Hi,<div>Thanks for help.</div><div>-Command line was:</div><div>Number of (3-Atomic) solvent molecules:4256</div><div>Replacing solvent molecule 499 (atom 2784) with Na</div><div>-Group selected was: 12 (SOL)</div><div>-Gromacs version I am using is 3.3.1<br>
<br><div class="gmail_quote">On Mon, May 3, 2010 at 4:31 PM, Krzysztof Mlynarczyk <span dir="ltr"><<a href="mailto:mitomaster@gmail.com">mitomaster@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
Please post more details including the following:<br><ul><li>What is the exact command line?</li><li>What group do you select as a "continuous solvent"? I know it might sound weird to ask this but what I learned while teaching students is that these questions really should be asked when there are problems.<br>
</li><li>Which version of Gromacs are you using?<br></li></ul><br><div class="gmail_quote">2010/5/3 priyanka panwar <span dir="ltr"><<a href="mailto:priyankapanwar20@gmail.com" target="_blank">priyankapanwar20@gmail.com</a>></span><br>
<blockquote class="gmail_quote" style="margin:0pt 0pt 0pt 0.8ex;border-left:1px solid rgb(204, 204, 204);padding-left:1ex"><div class="im"><span style="font-family:arial,sans-serif;font-size:13px;border-collapse:collapse">I am using Gromacs for Simulation of Insulin.I have generated most of the files but unable to generate the ions.pdb file.The system is becoming idle after the Selection command. A line on the command prompt appears as "replacing solvent molecule with Na" and remains as such for many hours. Is this step really takes too much time or I am doing something wrong. <br>
Thanks</span>
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