[gmx-users] intel compiler + amd64: help needed.

[Jones de Andrade]

Hi David.

And how could I do it? I mean, isn't mknb a significative piece of the code?
What is it for? Would not that it yeld any problem?

And how to do it? Am I wrong, or should I first I run configure as it is for
gcc, save the mknb msakefile on it's directory, then configure for icc,
substitute it by the old Mkefile in the mknb directory and then make?
(Trying this now)

Thanks in advance for everything.

Jones

On 5/31/06, David van der Spoel <spoel at xray.bmc.uu.se> wrote:
>
> Jones de Andrade wrote:
> > Hi all.
>
> > Program received signal SIGSEGV, Segmentation fault.
> > 0x00002aaaab15a88c in __find_specmb () from /lib64/tls/libc.so.6
> > (gdb) where
> > #0  0x00002aaaab15a88c in __find_specmb () from /lib64/tls/libc.so.6
> > #1  0x00002aaaab140e6f in vfprintf () from /lib64/tls/libc.so.6
> > #2  0x00002aaaab15e2a9 in vsprintf () from /lib64/tls/libc.so.6
> > #3  0x00002aaaab149568 in sprintf () from /lib64/tls/libc.so.6
> > #4  0x000000000040248b in mknb_code (format=0x40cd2e "s") at
> > mknb_metacode.c:282
> > #5  0x0000000000401aaf in mknb_declare_real (name=0x7fffffffd0d0
> > "ix1,iy1,iz1,fix1,fiy1,fiz1") at mknb_metacode.c:104
> > #6  0x0000000000403e62 in mknb_declare_variables () at
> > mknb_declarations.c:258
> > #7  0x0000000000400fef in mknb_write_function () at mknb.c:154
> > #8  0x00000000004017cf in main (argc=1, argv=0x7fffffffd628) at mknb.c
> :348
> >
> > Well, what does this kind of stuff means? It worries about the libc 4
> > times, but also about the other files. :( What shall I look at?
>
>
>
> It shows where in the GROMACS code the error started (mknb_metacode.c
> 282) and that the Intel compiler f*cked up the va_args. I suggest you
> compile the mknb program with gcc and the rest with icc.
>
>
> >
> > David Mathog: thanks also. But, how could I fix that?
> >
> > Thanks a lot for everything.
> >
> > Jones
> >
> > On 5/31/06, *David van der Spoel* <spoel at xray.bmc.uu.se
> > <mailto:spoel at xray.bmc.uu.se>> wrote:
> >
> >     gdb> where
> >     it will tell you the line in the mknb this was called from.
> >     if you call a library function with garbage data it may crash
> there...
> >     --
> >     David.
> >
> ________________________________________________________________________
> >
> >     David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
> >     Dept. of Cell and Molecular Biology, Uppsala University.
> >     Husargatan 3, Box 596,          75124 Uppsala, Sweden
> >     phone:  46 18 471 4205          fax: 46 18 511 755
> >     spoel at xray.bmc.uu.se
> >     <mailto:spoel at xray.bmc.uu.se>    spoel at gromacs.org
> >     <mailto:spoel at gromacs.org>   http://folding.bmc.uu.se
> >
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
> >
> >
> >
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>
> --
> David.
> ________________________________________________________________________
> David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
> Dept. of Cell and Molecular Biology, Uppsala University.
> Husargatan 3, Box 596,          75124 Uppsala, Sweden
> phone:  46 18 471 4205          fax: 46 18 511 755
> spoel at xray.bmc.uu.se    spoel at gromacs.org   http://folding.bmc.uu.se
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
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