<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">The reason grompp is failing is because there are some things it warns about (that's quite clear from your error message), and by default it will refuse to continue unless you explicitly tell it to. <div><div>Without the actual warning there is very little we can do to help you.</div><div><br></div><div>Sander</div><div><br><div><br></div><div><br><div><div>On Mar 30, 2010, at 16:18 , <a href="mailto:carolsilva1@cantv.net">carolsilva1@cantv.net</a> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><p>Carolina and Javier wrote:<br></p><div> <br class="webkit-block-placeholder"></div><!--[if gte mso 9]><xml> <w:WordDocument> <w:View>Normal</w:View> <w:Zoom>0</w:Zoom> <w:Compatibility> <w:BreakWrappedTables/> <w:SnapToGridInCell/> <w:WrapTextWithPunct/> <w:UseAsianBreakRules/> </w:Compatibility> <w:BrowserLevel>MicrosoftInternetExplorer4</w:BrowserLevel> </w:WordDocument> </xml><![endif]--> <!-- /* Style Definitions */ p.MsoNormal, li.MsoNormal, div.MsoNormal {mso-style-parent:""; margin:0in; margin-bottom:.0001pt; mso-pagination:widow-orphan; font-size:12.0pt; font-family:"Times New Roman"; mso-fareast-font-family:"Times New Roman";} a:link, span.MsoHyperlink {color:blue; text-decoration:underline; text-underline:single;} a:visited, span.MsoHyperlinkFollowed {color:purple; text-decoration:underline; text-underline:single;} pre {margin:0in; margin-bottom:.0001pt; mso-pagination:widow-orphan; font-size:10.0pt; font-family:"Courier New"; mso-fareast-font-family:"Times New Roman";} tt {font-family:"Courier New"; mso-ascii-font-family:"Courier New"; mso-fareast-font-family:"Times New Roman"; mso-hansi-font-family:"Courier New"; mso-bidi-font-family:"Courier New";} @page Section1 {size:8.5in 11.0in; margin:1.0in 1.25in 1.0in 1.25in; mso-header-margin:.5in; mso-footer-margin:.5in; mso-paper-source:0;} div.Section1 {page:Section1;} --> <!--[if gte mso 10]> <style> /* Style Definitions */ table.MsoNormalTable {mso-style-name:"Tabla normal"; mso-tstyle-rowband-size:0; mso-tstyle-colband-size:0; mso-style-noshow:yes; mso-style-parent:""; mso-padding-alt:0in 5.4pt 0in 5.4pt; mso-para-margin:0in; mso-para-margin-bottom:.0001pt; mso-pagination:widow-orphan; font-size:10.0pt; font-family:"Times New Roman";} </style> <![endif]--><pre><strong>We have the same error that</strong><strong> Nitu sharma and Wara Boon. </strong>We have successfully installed the gromacs 4.0.7, on Redhad 4 and 5 but the problem is the same. <strong>we review all, every step of the installation, but continued the error.</strong></pre><div> <br class="webkit-block-placeholder"></div><p class="MsoNormal">This program run on Redhad xxxx?</p> <pre>Who can help me to solve this problem?</pre><div><span style="font-size: 10pt"> </span><br class="webkit-block-placeholder"></div><div><span style="font-size: 10pt"> </span><br class="webkit-block-placeholder"></div> <pre><strong>nitu sharma wrote: (<a href="http://www.mail-archive.com/gmx-users@gromacs.org/msg19562.html">http://www.mail-archive.com/gmx-users@gromacs.org/msg19562.html</a>)</strong></pre><div><span style="font-size: 10pt"> </span><br class="webkit-block-placeholder"></div><p class="MsoNormal"><span style="font-size: 10pt">I have successfully installed the gromacs 4.0.3 it is working but the problem is when I want to run the gromacs demo during processing when I put the command "grompp -v" the output like this:</span></p><div><span style="font-size: 10pt"> </span><br class="webkit-block-placeholder"></div> <pre>There were 2 notes</pre><pre> </pre><pre>There was 1 warning</pre><pre> </pre><pre>-------------------------------------------------------</pre><pre>Program grompp, VERSION 4.0.3</pre><pre>Source code file: gmx_fatal.c, line: 481</pre><pre> </pre><pre>Fatal error:</pre><pre>Too many warnings (1), grompp terminated.</pre> <div style="border-width: medium medium 1pt; border-style: none none solid; border-color: -moz-use-text-color -moz-use-text-color windowtext; padding: 0in 0in 1pt"><pre style="border: medium none; padding: 0in">If you are sure all warnings are harmless, use the -maxwarn option.</pre></div> <pre> </pre><pre> </pre><pre><em>in these condition, gromacs generate "mdout.mdp" file but no generate</em></pre><pre>><em> "topol.tpr" file.</em></pre><pre>><em> </em></pre><pre>><em> </em></pre><pre>><em> when I used this options:<span> </span>grompp -v -maxwarn 1</em></pre><pre>><em> the pre-processing is done and the topol.tpr file is constracted.</em></pre><pre>><em> </em></pre><pre>><em> Is it possible and correct to use of "-maxwarn 1" for run these</em></pre><pre>><em> tutorial example or not?!?</em></pre><pre><em> </em></pre><pre><strong>wara boon wrote: <a href="http://oldwww.gromacs.org/pipermail/gmx-users/2009-June/042751.html">http://oldwww.gromacs.org/pipermail/gmx-users/2009-June/042751.html</a></strong></pre><pre> </pre><pre><em>I pull molecule into membrane by MD simulations but it error about</em></pre><pre><em>Program grompp_mpi, VERSION 4.0.2</em></pre><pre>><em> </em></pre><pre>><em> Source code file: gmx_fatal.c, line: 481</em></pre><pre>><em> </em></pre><pre>><em><span> </span></em></pre><pre>><em> </em></pre><pre>><em> Fatal error:</em></pre><pre>><em> </em></pre><pre>><em> Too many warnings (1), grompp_mpi terminated.</em></pre><pre>><em> </em></pre><pre>><em> If you are sure all warnings are harmless, use the -maxwarn option.</em></pre>
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