VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Nov 24 2016 - 09:48:00 CST

Hi,
  Okay, you are very close now. This remaining error occurs because your
system is missing libGLU, which is required by the older versions of VMD.

The latest (beta4, and the soon final release) version of VMD 1.9.3 no longer
requires libGLU, so if this is the only issue that remains, you could
get past this by installing the VMD 1.9.3 beta4 version that's on the
web site, or the final release of VMD 1.9.3 which should be posted in the
next few days, since they no longer require libGLU. This is going to be
the easiest approach I think. Since libGLU was missing, I also recommend
that you run "glxinfo" and make sure you don't get any errors in case there
are any other issues with the graphics software and drivers on your system.

If you want to run VMD 1.9.2 or older versions (or any other program that
needs to use libGLU), you will need to install the missing libGLU
shared library on your system.
You'll have to determine what package to install to get libGLU on your system. Most Linux systems historically included libGLU with the standard
OpenGL package, but clearly yours doesn't have it. There are a number of
suggestions for common cases on this topic on stackoverflow.com, be wary
of conflicts between newly installed OpenGL packages and your graphics
drivers which may require you to reinstall the graphics drivers too:
  http://stackoverflow.com/questions/22360771/missing-recommended-library-libglu-so

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Nov 24, 2016 at 02:26:44PM +0530, Archana Sonawani-Jagtap wrote:
> Hi,
>
> Sorry for misunderstanding..I tried installing
> vmd-1.9.2.bin.LINUXAMD64.opengl.tar.gz in my laptop, but I still get this
> error when I type vmd:
>
> /usr/local/lib/vmd/vmd_LINUXAMD64: error while loading shared libraries:
> libGLU.so.1: cannot open shared object file: No such file or directory
>
> On Thu, Nov 24, 2016 at 1:02 PM, John Stone <[1]johns_at_ks.uiuc.edu> wrote:
>
> Hi,
> A I think you misunderstood about the approach to installing the
> 64-bit version.A When you run the configure script, you should not be
> passing any parameters, otherwise it will look for files that don't
> exist
> in the binary distribution (thus all of the errors below).A What I
> meant
> when I suggested that you install the LINUXAMD64 build of VMD, is that
> you need to start over, and go download one of the LINUXAMD64 tar files
> from the VMD web site and then install that using the standard install
> procedure for unix/linux.
>
> Cheers,
> A John Stone
> A [2]vmd_at_ks.uiuc.edu
>
> On Thu, Nov 24, 2016 at 12:42:42PM +0530, Archana Sonawani-Jagtap wrote:
> >A A Hi,
> >
> >A A I tried ./configure LINUXAMD64, but still I get the following
> after make
> >A A install:
> >
> >A A if [ ! -d "/usr/local/lib/vmd" ]; then \
> >A A A A AA mkdir -p "/usr/local/lib/vmd" ; \
> >A A fi ; \
> >A A if [ ! -d "/usr/local/bin" ]; then \
> >A A A A AA mkdir -p "/usr/local/bin" ; \
> >A A fi ; \
> >A A if [ ! -d "/usr/local/lib/vmd"/doc ]; then \
> >A A A A AA mkdir -p "/usr/local/lib/vmd"/doc; \
> >A A fi
> >A A cp ../AnnouncementAA "/usr/local/lib/vmd"
> >A A cp ../READMEA A A A A A AA "/usr/local/lib/vmd"
> >A A cp ../LICENSEA A A A A AA "/usr/local/lib/vmd"
> >A A cp ../doc/ug.pdfA A A A A A AA "/usr/local/lib/vmd"/doc
> >A A if [ -f /usr/local/lib/vmd/vmd_LINUXAMD64 ]; then \
> >A A A A A A A A A A A AA mv -f "/usr/local/lib/vmd/vmd_LINUXAMD64"
> >A A "/usr/local/lib/vmd/OLD_vmd_LINUXAMD64" ; rm -f
> >A A "/usr/local/lib/vmd/OLD_vmd_LINUXAMD64" ; fi
> >A A cp ../LINUXAMD64/vmd_LINUXAMD64 "/usr/local/lib/vmd"
> >A A cp: cannot stat a**../LINUXAMD64/vmd_LINUXAMD64a**: No such file
> or
> >A A directory
> >A A make: [install] Error 1 (ignored)
> >A A if [ -d "../lib/redistrib/lib_LINUXAMD64" ]; then \
> >A A A A AA cd ../lib/redistrib/lib_LINUXAMD64; tar -cf - ./* | \
> >A A A A AA (cd "/usr/local/lib/vmd" ; tar -xf -) \
> >A A fi ;
> >A A cp ../lib/stride/stride_LINUXAMD64 ../lib/surf/surf_LINUXAMD64
> >A A ../lib/tachyon/tachyon_LINUXAMD64 "/usr/local/lib/vmd"
> >A A cp: cannot stat a**../lib/stride/stride_LINUXAMD64a**: No such
> file or
> >A A directory
> >A A cp: cannot stat a**../lib/surf/surf_LINUXAMD64a**: No such file
> or
> >A A directory
> >A A cp: cannot stat a**../lib/tachyon/tachyon_LINUXAMD64a**: No such
> file or
> >A A directory
> >A A make: [install] Error 1 (ignored)
> >A A cd ..; tar -cf - scripts | \
> >A A (cd "/usr/local/lib/vmd" ; tar -xf -)
> >A A cd ../lib; tar -cf - scripts | \
> >A A (cd "/usr/local/lib/vmd" ; tar -xf -)
> >A A cd ..; tar -cf - python | \
> >A A (cd "/usr/local/lib/vmd"/scripts ; tar -xf -)
> >A A cd ..; tar -cf - plugins | \
> >A A (cd "/usr/local/lib/vmd" ; tar -xf -)
> >A A cd ..; tar -cf - shaders | \
> >A A (cd "/usr/local/lib/vmd" ; tar -xf -)
> >A A if [ -f ../LINUXAMD64/OptiXShaders.ptx ]; then \
> >A A A A AA cp ../LINUXAMD64/OptiXShaders.ptx
> "/usr/local/lib/vmd/shaders"; \
> >A A fi;
> >A A cp ../data/.vmdrc ../data/.vmdsensors ../data/vmd_completion.dat
> >A A "/usr/local/lib/vmd"
> >A A cd ../bin ; \
> >A A if [ -f run_vmd_tmp ]; then rm -f run_vmd_tmp; fi ; \
> >A A if [ ! -x "/bin/csh" ]; then \
> >A A A A AA echo "Info: /bin/csh shell not found, installing Bourne
> shell
> >A A startup script instead" ; \
> >A A A A AA echo '#!/bin/sh' >> run_vmd_tmp ; \
> >A A A A AA echo 'defaultvmddir="/usr/local/lib/vmd"' >> run_vmd_tmp
> ; \
> >A A A A AA echo 'vmdbasename=vmd' >> run_vmd_tmp ; \
> >A A A A AA cat vmd.sh >> run_vmd_tmp ; \
> >A A else \
> >A A A A AA echo '#!/bin/csh' >> run_vmd_tmp ; \
> >A A A A AA echo 'set defaultvmddir="/usr/local/lib/vmd"' >>
> run_vmd_tmp ; \
> >A A A A AA echo 'set vmdbasename=vmd' >> run_vmd_tmp ; \
> >A A A A AA cat vmd.csh >> run_vmd_tmp ; \
> >A A fi ; \
> >A A chmod +x run_vmd_tmp ; \
> >A A cp run_vmd_tmp "/usr/local/bin"/vmd ; \
> >A A rm -f run_vmd_tmp
> >A A echo Make sure "/usr/local/bin"/vmd is in your path.
> >A A Make sure /usr/local/bin/vmd is in your path.
> >A A echo "VMD installation complete.AA Enjoy!"
> >A A VMD installation complete.AA Enjoy!
> >A A [root_at_localhost src]# vmd
> >A A /usr/local/lib/vmd/vmd_LINUX: Command not found.
> >
> >A A Regards,
> >
> >A A Archana
> >A A On Wed, Nov 23, 2016 at 1:14 PM, John Stone
> <[1][3]johns_at_ks.uiuc.edu> wrote:
> >
> >A A A Hi,
> >A A A AA Does your CentOS 7 machine have 32-bit runtime libraries
> on it?AA If
> >A A A not,
> >A A A you will have to install a 64-bit build instead of a 32-bit
> build.
> >A A A That could cause the error you're seeing.AA You can
> double-check whether
> >A A A that's a likely scenario by checking that
> /usr/local/lib/vmd/vmd_LINUX
> >A A A does indeed exist.AA If it does, then most likely your
> machine lacks
> >A A A 32-bit
> >A A A libraries and you'd need to install one of the 64-bit builds
> instead
> >A A A (LINUXAMD64).
> >
> >A A A Cheers,
> >A A A AA John Stone
> >A A A AA [2][4]vmd_at_ks.uiuc.edu
> >A A A On Wed, Nov 23, 2016 at 01:04:45PM +0530, Archana
> Sonawani-Jagtap wrote:
> >A A A >AA AA Hi all,
> >A A A >AA AA I am trying toA installA vmd-1.9.2 on Centos7
> platform. I have
> >A A A downloaded
> >A A A >AA AA theA vmd-1.9.2.bin.LINUX.opengl.tar.gz file.
> >A A A >AA AA I want to install it in /usr/local, so I followed the
> following
> >A A A steps:
> >A A A >
> >A A A >AA AA 1) I untar it in /usr/local.
> >A A A >AA AA 2) cd vmd-1.9.2A
> >A A A >AA AA 3) ./configure
> >A A A >AA AA 4) cd src
> >A A A >AA AA 5) make install
> >A A A >
> >A A A >AA AA I get following message:
> >A A A >AA AA Make sure /usr/local/bin/vmd is in your path.
> >A A A >AA AA VMD installation complete.AAA Enjoy!
> >A A A >AA AA And when I run vmd from /usr/local/bin, I get
> following error:
> >A A A >AA AA /usr/local/lib/vmd/vmd_LINUX: Command not found
> >A A A >
> >A A A >AA AA Please help me out
> >A A A >AA AA Regards,
> >A A A >AA AA Archana Sonawani-Jagtap
> >A A A >AA AA S9960791339
> >
> >A A A --
> >A A A NIH Center for Macromolecular Modeling and Bioinformatics
> >A A A Beckman Institute for Advanced Science and Technology
> >A A A University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> >A A A [3][5]http://www.ks.uiuc.edu/~johns/AA AA AA AA AA A
> Phone: 217-244-3349
> >A A A [4][6]http://www.ks.uiuc.edu/Research/vmd/
> >
> >A A --
> >A A Archana Sonawani-Jagtap
> >A A Senior Research Fellow,
> >A A Biomedical Informatics Centre,
> >A A NIRRH (ICMR), Parel
> >A A Mumbai, India.
> >A A 9960791339
> >
> > References
> >
> >A A Visible links
> >A A 1. mailto:[7]johns_at_ks.uiuc.edu
> >A A 2. mailto:[8]vmd_at_ks.uiuc.edu
> >A A 3. [9]http://www.ks.uiuc.edu/~johns/
> >A A 4. [10]http://www.ks.uiuc.edu/Research/vmd/
> --
> NIH Center for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> [11]http://www.ks.uiuc.edu/~johns/A A A A A A Phone: 217-244-3349
> [12]http://www.ks.uiuc.edu/Research/vmd/
>
> --
> Archana Sonawani-Jagtap
> Senior Research Fellow,
> Biomedical Informatics Centre,
> NIRRH (ICMR), Parel
> Mumbai, India.
> 9960791339
>
> References
>
> Visible links
> 1. mailto:johns_at_ks.uiuc.edu
> 2. mailto:vmd_at_ks.uiuc.edu
> 3. mailto:johns_at_ks.uiuc.edu
> 4. mailto:vmd_at_ks.uiuc.edu
> 5. http://www.ks.uiuc.edu/~johns/A
> 6. http://www.ks.uiuc.edu/Research/vmd/
> 7. mailto:johns_at_ks.uiuc.edu
> 8. mailto:vmd_at_ks.uiuc.edu
> 9. http://www.ks.uiuc.edu/~johns/
> 10. http://www.ks.uiuc.edu/Research/vmd/
> 11. http://www.ks.uiuc.edu/~johns/
> 12. http://www.ks.uiuc.edu/Research/vmd/ 

-- 
NIH Center for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
http://www.ks.uiuc.edu/Research/vmd/