Re: [gmx-users] compiling problem
Just a work-around, force mpicc to point to cc. alias mpicc=cc Yang Ye On Wed, Sep 16, 2009 at 5:35 PM, Mu Yuguang (Dr) wrote: > No, even I do not use mpi , the error is still there. > > > > Regards > > Yuguang > > > -- > > *From:* gmx-users-boun...@gromacs.org [mailto: > gmx-users-boun...@gromacs.org] *On Behalf Of *Yang Ye > *Sent:* Wednesday, September 16, 2009 2:34 PM > *To:* Discussion list for GROMACS users > *Subject:* Re: [gmx-users] compiling problem > > > > Is LAM-MPI's binary in PATH? if you run mpicc from console, will it also > show "No such file or directory"? Check LAM-MPI installation. > > Regards, > Yang Ye > > On Wed, Sep 16, 2009 at 12:39 PM, Mu Yuguang (Dr) wrote: > > Hi, > I use > git clone git://git.gromacs.org/gromacs.git > > to get the lastest version > and > ./bootstrap > > To generate the configure file > Then use ./configure successfully > > Howeve, after make > The error appears as foloowing: > > > mpicc -DHAVE_CONFIG_H -I. -I. -I../../../../src -I/usr/X11R6/include > -I/usr/include/libxml2 -I../../../../include > -DGMXLIBDIR=\"/home/ygmu/software/gmx_cvs/gromacs/share/top\" > -I/home/ygmu/software/fftw-3.2/float/include -O3 -fomit-frame-pointer > -finline-functions -Wall -Wno-unused -msse2 -funroll-all-loops -std=gnu99 > -MT nb_kernel400_x86_64_sse.lo -MD -MP -MF .deps/nb_kernel400_x86_64_sse.Tpo > -c nb_kernel400_x86_64_sse.c -o nb_kernel400_x86_64_sse.o > nb_kernel400_x86_64_sse.c: In function `nb_kernel400_x86_64_sse': > nb_kernel400_x86_64_sse.c:93: warning: implicit declaration of function > `_mm_castsi128_ps' > nb_kernel400_x86_64_sse.c:93: error: invalid initializer > nb_kernel400_x86_64_sse.c:94: error: invalid initializer > nb_kernel400_x86_64_sse.c:95: error: invalid initializer > mpicc: No such file or directory > make[5]: *** [nb_kernel400_x86_64_sse.lo] Error 1 > > Regards > > Yuguang > ___ > gmx-users mailing listgmx-users@gromacs.org > 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 gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > > > > > -- > Regards, > Yang Ye > > ___ > gmx-users mailing listgmx-users@gromacs.org > 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 gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > -- Regards, Yang Ye ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
RE: [gmx-users] compiling problem
No, even I do not use mpi , the error is still there. Regards Yuguang From: gmx-users-boun...@gromacs.org [mailto:gmx-users-boun...@gromacs.org] On Behalf Of Yang Ye Sent: Wednesday, September 16, 2009 2:34 PM To: Discussion list for GROMACS users Subject: Re: [gmx-users] compiling problem Is LAM-MPI's binary in PATH? if you run mpicc from console, will it also show "No such file or directory"? Check LAM-MPI installation. Regards, Yang Ye On Wed, Sep 16, 2009 at 12:39 PM, Mu Yuguang (Dr) mailto:y...@ntu.edu.sg>> wrote: Hi, I use git clone git://git.gromacs.org/gromacs.git<http://git.gromacs.org/gromacs.git> to get the lastest version and ./bootstrap To generate the configure file Then use ./configure successfully Howeve, after make The error appears as foloowing: mpicc -DHAVE_CONFIG_H -I. -I. -I../../../../src -I/usr/X11R6/include -I/usr/include/libxml2 -I../../../../include -DGMXLIBDIR=\"/home/ygmu/software/gmx_cvs/gromacs/share/top\" -I/home/ygmu/software/fftw-3.2/float/include -O3 -fomit-frame-pointer -finline-functions -Wall -Wno-unused -msse2 -funroll-all-loops -std=gnu99 -MT nb_kernel400_x86_64_sse.lo -MD -MP -MF .deps/nb_kernel400_x86_64_sse.Tpo -c nb_kernel400_x86_64_sse.c -o nb_kernel400_x86_64_sse.o nb_kernel400_x86_64_sse.c: In function `nb_kernel400_x86_64_sse': nb_kernel400_x86_64_sse.c:93: warning: implicit declaration of function `_mm_castsi128_ps' nb_kernel400_x86_64_sse.c:93: error: invalid initializer nb_kernel400_x86_64_sse.c:94: error: invalid initializer nb_kernel400_x86_64_sse.c:95: error: invalid initializer mpicc: No such file or directory make[5]: *** [nb_kernel400_x86_64_sse.lo] Error 1 Regards Yuguang ___ gmx-users mailing listgmx-users@gromacs.org<mailto:gmx-users@gromacs.org> 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 gmx-users-requ...@gromacs.org<mailto:gmx-users-requ...@gromacs.org>. Can't post? Read http://www.gromacs.org/mailing_lists/users.php -- Regards, Yang Ye ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
Re: [gmx-users] compiling problem
Yang Ye wrote: Is LAM-MPI's binary in PATH? if you run mpicc from console, will it also show "No such file or directory"? Check LAM-MPI installation. Does 4.0.5 compile under the same conditions as the failure below? Mark On Wed, Sep 16, 2009 at 12:39 PM, Mu Yuguang (Dr) wrote: Hi, I use git clone git://git.gromacs.org/gromacs.git to get the lastest version and ./bootstrap To generate the configure file Then use ./configure successfully Howeve, after make The error appears as foloowing: mpicc -DHAVE_CONFIG_H -I. -I. -I../../../../src -I/usr/X11R6/include -I/usr/include/libxml2 -I../../../../include -DGMXLIBDIR=\"/home/ygmu/software/gmx_cvs/gromacs/share/top\" -I/home/ygmu/software/fftw-3.2/float/include -O3 -fomit-frame-pointer -finline-functions -Wall -Wno-unused -msse2 -funroll-all-loops -std=gnu99 -MT nb_kernel400_x86_64_sse.lo -MD -MP -MF .deps/nb_kernel400_x86_64_sse.Tpo -c nb_kernel400_x86_64_sse.c -o nb_kernel400_x86_64_sse.o nb_kernel400_x86_64_sse.c: In function `nb_kernel400_x86_64_sse': nb_kernel400_x86_64_sse.c:93: warning: implicit declaration of function `_mm_castsi128_ps' nb_kernel400_x86_64_sse.c:93: error: invalid initializer nb_kernel400_x86_64_sse.c:94: error: invalid initializer nb_kernel400_x86_64_sse.c:95: error: invalid initializer mpicc: No such file or directory make[5]: *** [nb_kernel400_x86_64_sse.lo] Error 1 Regards Yuguang ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
Re: [gmx-users] compiling problem
Is LAM-MPI's binary in PATH? if you run mpicc from console, will it also show "No such file or directory"? Check LAM-MPI installation. Regards, Yang Ye On Wed, Sep 16, 2009 at 12:39 PM, Mu Yuguang (Dr) wrote: > Hi, > I use > git clone git://git.gromacs.org/gromacs.git > > to get the lastest version > and > ./bootstrap > > To generate the configure file > Then use ./configure successfully > > Howeve, after make > The error appears as foloowing: > > > mpicc -DHAVE_CONFIG_H -I. -I. -I../../../../src -I/usr/X11R6/include > -I/usr/include/libxml2 -I../../../../include > -DGMXLIBDIR=\"/home/ygmu/software/gmx_cvs/gromacs/share/top\" > -I/home/ygmu/software/fftw-3.2/float/include -O3 -fomit-frame-pointer > -finline-functions -Wall -Wno-unused -msse2 -funroll-all-loops -std=gnu99 > -MT nb_kernel400_x86_64_sse.lo -MD -MP -MF .deps/nb_kernel400_x86_64_sse.Tpo > -c nb_kernel400_x86_64_sse.c -o nb_kernel400_x86_64_sse.o > nb_kernel400_x86_64_sse.c: In function `nb_kernel400_x86_64_sse': > nb_kernel400_x86_64_sse.c:93: warning: implicit declaration of function > `_mm_castsi128_ps' > nb_kernel400_x86_64_sse.c:93: error: invalid initializer > nb_kernel400_x86_64_sse.c:94: error: invalid initializer > nb_kernel400_x86_64_sse.c:95: error: invalid initializer > mpicc: No such file or directory > make[5]: *** [nb_kernel400_x86_64_sse.lo] Error 1 > > Regards > > Yuguang > ___ > gmx-users mailing listgmx-users@gromacs.org > 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 gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/mailing_lists/users.php > -- Regards, Yang Ye ___ gmx-users mailing listgmx-users@gromacs.org 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 gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
