VMD-L Mailing List

From: Susana Tomasio (susietomasio_at_gmail.com)
Date: Tue Mar 01 2011 - 10:34:35 CST

Hi John,

Thank you for your reply.
I do have a directory with the molfile plugins which was created when I
installed vmd.
It includes the .so files such as xyzplugin.so, moldenplugin.so etc. But the
files molfile_plugin.h and
vmdplugin.h are in a different directory.

Thank you,

Susana

On Tue, Mar 1, 2011 at 4:24 PM, John Stone <johns_at_ks.uiuc.edu> wrote:

>
> Hi Susana,
> Before you compile the Fortran bindings, you'll have to have
> already compiled the plugins themselves. Did you compile the plugins
> before trying to compile the Fortran bindings? If so, there should be a
> "compile" subdirectory in your plugin tree containing the plugin libraries
> and header files, which is the first step in the process to linking them
> into
> your Fortran code.
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Tue, Mar 01, 2011 at 04:16:18PM +0000, Susana Tomasio wrote:
> > Hi,
> >
> > I'm trying to compile the Fortran bindings for the VMD molfile plugins
> of
> > Axel Kohlmeyer on a MacOSX Snow Leopard.
> > I have edited the Makefile to include the architecture and the c and
> > fortran compilers. I also edited NETCDFLIB to include the location
> > of netcdf.
> > This is how the config section of my Makefile looks like:
> >
> >
> ########################################################################
> > ARCH = MACOSX86-64
> > ARCHDIR = /Applications/VMD\
> > 1.8.7.app/Contents/vmd/plugins/include/
> > FC = g77
> > #FC = g77
> > #-fno-second-underscore
> > CC = gcc
> > LD = $(FC)
> > OPT = -O2 -Wall
> > CPPFLAGS = -I../../include -I$(ARCHDIR) #
> > -D_F77_F2C_UNDERSCORE
> > CFLAGS = -c $(CPPFLAGS) $(OPT)
> > FFLAGS = -c $(OPT)
> > NETCDFLIB = -L/opt/local/var/macports/software/netcdf/
> > #/usr/lib64/netcdf-3
> > NETCDFLDFLAGS = -lnetcdf
> > TCLLIB =
> > TCLLDFLAGS = -ltcl8.4
> > LDFLAGS = -L$(ARCHDIR) $(TCLLIB) $(NETCDFLIB)
> > LDLIBS = -lmolfile_plugin $(NETCDFLDFLAGS) $(TCLLDFLAGS)
> -lstdc++
> > -ldl
> >
> ########################################################################
> >
> > I also copied the files molfile_plugin.h, vmdplugin.h and
> > libmolfile_plugin.h to my working directory.
> >
> > When I typed "make" I got the following:
> >
> > g77 -c -O2 -Wall tester.f -o tester.o
> > gcc -c -I../../include -I/Applications/VMD\
> > 1.8.7.app/Contents/vmd/plugins/include/ -O2 -Wall f77_molfile.c -o
> > f77_molfile.o
> > g77 -o tester -L/Applications/VMD\
> > 1.8.7.app/Contents/vmd/plugins/include/
> > -L/opt/local/var/macports/software/netcdf/ tester.o f77_molfile.o
> > -lmolfile_plugin -lnetcdf -ltcl8.4 -lstdc++ -ldl
> > ld: library not found for -lmolfile_plugin
> > collect2: ld returned 1 exit status
> > make: *** [tester] Error 1
> >
> > I don't understand this error. It looks like it cannot find
> > -lmolfile_plugin. But I don't think that there is such file.
> >
> > I would be grateful if anyone could help me with this.
> >
> > Thank you.
> >
> > Kind regards,
> >
> > Susana
>
> --
> 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
>