Aaron, Can you please try the following command and tell us the result?
env DYLD_PRINT_LIBRARIES=1 pymol Thanks, Dave On Mar 1, 2007, at 4:25 AM, Alexander Hansen wrote: > On 3/1/07, aaron bryden <[EMAIL PROTECTED]> wrote: >> That's what i'm not understanding is why the error listed by pymol is >> referring to the one in /sw/lib/libpng.3.dylib which otool says is >> version 16. I also tried deleting frozen bubble and still had the >> problems. Do i need to completely wipe fink again and reinstall, or >> is their some other mechanism in OS X that I don't understand? I >> should also note that I've had frozen bubble for a long time with >> pymol working and it wasn't until I added a new package (I forget >> which one, i think coot though) in fink that I initially had this >> problem (though I still do after a fresh install of fink). >> >> thanks for your help, >> > > Pymol is saying that it _wants_ the version 16 libpng.3.dylib, but is > _finding_ the other one. You get the exact same error if you remove > Frozen Bubble? > > The OS X linker for dynamic libraries can be tricky, and pymol has a > fairly fragile build process. With Frozen Bubble out of the way, make > sure that you only have one libpng.3.dylib hanging around, and try a > rebuild. > >> Aaron >> On 2/28/07, David R. Morrison <[EMAIL PROTECTED]> wrote: >> > >> > On Feb 28, 2007, at 10:23 AM, aaron bryden wrote: >> > >> > > oops meant to send this to fink-beginners also >> > > >> > > ---------- Forwarded message ---------- >> > > From: aaron bryden <[EMAIL PROTECTED]> >> > > Date: Feb 27, 2007 2:59 PM >> > > Subject: Re: [Fink-beginners] pymol, libpng problems >> > > To: "Daniel E. Macks" <[EMAIL PROTECTED]> >> > > >> > > >> > > Thanks for your help. >> > > >> > >> I just compiled pymol-py24-0.99-4 and don't see any of my >> initial >> > >> flag >> > >> suspicions. So here are some pieces of info that could help us >> > >> nail it >> > >> down: >> > >> >> > >> What specific version of which pymol package are you using? >> What OS X >> > >> version, what CPU type? Which x11 are you using (Apple's X11, >> Fink's >> > >> xfree86, or Fink's x.org)? >> > > pymol-py24 .99-1002 >> > > OS X version: 10.4.8 >> > > cpu type: 2GHz Intel Core Duo >> > > Apple's X11 version = X11 1.1.3 - XFree86 4.4.0 >> > > I should add that I am using unstable because pymol is not >> > > available for intel >> > >> >> > >> Is this package being compiled on your machine or is it >> downloaded >> > >> precompiled? If it's being compiled locally, could you tell >> us the >> > >> command that created that _cmd.so file (it's the one that >> contains >> > >> "-o >> > >> modules/pymol/_cmd.so", about 6/7 of the way through the build >> > >> output). >> > > The package is being compiled on my machine. The output of the >> command >> > > to build _cmd.so is >> > > >> > > cc -bundle -bundle_loader /sw/bin/python2.4 -flat_namespace - >> undefined >> > > suppress -o modules/pymol/_cmd.so */*.o ov/src/*.o -no-cpp- >> precomp >> > > -Wmissing-prototypes -Wno-long-double -O3 -funroll-loops >> > > -fomit-frame-pointer -ffast-math -I/sw/include >> > > -I/sw/include/python2.4 -I/sw/include/python2.4/Numeric >> > > -I/usr/X11R6/include -D_HAVE_LIBPNG -D_PYMOL_MODULE - >> D_PYMOL_NUMPY >> > > -D_PYMOL_FINK -L/sw/lib -L/usr/X11R6/lib -lglut -lGL -lGLU >> -lpng >> > > -lz -lm -lX11 -lXext >> > >> >> > >> Also, the output of these commands: >> > >> >> > >> otool -L /sw/lib/pymol-py24/modules/pymol/_cmd. >> > > otool -L /sw/lib/pymol-py24/modules/pymol/_cmd.so >> > > /sw/lib/pymol-py24/modules/pymol/_cmd.so: >> > > /sw/lib/libfreeglut.3.dylib (compatibility version >> 12.0.0, >> > > current version 12.0.0) >> > > /usr/X11R6/lib/libGL.1.dylib (compatibility version >> 1.2.0, >> > > current version 1.2.0) >> > > /usr/X11R6/lib/libGLU.1.dylib (compatibility version >> 1.3.0, >> > > current version 1.3.0) >> > > /sw/lib/libpng.3.dylib (compatibility version 16.0.0, >> current >> > > version 16.0.0) >> > > /usr/lib/libz.1.dylib (compatibility version 1.0.0, >> current >> > > version 1.2.3) >> > > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, >> > > current version 88.3.4) >> > > /usr/X11R6/lib/libX11.6.dylib (compatibility version >> 6.2.0, >> > > current version 6.2.0) >> > > /usr/X11R6/lib/libXext.6.dylib (compatibility version >> 6.4.0, >> > > current version 6.4.0) >> > > /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0, >> > > current version 1.0.0) >> > > >> > > >> > >> otool -L /sw/lib/libpng.3.dylib >> > > otool -L /sw/lib/libpng.3.dylib >> > > /sw/lib/libpng.3.dylib: >> > > /sw/lib/libpng.3.dylib (compatibility version 16.0.0, >> current >> > > version 16.0.0) >> > > /usr/lib/libz.1.dylib (compatibility version 1.0.0, >> current >> > > version 1.2.3) >> > > /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0, >> > > current version 1.0.0) >> > > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, >> > > current version 88.3.4) >> > >> locate libpng.3.dylib >> > > locate libpng.3.dylib >> > > /Applications/Frozen-Bubble.app/Contents/Frameworks/libpng. >> 3.dylib >> > > /sw/lib/libpng.3.dylib >> > >> > OK, so I've just verfied that Frozen-Bubble-1.0.0e does indeed >> > install libpng.3.dylib as a framework, and running otool on this >> gives >> > >> > otool -L /Volumes/Frozen-Bubble/Frozen-Bubble.app/Contents/ >> > Frameworks/libpng.3.dylib >> > /Volumes/Frozen-Bubble/Frozen-Bubble.app/Contents/Frameworks/ >> libpng. >> > 3.dylib: >> > @executable_path/../Frameworks/libpng.3.dylib >> (compatibility >> > version 3.0.0, current version 3.0.0) >> > @executable_path/../Frameworks/libz.1.dylib (compatibility >> > version 1.0.0, current version 1.2.2) >> > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, >> > current version 71.1.1) >> > >> > So it sounds like this may indeed be the offender, but why does >> DYLD >> > find it? >> > >> > -- Dave >> > >> > >> > >> >> --------------------------------------------------------------------- >> ---- >> Take Surveys. Earn Cash. Influence the Future of IT >> Join SourceForge.net's Techsay panel and you'll get the chance to >> share your >> opinions on IT & business topics through brief surveys-and earn cash >> http://www.techsay.com/default.php? >> page=join.php&p=sourceforge&CID=DEVDEV >> _______________________________________________ >> Fink-beginners mailing list >> Fink-beginners@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/fink-beginners >> > > > -- > Alexander K. Hansen > (akh) > Fink Documenter (still) ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ Fink-beginners mailing list Fink-beginners@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/fink-beginners
