Hi Emily, I have no idea about your problems, but I noticed that the gromacs you used might be the one my colleague had sent to you, he modified something to fit my multicores processors, I guess you may do a try to use the original and official one also.
Good luck, Lina > ------------------------------ > > Message: 3 > Date: Thu, 13 May 2010 01:16:15 -0400 > From: Emily Curtis <[email protected]> > Subject: Re: [gmx-users] Help, Errors while compiling gromacs under > Mac OS X 10.5 Leopard > To: Discussion list for GROMACS users <[email protected]> > Message-ID: > <[email protected]> > Content-Type: text/plain; charset="iso-8859-1" > > I've added a few flags and fixed some of the error messages but now I am > getting these messages. Does anyone have any ideas about what I am doing > wrong? > > creating highway > Making all in contrib > make[3]: Nothing to be done for `all'. > make[3]: Nothing to be done for `all-am'. > Making all in admin > make[1]: Nothing to be done for `all'. > Making all in scripts > cat ./GMXRC.in | sed 's,@bindir\@,/Users/emily/gromacstrial/bin,' > GMXRC > cat ./GMXRC.csh.in | sed 's,@libdir\@,/Users/emily/gromacstrial/lib,' | \ > sed 's,@bindir\@,/Users/emily/gromacstrial/bin,' | \ > sed 's,@datadir\@,/Users/emily/gromacstrial/share,' | \ > sed 's,@mandir\@,/Users/emily/gromacstrial/share/man,' > GMXRC.csh > cat ./GMXRC.bash.in | sed 's,@libdir\@,/Users/emily/gromacstrial/lib,' | \ > sed 's,@bindir\@,/Users/emily/gromacstrial/bin,' | \ > sed 's,@datadir\@,/Users/emily/gromacstrial/share,' | \ > sed 's,@mandir\@,/Users/emily/gromacstrial/share/man,' > GMXRC.bash > cat ./GMXRC.zsh.in | sed 's,@libdir\@,/Users/emily/gromacstrial/lib,' | \ > sed 's,@bindir\@,/Users/emily/gromacstrial/bin,' | \ > sed 's,@datadir\@,/Users/emily/gromacstrial/share,' | \ > sed 's,@mandir\@,/Users/emily/gromacstrial/share/man,' > GMXRC.zsh > Making all in share > Making all in top > make[2]: Nothing to be done for `all'. > Making all in tutor > Making all in nmr1 > make[3]: Nothing to be done for `all'. > Making all in nmr2 > make[3]: Nothing to be done for `all'. > Making all in speptide > make[3]: Nothing to be done for `all'. > Making all in water > make[3]: Nothing to be done for `all'. > Making all in gmxdemo > make[3]: Nothing to be done for `all'. > Making all in methanol > make[3]: Nothing to be done for `all'. > Making all in mixed > make[3]: Nothing to be done for `all'. > make[3]: Nothing to be done for `all-am'. > Making all in template > cat ./Template.mak | \ > sed 's,@LDFLAGS\@,-L/Users/emily/gromacstrial/lib > -L/Developer/opt/intel/Compiler/11.1/067/Frameworks/mkl/lib/em64t > -framework Accelerate,' | \ > sed 's,@LIBS\@,-lmd -lgmx -lxml2 -L/usr/X11/lib -R/usr/X11/lib > -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lm -lSM -lICE -lX11 ,' | \ > sed 's,@CFLAGS\@,-O3 -fomit-frame-pointer -finline-functions -Wall > -Wno-unused -funroll-all-loops -I/usr/include/libxml2 > -I/Users/emily/gromacstrial/include > -I/Users/emily/gromacstrial/include/gromacs,' | \ > sed 's,@CC\@,cc,' | \ > sed 's,@host\@,x86_64-apple-darwin,' >Makefile.x86_64-apple-darwin > Making all in html > Making all in . > make[3]: Nothing to be done for `all-am'. > Making all in images > make[3]: Nothing to be done for `all'. > Making all in online > make[3]: Nothing to be done for `all'. > make[2]: Nothing to be done for `all-am'. > Making all in man > Making all in man1 > make[2]: Nothing to be done for `all'. > make[2]: Nothing to be done for `all-am'. > make[1]: Nothing to be done for `all-am'. > nom27267d:gromacs-4.0.7-mbh emily$ > > > On Wed, May 12, 2010 at 10:10 AM, Emily Curtis > <[email protected]>wrote: > > > Here are all of the messages I get when I type "make". I have been trying > > to figure this out based on mailing list emails but I cant seem to find what > > I need to fix. Thank you for your help. > > > > Emily-Curtis-MacBook-Pro:gromacs-4.0.7-mbh emily$ make > > Making all in include > > Making all in . > > make[2]: Nothing to be done for `all-am'. > > Making all in types > > make[2]: Nothing to be done for `all'. > > Making all in src > > make all-recursive > > Making all in gmxlib > > Making all in nonbonded > > Making all in nb_kernel_ia32_sse > > /bin/sh ../../../../libtool --mode=compile cc -O3 -fomit-frame-pointer > > -finline-functions -Wall -Wno-unused -funroll-all-loops -c -o > > nb_kernel010_ia32_sse.lo nb_kernel010_ia32_sse.s > > cc -O3 -fomit-frame-pointer -finline-functions -Wall -Wno-unused > > -funroll-all-loops -c nb_kernel010_ia32_sse.s -o nb_kernel010_ia32_sse.o > > nb_kernel010_ia32_sse.s:88:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:90:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:91:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:92:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:93:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:94:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:95:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:796:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:797:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:798:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:799:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:800:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:801:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:866:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:868:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:869:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:870:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:871:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:872:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:873:suffix or operands invalid for `push' > > nb_kernel010_ia32_sse.s:1345:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:1346:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:1347:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:1348:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:1349:suffix or operands invalid for `pop' > > nb_kernel010_ia32_sse.s:1350:suffix or operands invalid for `pop' > > make[5]: *** [nb_kernel010_ia32_sse.lo] Error 1 > > make[4]: *** [all-recursive] Error 1 > > make[3]: *** [all-recursive] Error 1 > > make[2]: *** [all-recursive] Error 1 > > make[1]: *** [all] Error 2 > > make: *** [all-recursive] Error 1 > > > > > > On Wed, May 12, 2010 at 3:46 AM, Erik Marklund <[email protected]>wrote: > > > >> Hi, > >> > >> These error messages are not very informative, they just state that > >> something went wrong in the linking process. There ought to be more > >> descriptive messages prior to these linker errors. Post those, then perhaps > >> we can help you out. > >> > >> Erik > >> > >> Emily Curtis skrev: > >> > >> Dr. Bonner, > >>> > >>> I am trying to install gromacs on a mac. I am running Leopard. I can > >>> configure successfully, however, when I type "make" I am getting the same > >>> errors that you reported: > >>> > >>> make[5]: *** [nb_kernel010_ppc_altivec.lo] Error 1 > >>> make[4]: *** [all-recursive] Error 1 > >>> make[3]: *** [all-recursive] Error 1 > >>> make[2]: *** [all-recursive] Error 1 > >>> make[1]: *** [all] Error 2 > >>> make: *** [all-recursive] Error 1 > >>> > >>> I read the gcc manual but I can't figure out what flags I need to > >>> include. Did you ever figure out the flags you needed to include to fix > >>> this? I appreciate your help > >>> > >>> Emily > >>> -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
