,Courier,monospace;">init_3d_model.f90 425 2010-02-06 13:37:48Z raasch</span><span style="font-family: Courier New,Courier,monospace;"> §<br> |
|---|
| [493] | 1277 | !</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| [516] | 1278 | <span style="font-family: Courier New,Courier,monospace;">! </span><span style="font-family: Courier New,Courier,monospace; color: rgb(51, 102, 255); font-weight: bold;">425 2010-02-06 13:37:48Z raasch</span><span style="font-family: Courier New,Courier,monospace;"><span style="font-weight: bold; color: rgb(51, 51, 255);"></span><br> |
|---|
| [493] | 1279 | ! </span><span style="font-family: Courier New,Courier,monospace; font-weight: bold;">new dummy argument abcd</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1280 | |
|---|
| 1281 | <span style="font-family: Courier New,Courier,monospace;">!</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| 1282 | |
|---|
| [516] | 1283 | <span style="font-family: Courier New,Courier,monospace;">! 407 2009-12-01 15:01:15Z maronga</span><br style="font-family: Courier New,Courier,monospace;"> |
|---|
| [493] | 1284 | |
|---|
| 1285 | <span style="font-family: Courier New,Courier,monospace;">! var_ts is replaced by dots_max<br> |
|---|
| [516] | 1286 | <br> |
|---|
| 1287 | <span style="font-family: Times New Roman,Times,serif;">Note that the "<span style="font-family: Courier New,Courier,monospace;">§</span>" |
|---|
| 1288 | in this example should read "$", but "$" cannot be used here, because |
|---|
| 1289 | otherwise svn would replace these entries after every change to this |
|---|
| 1290 | technical documentation.</span><br> |
|---|
| [493] | 1291 | </span><br> |
|---|
| 1292 | </li> |
|---|
| 1293 | <li>Commit the changes in the technical documentation and the file headers:<br> |
|---|
| 1294 | <br> |
|---|
| 1295 | <span style="font-family: Courier New,Courier,monospace;"> svn commit -m "last commit documented" trunk</span><br> |
|---|
| 1296 | <br> |
|---|
| 1297 | <br> |
|---|
| 1298 | </li> |
|---|
| 1299 | </ol> |
|---|
| 1300 | |
|---|
| [392] | 1301 | <h2> |
|---|
| [62] | 1302 | <a name="Kapitel3.0"></a>3.0 Description |
|---|
| 1303 | of selected parts of the |
|---|
| [5] | 1304 | model source code</h2> |
|---|
| [392] | 1305 | <b></b> |
|---|
| 1306 | <p>This section gives links to existing descriptions about special |
|---|
| 1307 | parts of the PALM code, e.g. special numerical methods that are used |
|---|
| 1308 | (including mathematical background). Documents are stored in single |
|---|
| 1309 | files with different formats. Some are in German (sorry for the |
|---|
| 1310 | inconvenience). |
|---|
| [62] | 1311 | <br> |
|---|
| 1312 | </p><ul> <li> <a name="UPS"></a>upstream-spline |
|---|
| [481] | 1313 | advection scheme ( <a href="methods/upstream_spline/ups.pdf">.pdf</a> |
|---|
| 1314 | , only in German)</li> <li> <a name="Cloud_physics"></a>cloud |
|---|
| 1315 | physics module ( <a href="methods/cloud_physics/cloud_physics.pdf">.pdf</a> |
|---|
| 1316 | )</li> |
|---|
| 1317 | <li> <a name="Bitkompression"></a>data compression with <a href="methods/bit_compression/bit_compression.html">bit shifting method</a> (only in German)<br> |
|---|
| 1318 | </li> |
|---|
| 1319 | <li>Runge-Kutta |
|---|
| 1320 | time integration scheme ( <a href="methods/runge_kutta/runge_kutta.pdf">.pdf</a> |
|---|
| 1321 | , only in German)</li> |
|---|
| 1322 | |
|---|
| [62] | 1323 | </ul><br> |
|---|
| [5] | 1324 | |
|---|
| [62] | 1325 | <br> |
|---|
| 1326 | <br> |
|---|
| 1327 | <br> |
|---|
| 1328 | <br> |
|---|
| 1329 | <br> |
|---|
| 1330 | <br> |
|---|
| 1331 | <br> |
|---|
| [139] | 1332 | </body></html> |
|---|
