AMBER Archive (2004)

Subject: Re: RE: AMBER: leap compiling problem on a 64-bit machine

From: Tomas Linhart (linht0am_at_karlov.mff.cuni.cz)
Date: Fri Nov 19 2004 - 19:14:51 CST

Seems like your X libraries are in some unusuall place so that linker cannot find them. Normally, libXmu.a as well as libXmu.so resides in /usr/X11R6/lib. Check if they are present, or if they are in some other directory.

On Fri, Nov 19, 2004 at 05:51:58PM -0600, xhu1_at_memphis.edu wrote:
> Dear Ross,
>
> Thank you for your reply. Our workstation is a dual 64bit
> xeon-processor. Because we don't have MPICH installed, I just used
> "Machine.g77". it works for another dual 32bit xeon-processor
> workstation in our group(for sure, we can't run parallel jobs). The g77
> compiler version in this 64bit workstation is 3.2.3-42 and kernel
> version is 2.4.21-20.EL.
>
> One thing I didn't mention in my last email is that I copied the whole
> "amber7" directory from that 32bit workstation(memory is 2G)to this
> 64bit workstation(memory is 8G), and didn't do "clean" first before
> "install". That maybe cause the error message "../Xraw/libXrawLeap.a:
> could not read symbols: Memory exhausted" ??? You and Bill just reminded
> me of this. Now I "cleaned" first, then "installed". Leap still gave me
> an error message(but different) and stopped again.
>
> *******************************************
> /usr/bin/ld: cannot find -lXmu
> collect2: ld returned 1 exit status
> make[3]: *** [xaLeap] Error 1
> make[3]: Leaving directory `/usr/local/amber7/src/leap/src/leap'
> make[2]: *** [all] Error 2
> make[2]: Leaving directory `/usr/local/amber7/src/leap'
> make[1]: *** [World] Error 2
> make[1]: Leaving directory `/usr/local/amber7/src/leap'
> make: *** [install] Error 2
> ****************************************************
>
> The completed output files from the commands "xmkmf", "make World",
> "make install.leap" were attached.
>
> Thank you very much for your time. Very appreciate!
>
> All the best
>
> Shawn
>
>
>
> ----- Original Message -----
> From: "Ross Walker" <ross_at_rosswalker.co.uk>
> Date: Friday, November 19, 2004 1:32 pm
> Subject: RE: AMBER: leap compiling problem on a 64-bit machine
>
> > Dear Shawn,
> >
> >
> > > I tried to compile amber7 on our new Xeon 64 bit machine. Leap
> > gave a
> > > problem:
> > >
> > > *******************************************************************
> > > ../Xraw/libXrawLeap.a: could not read symbols: Memory exhausted
> > > collect2: ld returned 1 exit status
> > > make[3]: *** [xaLeap] Error 1
> > > make[3]: Leaving directory `/usr/loca> make[2]: *** [all] Error 2
> > > make[2]: Leaving directory `/usr/loca> make[1]: *** [World] Error 2
> > > make[1]: Leaving directory `/usr/loca> make: *** [install] Error 2
> > > ********************************************************************
> >
> > I have not come across this problem before. Can you send me some more
> > information. The machine you used, compiler versions and the xleap
> > buildmessages.
> >
> > Try this:
> >
> > cd $AMBERHOME/src/
> > make clean
> > cd leap
> > xmkmf
> > make World
> > make install.leap
> >
> > Please send me all the output from the last 3 commands.
> >
> > All the best
> > Ross
> >
> > /\
> > \/
> > |\oss Walker
> >
> > | Department of Molecular Biology TPC15 |
> > | The Scripps Research Institute |
> > | Tel:- +1 858 784 8889 | EMail:- ross_at_rosswalker.co.uk |
> > | http://www.rosswalker.co.uk/ | PGP Key available on request |
> >
> >
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