VMD-L Mailing List

From: David Tanner (dtanner_at_ks.uiuc.edu)
Date: Fri May 29 2009 - 13:02:59 CDT

I am trying to use molfile_plugin in a personal MD program.
Below is my errored output from my make file.
The first 5 compiles are individual object files.
The 6th is compiling the binary file which, as I understand it, needs to be
linked to libmolfile_plugin.a, which I have located in lib/lib_LINUX (along
with all the shared libraries built with libmolfile_plugin.a).
The init_plugins function of getplugins.c contains the pre-processor command
MOLFILE_INIT_ALL which brings up all the molfile_..._init.
I don't understand what's wrong with my linking; all the appropriate files
contain "#include libmolfile_plugin.h", and I have tried to link to the
static library libmolfile_plugin.a.

gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o obj/main.o -c
src/Main.C
gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o obj/configio.o -c
src/ConfigIO.C
gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o obj/molfileapi.o
-c src/MolfileAPI.C
gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o obj/hash.o -c
src/hash.c
gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o obj/getplugins.o
-c src/getplugins.c
gcc -I./inc -Ilib/lib_LINUX -Llib/lib_LINUX -m32 -Wall -o bin/psapd
-lmolfile_plugin -lm obj/main.o obj/configio.o obj/molfileapi.o obj/hash.o
obj/getplugins.o
obj/main.o(.eh_frame+0x11): undefined reference to `__gxx_personality_v0'
obj/configio.o(.eh_frame+0x11): undefined reference to
`__gxx_personality_v0'
obj/getplugins.o(.text+0x107): In function `init_plugins':
: undefined reference to `molfile_biomoccaplugin_init'
obj/getplugins.o(.text+0x10c): In function `init_plugins':
: undefined reference to `molfile_cpmdplugin_init'
obj/getplugins.o(.text+0x111): In function `init_plugins':
: undefined reference to `molfile_psfplugin_init'
obj/getplugins.o(.text+0x116): In function `init_plugins':
: undefined reference to `molfile_pdbplugin_init'
...

Thank you,
David E. Tanner

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David E. Tanner
Theoretical and Computational Biophysics Group
3159 Beckman Institute
University of Illinois at Urbana-Champaign
405 N. Mathews
Urbana, IL 61801
http://www.linkedin.com/in/davidetanner
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