Hi Dr. Walker,
I was previously running xleap via SDSC's Teragrid server, but I was
encouraged to run it locally on my own computer in efforts to reduce
computational time. Now I'm trying to run xleap on my Windows desktop.
How should I go about recompiling it? I Googled "compile xleap windows" but
nothing relevant came up.
Thanks,
Lili
On 8/9/07, Ross Walker <ross.rosswalker.co.uk> wrote:
>
> Hi Lili,
>
> Typically when you receive a message saying "cannot execute binary file"
> it means the executable was compiled on a different system/architecture to
> the one you are trying to run it on.
>
> Are you certain Leap was compiled in cygwin on the same architecture you
> are currently trying to run it on? If not you'll need to recompile it.
>
> All the best
> Ross
>
> /\
> \/
> |\oss Walker
>
> | HPC Consultant and Staff Scientist |
> | San Diego Supercomputer Center |
> | Tel: +1 858 822 0854 | EMail:- ross.rosswalker.co.uk |
> | http://www.rosswalker.co.uk | PGP Key available on request |
>
> Note: Electronic Mail is not secure, has no guarantee of delivery, may not
> be read every day, and should not be used for urgent or sensitive issues.
>
>
> ------------------------------
> *From:* owner-amber.scripps.edu [mailto:owner-amber.scripps.edu] *On
> Behalf Of *Lili Peng
> *Sent:* Thursday, August 09, 2007 11:13
> *To:* amber.scripps.edu
> *Subject:* Re: AMBER: Cygwin error
>
> Dear all,
>
> Thanks all for your helpful comments. I've installed the tcsh package in
> Cygwin. However, I've encountered another problem. When I try to run xleap
> by typing "$AMBERHOME/exe/xleap -s -f $AMBERHOME/dat/leap/cmd/leaprc.ff99SB"
> I just end up getting the following message:
>
> "/cygdrive/h/amber9/exe/xaLeap: /cygdrive/h/amber9/exe/xaLeap: cannot
> execute binary file"
>
> I've also tried the following:
> $ xleap
> /cygdrive/h/amber9/exe/xaLeap: /cygdrive/h/amber9/exe/xaLeap: cannot
> execute binary file
>
> $ xaLeap
> ./xaLeap: ./xaLeap: cannot execute binary file
>
> I wondered whether it was a permissions problem, so I tried:
> $ ls -ll xaLeap
> -rwx------+ 1 Lili None 3467265 Mar 29 15:54 xaLeap
>
> ...Obviously I have read, write, and execute access, so it can't be a
> permissions issue..
>
> Does anyone have insights on the problem?
>
> Thanks,
> Lili
>
> On 8/8/07, Gustavo Seabra <gustavo.seabra.gmail.com > wrote:
> >
> > On 8/8/07, Lili Peng <lilipeng.gmail.com > wrote:
> > > I think I figured it out. I have to run:
> > >
> > > cd "$AMBERHOME"
> > > or
> > > ls "$AMBERHOME"
> > >
> > > cd or ls don't work without the quotes.
> >
> > That's weird, it works fine for me. Which shell are you using? The
> > default in cygwin in bash, which is the one I use, and just "cd
> > $AMBERHOME" works just fine.
> >
> > > Still, this doesn't solve the problem with running xleap, but I think
> > that's
> > > a problem with csh. I didn't have it installed, so now I'm going back
> > into
> > > the Cygwin setup file and installing the csh file.
> >
> > Well, that's another thing. This is unrelated to the error you
> > reported before, but yes, you need csh. In Cygwin, "csh" is actually a
> > symlink to "tcsh":
> >
> > $ which csh
> > /usr/bin/csh
> > $ ls -l /usr/bin/csh
> > lrwxrwxrwx 1 adm None 8 Jun 7 15:47 /usr/bin/csh -> tcsh.exe
> >
> > The problem is that tcsh is not installed by default. You need to run
> > setup.exe again and explicitly select it from the "shells" menu. The
> > link from csh is created automatically.
> >
> > Gustavo.
> > -----------------------------------------------------------------------
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> > To post, send mail to amber.scripps.edu
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> >
>
>
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Received on Sun Aug 12 2007 - 06:07:39 PDT
