AMBER Archive (2006)

Subject: Re: AMBER: Xleap crash

From: Scott Pendley (scott.pendley_at_gmail.com)
Date: Tue Feb 14 2006 - 12:08:59 CST

Dr. Case,

Thank you for your suggestion. I was able to transfer a static opteron
version of xleap to my athlon and it seems to be working pretty well.

Scott

On 2/14/06, Scott Pendley <scott.pendley_at_gmail.com> wrote:
>
>
>
> On 2/14/06, David A. Case <case_at_scripps.edu> wrote:
> >
> > On Tue, Feb 14, 2006, Scott Pendley wrote:
> > >
> > > I have installed amber8 on my work computer (dual athlon, RHEL 4).
> > > Installation has been working great with one exception, xleap. I
> > compiled
> > > xleap without any problems and can run the program in text mode
> > only. When
> > > I try to edit a molecule, it immediately crashes and records a
> > segmentation
> > > fault. This problem seems to be independant of the unit to be
> > editted.
> >
> > Can you give us some more information about your environment:
>
>
> Dual processor Athlon 64 bit. Other programs seem to work: sander, ptraj,
> anal, etc.
>
>
> What arguments did you supply to the configure script?
>
>
> ./configure -athlon -static ifort
>
>
> What are the values of CC and CFLAGS in $AMBERHOME/src/config.h?
>
>
> CC = gcc
> CFLAGS = -O2 $(AMBERBUILDFLAGS)
>
>
> What does "gcc --version" report?
>
>
> version 3.4.4
>
> What does "uname -a" report?
>
>
> Linux cytosine.pharm.utah.edu 2.6.9-22.0.1.EL #1 Tue Oct 18 18:29:22 EDT
> 2005 x86_64 x86_64 x86_64 GNU/Linux
>
> I was thinking this was likely a problem with the XConfiguation since that
> seems to be the only problem I find.
>
> I use the following variables in $AMBERHOME/src/leap/src/leap/Makefile
> XLIB64 = /usr/X11R6/lib64
> XALEAP_LIB = ../Xraw/libXaw.a ../Wc/libWcLeap.a ../Xpm/libXpm.a \
> ../Xmu/libXmu.a -L$(XLIB64) -lXt -lXext -lSM -lICE -lX11 -lm -ldl
> -lpthread
>
>
>
> This problem seems to be pretty specific to particular compile/link
> > environments. While you are waiting for a resolution(!?!), you might
> > try
> > to compile a static version on some one else's computer (if that is
> > possible),
> > and see if you can move it to your system.
> >
> > ...regards...dac
> > -----------------------------------------------------------------------
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> >
>
>

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