source: palm/trunk/DOC/misc/Tsubame.html @ 129

Last change on this file since 129 was 129, checked in by letzel, 16 years ago

prognostic_equations include the respective wall_*flux in the parameter list of
calls of diffusion_s. Same as before, only the values of wall_heatflux(0:4)
can be assigned. At present, wall_humidityflux, wall_qflux, wall_salinityflux,
wall_scalarflux are kept zero. diffusion_s uses the respective wall_*flux
instead of wall_heatflux. This update serves two purposes:

  • it avoids errors in calculations with humidity/scalar/salinity and prescribed

non-zero wall_heatflux,

  • it prepares PALM for a possible assignment of wall fluxes of

humidity/scalar/salinity in a future release.

Bugfix: assignment of fluxes at walls

Updates to documentation:

Default for mrun options -q and -n is "sla3" for lctit. Queues bes1 and bes2
removed. DOC/misc/Tsubame.html updated.

Modified default paths (/work/...) for lctit in .mrun.config.default

  • Property svn:keywords set to Id
File size: 6.3 KB
1<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN">
3<xsscleaned_taghttp-equiv ="content-type" content="text/html; charset=windows-1252"></xsscleaned_taghttp-equiv><title>Tsubame</title><style>
5@page { size: 21cm 29.7cm }
8<body style="direction: ltr;" lang="en-US"> <xsscleaned_tagname ="generator" content="StarOffice 7 (Win32)"></xsscleaned_tagname>
9<xsscleaned_tagname ="author" content="Siegfried Raasch"></xsscleaned_tagname>
10<xsscleaned_tagname ="created" content="20040809;13460943"></xsscleaned_tagname>
11<xsscleaned_tagname ="changed" content="20041112;15085727"></xsscleaned_tagname>
12<xsscleaned_tagname ="keywords" content="parallel LES model"></xsscleaned_tagname>
13<h3 style="line-height: 100%;">Tsubame</h3>
14<p style="line-height: 100%;">This document contains local
15support information for PALM users on the Linux Cluster <span style="font-weight: bold;">Tsubame</span> of the Tokyo
16Institute of Technology, Tokyo, Japan (<a href=""></a>).
17Japanese and English user manuals are available for download (<a href=""></a>).</p><h4>Subversion</h4><p><span style="text-decoration: underline;">Installation:</span><br>Please
18install a recent version of subversion or simply copy&nbsp;<code><span style="font-family: Courier New,Courier,monospace;">svn-tyamanas.tgz</span></code>
19(subversion 1.4.3) from&nbsp;<code><span style="font-family: Courier New,Courier,monospace;">/work</span></code>
20on Tsubame (login). By using following commands subversion will be
21installed under your home directory.</p><code><span style="font-family: Courier New,Courier,monospace;">cd ~<br>cp /work/</span><span style="font-family: Courier New,Courier,monospace;">svn-tyamanas.tgz
22~</span><br></code><span style="font-family: Courier New,Courier,monospace;"><code>tar
23xvzf&nbsp;svn-tyamanas.tgz</code><br></span><p><span style="font-family: Courier New,Courier,monospace;"></span>The
24following lines should be added to <code><span style="font-family: Courier New,Courier,monospace;">.profile</span></code>
25(and should be executed manually on first-time installation):<span style="font-family: Courier New,Courier,monospace;"></span></p><span style="font-family: Courier New,Courier,monospace;"><code>export
26LD_LIBRARY_PATH=$HOME/svn/lib</code></span><code><br style="font-family: Courier New,Courier,monospace;"><span style="font-family: Courier New,Courier,monospace;">
27export PATH=$HOME/svn/bin:$PATH</span></code><span style="text-decoration: underline;"><br></span><p><span style="text-decoration: underline;">Usage:</span><br>Since
28Tsubame is located behind a firewall, the usual&nbsp;address  <a class="fixed" href="svn://" target="_blank">svn://</a>&nbsp;is unreachable from Tsubame. Instead, please login to media-o
29and use&nbsp;<a class="fixed" href="svn://" target="_blank">svn://</a>.
30This port works in both directions, i.e. for <code>svn update</code> as well as <code>svn commit</code> commands.</p><h4>Batch system<br></h4><p>The implementation of the <span style="font-weight: bold;">n1ge</span> command on
31Tsubame requires modifications to&nbsp;<span style="font-weight: bold;">mrun</span> and <span style="font-weight: bold;">subjob</span> for PALM to
32run on Tsubame. Since <span style="font-weight: bold;">mrun</span>
33must be executed on one PE only, a one-PE "submitting job" is created
34when the user calls <span style="font-weight: bold;">mrun</span>.
35At the time when this "submitting job" is actually executed, it starts
36the main PALM job in the foreground. However, this only works if
37enough resources are available at that time. Therefore PALM users on
38Tsubame are advised to consider the queue load of the available queues
39for the main job (<code>qstat -g c</code>) before job submission.</p><p>According
40to the current queue configuration (<a href=""></a>),
41the following <span style="font-weight: bold;">mrun</span>
42options are available:</p><table style="text-align: left; width: 100%;" border="1" cellpadding="2" cellspacing="2"><tbody><tr><td><span style="font-weight: bold;">mrun</span> option</td><td>explanation</td><td>possible
43values</td><td>default value</td></tr><tr><td><code>-q</code></td><td>queue
44name for main job</td><td>novice,&nbsp;sla1, sla2,
45sla3, RAM64GB, RAM128GB</td><td>sla3</td></tr><tr><td><code>-n</code></td><td>queue
46name for "submitting job" (always runs on 1 PE only)</td><td>novice,
47sla1, sla2, sla3</td><td>sla3</td></tr><tr><td><code>-g</code></td><td>group number</td><td>name of the N1GE_GROUP that is required to utilize the bes or sla queues</td><td>none</td></tr></tbody></table><p>Note that the default value "sla3" of the
48<span style="font-weight: bold;">mrun</span> option <code>-q</code> may
49not always be the best choice. For code development, debugging or short
50test runs the value "novice" for both options may be suitable.
51Production runs should use the respective production queues (see <a href=""></a> for details).&nbsp;</p><p>The computer center advised us that due to restrictions of the batch system the value "novice" should not be mixed with the other queues. Please specify either a combination of sla<span style="font-style: italic;">n</span> for <code>-n</code> and sla<span style="font-style: italic;">n</span> or RAM<span style="font-style: italic;">*</span> for <code>-q</code>, or specify the combination "novice" + "novice".<span style="font-style: italic;"></span></p><p>The <span style="font-weight: bold;">mrun</span> option <code><span style="font-family: Courier New,Courier,monospace;">-t</span></code>
52contains the CPU time demand for the main job in s which will be
53automatically converted into min for the <span style="font-weight: bold;">n1ge</span> command. The
54option <code><span style="font-family: Courier New,Courier,monospace;">-m</span></code>
55contains the memory demand for the main job in MB which will be
56automatically converted into GB for the <span style="font-weight: bold;">n1ge</span> command.</p><br><i>Last
57change:</i>&nbsp; $Id: Tsubame.html 129 2007-10-30 12:12:24Z letzel $</body></html>
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