[gmx-users] gromacs3.3.1 compilation error in SGI
raja
raja_28 at fastmail.us
Fri Apr 7 15:58:26 CEST 2006
Dear Mr.Lindahl,
But I have not edited that file "gmx_chi.c" for any reason. Only thing I
edited was the file "gmx_fft_fftw3.c"
for my previous error reported. The same version compiled fine in Cygwin
. But I need it in SGI for performace reason.
Please help me to compile it in SGI!
With regards,
B.Nataraj
On Fri, 7 Apr 2006 15:51:54 +0200, "Erik Lindahl" <lindahl at sbc.su.se>
said:
> Hi,
>
> As far as I can see that file is perfectly valid ANSI C - there is no
> executable statement in the declaration section.
>
> Cheers,
>
> Erik
>
>
> On Apr 7, 2006, at 2:15 PM, raja wrote:
>
> > Hi users,
> > This is another error occured while compiling in SGI
> > ######################################################################
> > #################
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1086
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > int ndih,nactdih,nf;
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1087
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > real **dih,*trans_frac,*aver_angle,*time;
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1088
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > int i,j,**chi_lookup,*xity;
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1090
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > t_filenm fnm[] = {
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1106
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > int npargs;
> > ^
> >
> > cc-1241 cc: ERROR File = gmx_chi.c, Line = 1107
> > A declaration cannot appear after an executable statement in a
> > block.
> >
> > t_pargs *ppa;
> > ^
> >
> > 20 errors detected in the compilation of "gmx_chi.c".
> > *** Error code 1 (bu21)
> > *** Error code 1 (bu21)
> > *** Error code 1 (bu21)
> > *** Error code 1 (bu21)
> > You have new mail
> > ######################################################################
> > ##################
> >
> > Please help me !
> >
> > With thanks !
> >
> > B.Nataraj
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> > On Fri, 7 Apr 2006 13:15:12 +0200, "Erik Lindahl" <lindahl at sbc.su.se>
> > said:
> >> Hi Raja,
> >>
> >> Don't remove the asterisk - that is what makes it a pointer. The
> >> declaration should be
> >>
> >> char * pc;
> >>
> >> Cheers,
> >>
> >> Erik
> >>
> >>
> >> On Apr 7, 2006, at 12:43 PM, raja wrote:
> >>
> >>> Dear Mr.Lindhal and Mr.Goel,
> >>> Based on your previous mail , I did these modification in
> >>> gmx_fft_fftw3.c
> >>>
> >>> ####################################################################
> >>> ##
> >>> int
> >>> gmx_fft_init_1d_real(gmx_fft_t * pfft,
> >>> int nx)
> >>> {
> >>> gmx_fft_t fft;
> >>> real *p1,*p2,*up1,*up2;
> >>> char pc;
> >>> pc = &(pc[8]);
> >>> int i,j,k;
> >>>
> >>> if(pfft==NULL)
> >>> {
> >>> ####################################################################
> >>> ##
> >>> ##
> >>>
> >>> But I got these errors...
> >>>
> >>> ############################### ERROR
> >>> ##################################
> >>>
> >>> cc -DHAVE_CONFIG_H -I. -I. -I../../src -I../../include
> >>> -DGMXLIBDIR=\"/usr/local
> >>> /gromacs/share/top\" -I/usr/local/include -r12000 -mips4 -O3
> >>> -OPT:IEEE_arithmeti
> >>> c=3 -OPT:rsqrt=ON -SWP:loop_overhead -INLINE:=ON -LNO:opt=1
> >>> -LNO:ou_further=3 -O
> >>> PT:Olimit=0:roundoff=3:alias=typed -woff 1174 -
> >>> D__INLINE_INTRINSICS -c
> >>> gmx_fft_f
> >>> ftw3.c -Wp,-MDupdate,.deps/gmx_fft_fftw3.TPlo -o gmx_fft_fftw3.o
> >>> cc-1138 cc: ERROR File = gmx_fft_fftw3.c, Line = 151
> >>> Expression must have pointer-to-object type.
> >>>
> >>> pc = &(pc[8]);
> >>> ^
> >>>
> >>> cc-1551 cc: WARNING File = gmx_fft_fftw3.c, Line = 151
> >>> The variable "pc" is used before its value is set.
> >>>
> >>> pc = &(pc[8]);
> >>> ^
> >>>
> >>> cc-1241 cc: ERROR File = gmx_fft_fftw3.c, Line = 152
> >>> A declaration cannot appear after an executable statement in a
> >>> block.
> >>>
> >>> int i,j,k;
> >>> ^
> >>>
> >>> cc-1515 cc: ERROR File = gmx_fft_fftw3.c, Line = 186
> >>> A value of type "void *" cannot be assigned to an entity of type
> >>> "char".
> >>>
> >>> pc = (void *)p1;
> >>> ^
> >>>
> >>> cc-1515 cc: ERROR File = gmx_fft_fftw3.c, Line = 190
> >>> A value of type "void *" cannot be assigned to an entity of type
> >>> "char".
> >>>
> >>> pc = (void *)p2;
> >>> ^
> >>>
> >>> 4 errors detected in the compilation of "gmx_fft_fftw3.c".
> >>> *** Error code 1 (bu21)
> >>> *** Error code 1 (bu21)
> >>> *** Error code 1 (bu21)
> >>> *** Error code 1 (bu21)
> >>>
> >>> ####################################################################
> >>> ##
> >>> ###########
> >>>
> >>> Did I do any thing wrong in modification ?
> >>>
> >>>
> >>> Thanks !
> >>> B.Nataraj
> >>>
> >>>
> >>>
> >>> On Fri, 7 Apr 2006 11:37:21 +0200, "Erik Lindahl"
> >>> <lindahl at sbc.su.se>
> >>> said:
> >>>> Hi,
> >>>>
> >>>> It says in the error message - here's the full path:
> >>>>
> >>>> gromacs-3.3.1/src/mdlib/gmx_fft_fftw3.c.
> >>>>
> >>>> Cheers,
> >>>>
> >>>> Erik
> >>>>
> >>>>
> >>>> On Apr 7, 2006, at 11:15 AM, raja wrote:
> >>>>
> >>>>> Dear Mr. Erick and Mr. spoel,
> >>>>> Sorry , I am not a programmer, so please let me know which
> >>>>> file
> >>>>> under the folder "src" I have to incorporate
> >>>>> this change you are suggested.
> >>>>>
> >>>>> With thanks !
> >>>>> B.Nataraj
> >>>>> On Fri, 07 Apr 2006 10:47:43 +0200, "David van der Spoel"
> >>>>> <spoel at xray.bmc.uu.se> said:
> >>>>>> Erik Lindahl wrote:
> >>>>>>> Hi Raja,
> >>>>>>>
> >>>>>>> Try changing the "void" on line 150 to "char". gcc doesn't
> >>>>>>> complain
> >>>>>>> about this casting even with full warnings, so we missed one
> >>>>>>> instance.
> >>>>>>>
> >>>>>> Maybe you'd rather need
> >>>>>>
> >>>>>> pc = (void *)(pc + 8)
> >>>>>>
> >>>>>> or even better
> >>>>>>
> >>>>>> pc = &(pc[8])
> >>>>>>
> >>>>>>> Erik
> >>>>>>>
> >>>>>>>
> >>>>>>> On Apr 7, 2006, at 10:36 AM, raja wrote:
> >>>>>>>
> >>>>>>>> Dear all,
> >>>>>>>> I just tried to install groamcs3.3.1, with a hope to
> >>>>>>>> overcome the
> >>>>>>>> earlier bug I posted for 3.3 version
> >>>>>>>> (http://www.gromacs.org/pipermail/gmx-users/2006-April/
> >>>>>>>> 020850.html) .But
> >>>>>>>> an other error occured in groamcs3.3.1 in SGI compilation..
> >>>>>>>> Error
> >>>>>>>> ###############################################################
> >>>>>>>> ##
> >>>>>>>> ##
> >>>>>>>> ########
> >>>>>>>>
> >>>>>>>> -I../../src -I../../include
> >>>>>>>> -DGMXLIBDIR=\"/usr/local/gromacs/share/top\" -I/usr/local/
> >>>>>>>> include
> >>>>>>>> -r12000 -mips4 -O3 -OPT:IEEE_arithmetic=3 -OPT:rsqrt=ON
> >>>>>>>> -SWP:loop_overhead -INLINE:=ON -LNO:opt=1 -LNO:ou_further=3
> >>>>>>>> -OPT:Olimit=0:roundoff=3:alias=typed -woff 1174 -
> >>>>>>>> D__INLINE_INTRINSICS
> >>>>>>>> -c -o qm_gaussian.lo qm_gaussian.c
> >>>>>>>> cc -DHAVE_CONFIG_H -I. -I. -I../../src -I../../include
> >>>>>>>> -DGMXLIBDIR=\"/usr/local/gromacs/share/top\" -I/usr/local/
> >>>>>>>> include
> >>>>>>>> -r12000 -mips4 -O3 -OPT:IEEE_arithmetic=3 -OPT:rsqrt=ON
> >>>>>>>> -SWP:loop_overhead -INLINE:=ON -LNO:opt=1 -LNO:ou_further=3
> >>>>>>>> -OPT:Olimit=0:roundoff=3:alias=typed -woff 1174 -
> >>>>>>>> D__INLINE_INTRINSICS
> >>>>>>>> -c qm_gaussian.c -Wp,-MDupdate,.deps/qm_gaussian.TPlo -o
> >>>>>>>> qm_gaussian.o
> >>>>>>>> source='gmx_fft_fftw3.c' object='gmx_fft_fftw3.lo'
> >>>>>>>> libtool=yes \
> >>>>>>>> DEPDIR=.deps depmode=sgi /bin/sh ../../config/depcomp \
> >>>>>>>> /bin/sh ../../libtool --tag=CC --mode=compile cc -
> >>>>>>>> DHAVE_CONFIG_H
> >>>>>>>> -I. -I. -I../../src -I../../include
> >>>>>>>> -DGMXLIBDIR=\"/usr/local/gromacs/share/top\"
> >>>>>>>> -I/usr/local/include -r12000 -mips4 -O3 -
> >>>>>>>> OPT:IEEE_arithmetic=3
> >>>>>>>> -OPT:rsqrt=ON -SWP:loop_overhead -INLINE:=ON -LNO:opt=1
> >>>>>>>> -LNO:ou_further=3 -
> >>>>>>>> OPT:Olimit=0:roundoff=3:alias=typed -
> >>>>>>>> woff
> >>>>>>>> 1174 -D__INLINE_INTRINSICS -c -o gmx_fft_fftw3.lo
> >>>>>>>> gmx_fft_fftw3.c
> >>>>>>>> cc -DHAVE_CONFIG_H -I. -I. -I../../src -I../../include
> >>>>>>>> -DGMXLIBDIR=\"/usr/local/gromacs/share/top\" -I/usr/local/
> >>>>>>>> include
> >>>>>>>> -r12000 -mips4 -O3 -OPT:IEEE_arithmetic=3 -OPT:rsqrt=ON
> >>>>>>>> -SWP:loop_overhead -INLINE:=ON -LNO:opt=1 -LNO:ou_further=3
> >>>>>>>> -OPT:Olimit=0:roundoff=3:alias=typed -woff 1174 -
> >>>>>>>> D__INLINE_INTRINSICS
> >>>>>>>> -c gmx_fft_fftw3.c -Wp,-MDupdate,.deps/gmx_fft_fftw3.TPlo -o
> >>>>>>>> gmx_fft_fftw3.o
> >>>>>>>> cc-3316 cc: ERROR File = gmx_fft_fftw3.c, Line = 186
> >>>>>>>> The expression must be a pointer to a complete object type.
> >>>>>>>>
> >>>>>>>> pc += 8;
> >>>>>>>> ^
> >>>>>>>>
> >>>>>>>> cc-3316 cc: ERROR File = gmx_fft_fftw3.c, Line = 190
> >>>>>>>> The expression must be a pointer to a complete object type.
> >>>>>>>>
> >>>>>>>> pc += 8;
> >>>>>>>> ^
> >>>>>>>>
> >>>>>>>> 2 errors detected in the compilation of "gmx_fft_fftw3.c".
> >>>>>>>> *** Error code 1 (bu21)
> >>>>>>>> *** Error code 1 (bu21)
> >>>>>>>> *** Error code 1 (bu21)
> >>>>>>>> *** Error code 1 (bu21)
> >>>>>>>> ###############################################################
> >>>>>>>> ##
> >>>>>>>> ##
> >>>>>>>> ##########
> >>>>>>>>
> >>>>>>>>
> >>>>>>>> I am desparate to compile in SGI , Please help me.
> >>>>>>>>
> >>>>>>>> With thanks !
> >>>>>>>> B.Nataraj
> >>>>>>>> -- raja
> >>>>>>>> raja_28 at fastmail.us
> >>>>>>>>
> >>>>>>>> --http://www.fastmail.fm - Access all of your messages and
> >>>>>>>> folders
> >>>>>>>> wherever you are
> >>>>>>>>
> >>>>>>>> _______________________________________________
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> >>>>>>>
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> >>>>>>
> >>>>>> --
> >>>>>> 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
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> >>>>> raja
> >>>>> raja_28 at fastmail.us
> >>>>>
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> >>> raja_28 at fastmail.us
> >>>
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> > raja
> > raja_28 at fastmail.us
> >
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--
raja
raja_28 at fastmail.us
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