VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Sep 26 2006 - 12:55:52 CDT

Hi,
  If you're running FC5, you'll also need to follow the instructions
in the Linux release notes to make sure you have the libstdc++ libs
installed, SELinux issues mitigated, and a working graphics driver...
See the release notes here:
  http://www.ks.uiuc.edu/Research/vmd/vmd-1.8.5/linuxrelnotes.html

  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Sep 26, 2006 at 10:35:26PM +0530, bertrand russell wrote:
> Hai everybody,
>
> I am trying to install VMD in my machine (AMD Athlon dual
> core-2.01GHz, MSI motherboard) in which FC5 is the OS. I could able to run
> the configuration script finely, but while I am trying to Make install it is
> showing the following error messages.
>
> [root_at_Bose vmd-1.8.5]# ./configure LINUXAMD64
> [root_at_Bose vmd-1.8.5]# cd src/
> [root_at_Bose src]# make install
> if [ ! -d "/usr/local/lib/vmd" ]; then \
> mkdir -p "/usr/local/lib/vmd" ; \
> fi ; \
> if [ ! -d "/usr/local/bin" ]; then \
> mkdir -p "/usr/local/bin" ; \
> fi ; \
> if [ ! -d "/usr/local/lib/vmd"/doc ]; then \
> mkdir -p "/usr/local/lib/vmd"/doc; \
> fi
> cp ../Announcement "/usr/local/lib/vmd"
> cp ../README "/usr/local/lib/vmd"
> cp ../LICENSE "/usr/local/lib/vmd"
> cp ../doc/ug.pdf "/usr/local/lib/vmd"/doc
> if [ -f /usr/local/lib/vmd/vmd_LINUXAMD64 ]; then \
> mv -f "/usr/local/lib/vmd/vmd_LINUXAMD64" "/usr/local/lib/vmd/OLD_vmd
> _LINUXAMD64" ; rm -f "/usr/local/lib/vmd/OLD_vmd_LINUXAMD64" ; fi
> cp ../LINUXAMD64/vmd_LINUXAMD64 "/usr/local/lib/vmd"
> cp ../lib/stride/stride_LINUXAMD64 ../lib/surf/surf_LINUXAMD64
> ../lib/tachyon/ta chyon_LINUXAMD64 "/usr/local/lib/vmd"
> cd ..; tar -cf - scripts | \
> (cd "/usr/local/lib/vmd" ; tar -xf -)
> cd ../lib; tar -cf - scripts | \
> (cd "/usr/local/lib/vmd" ; tar -xf -)
> tar: scripts/tk8.0: Cannot create symlink to `tk8.4': File exists
> tar: scripts/tk: Cannot create symlink to `tk8.4': File exists
> tar: scripts/tcl8.0: Cannot create symlink to `tcl8.4': File exists
> tar: scripts/tcl: Cannot create symlink to `tcl8.4': File exists
> tar: Error exit delayed from previous errors
> make: [install] Error 2 (ignored)
> cd ..; tar -cf - python | \
> (cd "/usr/local/lib/vmd"/scripts ; tar -xf -)
> cd ..; tar -cf - plugins | \
> (cd "/usr/local/lib/vmd" ; tar -xf -)
> cd ..; tar -cf - shaders | \
> (cd "/usr/local/lib/vmd" ; tar -xf -)
> cp ../data/.vmdrc ../data/.vmdsensors "/usr/local/lib/vmd"
> cd ../bin ; \
> if [ -f run_vmd_tmp ]; then rm -f run_vmd_tmp; fi ; \
> echo '#!/bin/csh' >> run_vmd_tmp ; \
> echo 'set defaultvmddir="/usr/local/lib/vmd"' >> run_vmd_tmp ; \
> echo 'set vmdbasename=vmd' >> run_vmd_tmp ; \
> cat vmd >> run_vmd_tmp ; \
> chmod +x run_vmd_tmp ; \
> cp run_vmd_tmp "/usr/local/bin"/vmd ; \
> rm -f run_vmd_tmp
> echo Make sure "/usr/local/bin"/vmd is in your path.
> Make sure /usr/local/bin/vmd is in your path.
> echo "VMD installation complete. Enjoy!"
> VMD installation complete. Enjoy!
> [root_at_Bose src]# vmd
> [1] 5376
>
> I even tried to install it in tcsh by altering the make file. But I could
> not get this one installed. A directory in the name of vmd has been created
> in the /usr/local/lib. If i type vmd in the terminal, a pop up window
> appears and disappears immediately. only process ID is remaining in the
> terminal.
>
>
>
>
> If anybody could help to install it would be of great help to me. Thanks a
> lot in advance. 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078