On Thu, Apr 26, 2001 at 11:54:31PM -0700, Kenward Vaughan wrote: > I hope someone can give me clues about what's screwing up the compilation of > a molecular docking app I'm trying to assemble for my classes... It is > supposed to compile on a number of *nix platforms including Linux, but my > attempts die at the linking stage. > > (...) > > Can someone suggest places to look for the cause of this? Is there other > information I could find to help? I have tried the nm command with the > three functions referenced below, and the only consistent difference I can > see is the lack of a bunch of alphanumerics after the name shown on the last > line of that listing.
this small difference in the symbolnames _could_ be an indication that there's some kind of prototype mismatch. You might want to use nm's -C option to demangle those cryptic alphanumerics. This will give you a more human-readable output, though I'm not sure whether it'll help you beyond that... (see 'man c++filt' for a short intro on what mangling is about). I would try to locate the implementation of the 'get_atom_type(char *, char *)' function in the source code (most probably in get_atom_type.cc) and see whether it has the required prototype (the one that the linker's "undefined reference" message complains about). Somehow, however, I doubt that some bug like this would have made it into the AutoDock distribution. Or is this a brand new release, that no one else has yet tried to compile? Too bad this isn't open source -- otherwise I could have given it a quick try myself... Anyway, good luck! Erdmut > (...) > > readPDBQ.o(.text+0x465): undefined reference to `get_atom_type(char *, char > *)' > collect2: ld returned 1 exit status > make: *** [autodock3] Error 1 > > ---end of run--next is a listing by nm of libad.a for get_atom_type > > daddy:/home/local/src/autodock/dist305/src/autodock# nm libad.a|grep -i > get_atom_type > U get_atom_type__FPcT0 > U get_atom_type__FPcT0 > U get_atom_type__FPcT0 > get_atom_type.o: > 00000000 T get_atom_type -- Erdmut Pfeifer science+computing ag -- Bugs come in through open windows. Keep Windows shut! --
