On Mon, Sep 19, 2011 at 11:31 AM, Jianguo Li <span dir="ltr"><<a href="mailto:ljggmx@yahoo.com.sg">ljggmx@yahoo.com.sg</a>></span> wrote:<br><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
<div><div style="color:#000;background-color:#fff;font-family:times new roman, new york, times, serif;font-size:12pt"><div><span>I met the similar problem before, sometimes my job writes output, sometimes not. My cluster administrator fixed the problem and they told me that there </span>were some problem at some compute nodes which my job unfortunately was dispatched to.</div>
</div></div></blockquote><div><br>Last time I contacted the administrator, he told me it's due to the restriction he set, I mean, I could only use limited nodes.<br>He loosed the configuration a bit and it worked at that time. <br>
<br>But later it has happened, I don't have convincing confidence to email root again. <br>So just try to figure out slowly. <br><br>Thanks for your answering, <br> </div><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<div><div style="color: rgb(0, 0, 0); background-color: rgb(255, 255, 255); font-family: times new roman,new york,times,serif; font-size: 12pt;"><div><br></div><div>Jianguo <br></div><div><br></div><div><br></div><div style="font-family:times new roman, new york, times, serif;font-size:12pt">
<div style="font-family:times new roman, new york, times, serif;font-size:12pt"><font size="2" face="Arial"><hr size="1"><b><span style="font-weight:bold">From:</span></b> lina <<a href="mailto:lina.lastname@gmail.com" target="_blank">lina.lastname@gmail.com</a>><br>
<b><span style="font-weight:bold">To:</span></b> Discussion list for GROMACS users <<a href="mailto:gmx-users@gromacs.org" target="_blank">gmx-users@gromacs.org</a>><br><b><span style="font-weight:bold">Sent:</span></b> Sunday, 18 September 2011 5:13
PM<br><b><span style="font-weight:bold">Subject:</span></b> [gmx-users] Re: about non-writing issue<br></font><div><div></div><div class="h5"><br><div>Hi,<br><br>It works now.<br><br>Not write (just based on guess) might <br>
the md.log step such as is 11140000<br>while use thread I noticed the actually run step started from 11135000<br><br>so I run until it can write to the md.log<br>
<br>then switch to 1 node to run for a while,<br><br>then switch to more nodes.<br><br>But there might be some reason there which I don't know.<br><br>Thanks,<br><br><div>On Sun, Sep 18, 2011 at 4:35 PM, lina <span dir="ltr"><<a rel="nofollow" href="mailto:lina.lastname@gmail.com" target="_blank">lina.lastname@gmail.com</a>></span> wrote:<br>
<blockquote style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi,<br><br>Very sporadically and also with high frequent, <br><br>The job I submitted only running without writing (this job is not un-started one, mainly one I stopped and rerun).<br>
<br>Before I thought I did not wait long enough, such as hours, but seriously after 3 or 8 hours, still running not writing.<br>
<br>I ssh to each nodes, all is fully running.<br><br>The storage is NFS, I/O flow can't be choked for hours. <br><br>Really headache, sometimes it works. <br><br>I have had no clue about it. <br><br><br>Thanks for any suggestions,<br>
<font color="#888888">
<br><br>-- <br>Best Regards,<br><br>lina<br><br><br>
</font></blockquote></div><br><br clear="all"><br>-- <br>Best Regards,<br><br>lina<br><br><br>
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Can't post? Read <a href="http://www.gromacs.org/Support/Mailing_Lists" target="_blank">http://www.gromacs.org/Support/Mailing_Lists</a><br></blockquote></div><br><br clear="all"><br>-- <br>Best Regards,<br><br>lina<br>
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