[gmx-users] Error in compiling GROMACS3.2.1

[David van der Spoel]

raja wrote:
> Dear GMXIONs,
>        There is need for me to install GROMACS3.2.1 for its
>        compatiability in conversting RNA pdb file to gmx file 
> (pdb2gmx) as per the reference from GROMACS user forum
> (http://www.gromacs.org/pipermail/gmx-users/2005-October/017682.html) .

That message is now outdated since there is an AMBER version for gmx 3.3


> For that purpose I tried to install GROMACS3.2.1 , More I am having
> installed programs of fftw3 for both double and single precision and
> GROMACS3.3 in my system.(Hereby I explained why I wanted the previous
> version to avoid any suggestions from your side to install latest
> version)
> 
> But the problem is when I try to compile GROMACS3.2.1 by make command ,
> I ended up in following error...
> ###############################################################################################
> til.o topdirs.o grompp.o ../mdlib/libmd.la ../gmxlib/libgmx.la 
> -L/usr/X11R6/l
>  -lsrfftw -lsfftw -lm   -lSM -lICE -lX11  -L/usr/lib -lxml2 -lz -liconv
>  -lm
> cc -O6 -fomit-frame-pointer -finline-functions -Wall -Wno-unused
> -malign-doubl
> -funroll-all-loops -I/usr/include/libxml2 -o grompp.exe topio.o
> toppush.o topc
> .o topshake.o convparm.o tomorse.o sorting.o splitter.o dum_parm.o
> readir.o ad
> par.o topexcl.o toputil.o topdirs.o grompp.o  -L/usr/local/fftw/lib
> ../mdlib/.
> bs/libmd.a -L/usr/X11R6/lib -L/usr/lib ../gmxlib/.libs/libgmx.a -lsrfftw
> -lsff
>  -lSM -lICE -lX11 .libs/libimp-cygxml2-2.a -lz .libs/libimp-cygiconv-2.a
> /usr/lib/gcc/i686-pc-cygwin/3.4.4/../../../../i686-pc-cygwin/bin/ld:
> cannot fi
>  -lz
> collect2: ld returned 1 exit status
> make[3]: *** [grompp.exe] Error 1
> 
> ##################################################################################################
> 
>>From the reference of user forum I also tried the configuration step by
> this command
> *******************************************************
>> ./configure --without-motif-includes 
> *******************************************************
> 
> Again the same problem 
> 
> Thanks !
> B.Nataraj


-- 
David.
________________________________________________________________________
David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se
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