AMBER Archive (2004)

Subject: Re: AMBER: PMEMD Built ? Wont run..

From: Gary Waters (gwaters_at_paracel.com)
Date: Tue May 11 2004 - 11:55:14 CDT

It is the data parameters, I just dont know which yet.
(I ran a different test and pmemd runs fine)

Thank you,
-Gary Waters

On Tue, 2004-05-11 at 09:32, david.evans_at_ulsop.ac.uk wrote:
> I'm not a AMBER/PMEMD guru, but you should first check that all your
> namelist input parameters are allowed by pmemd. Look at pg. 179 of
> the Amber8 manual, and pg.293 for obsolete Sander7 parameters --
> these also seem to make pmemd crash. I had the same problem a week
> ago!
>
> Dave Evans
>
>
> ---- Message from Gary Waters <gwaters_at_paracel.com> at 2004-05-11
> 09:00:33 ------
> >Hi Everyone,
> >
> >I believe I built pmemd correctly with mpich.
> >On mpich I can do some of the example and test runs fine, with no
> >errors. Then I go over to pmemd and run my script, and get these
> >errors. I do not know what is going on, can someone shed some light
> on
> >my dilemma ?
> >
> >forrtl: severe (19): invalid reference to variable in NAMELIST input,
> >unit 5, file /export/bionumerik/pmemd.in
> >Image PC Routine Line Source
> >pmemd 0811333F Unknown Unknown Unknown
> >pmemd 080DF9AB Unknown Unknown Unknown
> >
> >Stack trace terminated abnormally.
> >p2_29314: p4_error: net_recv read: probable EOF on socket: 1
> >p10_11492: p4_error: net_recv read: probable EOF on socket: 1
> >bm_list_17110: (0.444700) wakeup_slave: unable to interrupt slave 0
> pid
> >17109
> >bm_list_17110: (0.444772) wakeup_slave: unable to interrupt slave 0
> pid
> >17109
> >p9_11334: p4_error: net_recv read: probable EOF on socket: 1
> >p15_9668: p4_error: net_recv read: probable EOF on socket: 1
> >
> >--
> >Thanks,
> >Gary Waters
> >---------------------------------------------------------------------
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-- 
Gary Waters
Product Support Specialist
Paracel Inc. 
1055 E. Colorado Blvd. 
Pasadena, CA 91106 
gary.waters_at_paracel.com
Office:  626-744-2046 
Fax:     626-744-2001
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