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) y...@ntu.edu.sg 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) y...@ntu.edu.sg 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
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) y...@ntu.edu.sg 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
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) y...@ntu.edu.sg 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
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) y...@ntu.edu.sgmailto:y...@ntu.edu.sg wrote: Hi, I use git clone git://git.gromacs.org/gromacs.githttp://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.orgmailto: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.orgmailto: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
