Thanks, Mark. I inserted quotation in line 52 as Mark suggested. I tried cmake again and got the only error. Boost >= 1.44 not found. Using minimal internal version. This may cause trouble if you plan on compiling/linking other software that uses Boost against GROMACS.
I don't know what the error means, but I did make and make install. After finished, I checked /bin directory. But almost all commands which we need to execute(i.g mdrun, trjconv...) were not generated. Actually, onlyI the following file were generated in bin directory. bin/ bin/xplor2gmx.pl bin/GMXRC.bash bin/gmx-completion-gmx_mpi.bash bin/demux.pl bin/GMXRC.zsh bin/GMXRC bin/gmx-completion.bash bin/GMXRC.csh bin/gmx_mpi What causes this problem? 2015/08/20 21:44、Mark Abraham <[email protected]> のメール： > Hi, > > You should change line 52 from what it is, to what I suggested - which > inserts quotation marks around one of the variable interpolations. > > Mark > > On Thu, Aug 20, 2015 at 2:43 PM 岡部篤俊 <[email protected]> wrote: > >> Thanks, Peter. >> But , I mean I don’t know what line I should change to from line 52 of >> cmake/FindPhinx.cmake to solve this error. >> >> Leucer >> >> 2015/08/20 16:02、Kroon, P.C. <[email protected]> のメール： >> >>> Just use your favourite text editor. >>> >>> Peter >>> >>> On Thu, Aug 20, 2015 at 3:10 AM, <[email protected]> wrote: >>> >>>> Line 52 of cmake/FindSphinx.cmake file is written below. >>>> string(REGEX REPLACE "Sphinx \\([^)]*\\) ([^ ]+)" "\\1" >>>> SPHINX_EXECUTABLE_VERSION "${SPHINX_VERSION_OUTPUT_VARIABLE}") >>>> >>>> Can you tell me how I can change the line? >>>> >>>> Bests, >>>> Leucer >>>> >>>> >>>> 2015/08/19 23:11、Mark Abraham <[email protected]> のメッセージ: >>>> >>>>> Hi, >>>>>> On Wed, Aug 19, 2015 at 3:49 PM 岡部篤俊 <[email protected]> wrote: >>>>>> >>>>>> Hi, >>>>>> >>>>>> I am unable to compile Gromamcs 5.1 using the following cmake >> command. >>>>>> cmake .. -DGMX_FFT_LIBRARY=fftpack >>>>>> -DCMAKE_INSTALL_PREFIX=gromacs/gromacs-5.1 -DGMX_DOUBLE=off >>>>>> -DGMX_THREAD_MPI=off -DGMX_MPI=on -DGMX_CPU_ACCELERATION=SSE4.1 >>>>> >>>>> >>>>> Unrelated, but you now need to use -DGMX_SIMD=SSE4.1 to have the same >>>>> effect. >>>>> >>>>> >>>>>> -DGMX_USE_RDTSCP=off >>>>>> >>>>>> Then I got the error message. >>>>>> Boost >= 1.44 not found. Using minimal internal version. This may >> cause >>>>>> trouble if you plan on compiling/linking other software that uses >> Boost >>>>>> against GROMACS. >>>>>> CMake Error at cmake/FindSphinx.cmake:52 (string): >>>>>> string sub-command REGEX, mode REPLACE needs at least 6 arguments >> total >>>>>> to >>>>>> command. >>>>>> Call Stack (most recent call first): >>>>>> docs/CMakeLists.txt:62 (find_package) >>>>>> >>>>>> Could you advice what could be causing this error? >>>>> >>>>> We try to find Sphinx in case people want to build the new >> documentation, >>>>> but it looks like some part of the detection isn't reliable enough. Can >>>> you >>>>> please try changing line 52 of cmake/FindSphinx.cmake to read >>>>> >>>>> string(REGEX REPLACE "Sphinx \\([^)]*\\) ([^ ]+)" "\\1" >>>>> SPHINX_EXECUTABLE_VERSION "${SPHINX_VERSION_OUTPUT_VARIABLE}") >>>>> >>>>> and let us know how you go? >>>>> >>>>> Mark >>>>> >>>>> I was able to compile Gromacs 5.0 using same cmake command…. >>>>>> >>>>>> Bests, >>>>>> Leucer >>>>>> -- >>>>>> Gromacs Users mailing list >>>>>> >>>>>> * Please search the archive at >>>>>> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before >>>>>> posting! >>>>>> >>>>>> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >>>>>> >>>>>> * For (un)subscribe requests visit >>>>>> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or >>>>>> send a mail to [email protected]. >>>>> -- >>>>> Gromacs Users mailing list >>>>> >>>>> * Please search the archive at >>>> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before >>>> posting! >>>>> >>>>> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >>>>> >>>>> * For (un)subscribe requests visit >>>>> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or >>>> send a mail to [email protected]. >>>> -- >>>> Gromacs Users mailing list >>>> >>>> * Please search the archive at >>>> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before >>>> posting! >>>> >>>> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >>>> >>>> * For (un)subscribe requests visit >>>> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or >>>> send a mail to [email protected]. >>>> >>> -- >>> Gromacs Users mailing list >>> >>> * Please search the archive at >> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before >> posting! >>> >>> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >>> >>> * For (un)subscribe requests visit >>> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or >> send a mail to [email protected]. >> >> -- >> Gromacs Users mailing list >> >> * Please search the archive at >> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before >> posting! >> >> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >> >> * For (un)subscribe requests visit >> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or >> send a mail to [email protected]. > -- > Gromacs Users mailing list > > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > * For (un)subscribe requests visit > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a > mail to [email protected]. -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to [email protected].
