Hello, Scott: I run the command you said, and it doesn’t work:
“ustc@USTC-PC:~$ mpiexec -n 6 t_mpi [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory) [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory) [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory) [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory) [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory) [proxy:0:0@USTC-PC] HYDU_create_process (../../utils/launch/launch.c:825): execvp error on file t_mpi (No such file or directory)” How can I fix this problem? Best Regards Jie Jiang > 在 2017年12月1日，下午11:53，Scot Breitenfeld <[email protected]> 写道： > > Can you run the program “t_mpi” by itself and see if that works, > > mpiexec -n 6 t_mpi > > It looks like make check is only running with one process, which is > controlled by the environment variable RUNPARALLEL, and I do see it is > getting set correctly during build: > > RUNPARALLEL='mpiexec -n $${NPROCS:=6}' > > Scot > >> On Dec 1, 2017, at 3:32 AM, 江捷 <[email protected] >> <mailto:[email protected]>> wrote: >> >> Hello, Scot: >> >> Thank you for your reply. I patch the Fortran source for Intel 18, and then >> configure with the command: >> "FC=/usr/local/bin/mpif90 ./configure --enable-parallel >> --prefix=/usr/local/hdf5 --enable-fortran --enable-shared" >> and then "make", no problem, but when I "make check", it has the followting >> errors: >> >> "Test if MPI_File_get_size works correctly with MPItest.h5 >> ***FAILED with 110592 total errors >> -------------------------------- >> Proc 0: *** MPIO independent overlapping writes... >> -------------------------------- >> Need at least 2 processes to run MPIO test. >> -SKIP- >> -------------------------------- >> Proc 0: *** MPIO complicated derived datatype test... >> -------------------------------- >> -------------------------------- >> Proc 0: *** MPIO special collective io test SKIPPED. >> -------------------------------- >> This test needs at least four processes to run. >> =================================== >> ***MPI tests detected 110592 errors*** >> =================================== >> Command exited with non-zero status 1 >> 0.22user 0.11system 0:00.36elapsed 92%CPU (0avgtext+0avgdata >> 12560maxresident)k >> 0inputs+73960outputs (0major+19477minor)pagefaults 0swaps >> Makefile:1400: recipe for target 't_mpi.chkexe_' failed >> make[4]: *** [t_mpi.chkexe_] Error 1 >> make[4]: Leaving directory '/home/ustc/下载/hdf5-1.10.1/testpar' >> Makefile:1475: recipe for target 'build-check-p' failed >> make[3]: *** [build-check-p] Error 1 >> make[3]: Leaving directory '/home/ustc/下载/hdf5-1.10.1/testpar' >> Makefile:1380: recipe for target 'test' failed >> make[2]: *** [test] Error 2 >> make[2]: Leaving directory '/home/ustc/下载/hdf5-1.10.1/testpar' >> Makefile:1180: recipe for target 'check-am' failed >> make[1]: *** [check-am] Error 2 >> make[1]: Leaving directory '/home/ustc/下载/hdf5-1.10.1/testpar' >> Makefile:650: recipe for target 'check-recursive' failed >> make: *** [check-recursive] Error 1" >> >> I have attached the configure.out, make.out, check.out and config.log. >> >> Bests Regards >> Jie Jiang >> >> -----原始邮件----- >> 发件人:"Scot Breitenfeld" <[email protected] <mailto:[email protected]>> >> 发送时间:2017-11-30 23:09:16 (星期四) >> 收件人: "HDF Users Discussion List" <[email protected] >> <mailto:[email protected]>> >> 抄送: >> 主题: [SPAM] Re: [Hdf-forum] Errors when install HDF5 >> >> Did you patch the Fortran source for Intel 18? >> >> https://software.intel.com/en-us/forums/intel-fortran-compiler-for-linux-and-mac-os-x/topic/747951 >> >> <https://software.intel.com/en-us/forums/intel-fortran-compiler-for-linux-and-mac-os-x/topic/747951> >> >> Scot >> >>> On Nov 30, 2017, at 8:13 AM, 江捷 <[email protected] >>> <mailto:[email protected]>> wrote: >>> >>> Hello Barbara, >>> >>> Thank you for your reply. I reinstall my ifort2018 and read the readme >>> carefully, change the figure line to the following two choices: >>> "FC=/opt/intel/bin/ifort ./configure --prefix=/usr/local/hdf5 >>> --enable-fortran" >>> "FC=/usr/local/bin/mpif90 ./configure --enable-parallel >>> --prefix=/usr/local/hdf5 --enable-fortran" >>> >>> and then "make", but both of them have the same error: >>> "compilation aborted for H5f90global.F90 (code 1) >>> Makefile:996: recipe for target 'H5f90global.lo' failed >>> make[3]: *** [H5f90global.lo] Error 1 >>> make[3]: Leaving directory '/home/ustc/Download/hdf5-1.10.1/fortran/src' >>> Makefile:864: recipe for target 'all' failed >>> make[2]: *** [all] Error 2 >>> make[2]: Leaving directory '/home/ustc/Download/hdf5-1.10.1/fortran/src' >>> Makefile:811: recipe for target 'all-recursive' failed >>> make[1]: *** [all-recursive] Error 1 >>> make[1]: Leaving directory '/home/ustc/Download/hdf5-1.10.1/fortran' >>> Makefile:650: recipe for target 'all-recursive' failed >>> make: *** [all-recursive] Error 1" >>> >>> I have already add: >>> "source >>> /opt/intel/compilers_and_libraries_2018.1.163/linux/bin/compilervars.sh >>> intel64" >>> "export LD_LIBRARY_PATH=/usr/local/hdf5:${LD_LIBRARY_PATH}" >>> to my .bashrc >>> >>> Best Regards, >>> >>> Jie >>> >>> >>> -----原始邮件----- >>> 发件人:"Barbara Jones" <[email protected] <mailto:[email protected]>> >>> 发送时间:2017-11-20 23:36:39 (星期一) >>> 收件人: "HDF Users Discussion List" <[email protected] >>> <mailto:[email protected]>> >>> 抄送: "HDF Helpdesk" <[email protected] <mailto:[email protected]>> >>> 主题: Re: [Hdf-forum] Errors when install HDF5 >>> >>> Hello Jie, >>> >>> It looks like your HDF5 library is good. (Though the prefix directory >>> specified on the configure line is “usr/local/hdf5” and *not* >>> “/usr/local/hdf5”.) >>> >>> Regarding the error, there are examples in the share/ directory of the >>> built binaries that the “make check-install” is unsuccessfully attempting >>> to compile and run. >>> It is possible that the “make check-install” cannot find the HDF5 >>> libraries. You could try setting the path to the HDF5 libraries in >>> LD_LIBRARY_PATH to see if that helps (if building shared libraries). >>> >>> You can also run the examples manually to see if that yields more >>> information: >>> · Go to the location of your built HDF5 binaries. You will see a >>> “share” directory (in addition to include/, lib/, etc..). >>> · Go into share/hdf5_examples/ and run “run-all-ex.sh”. >>> >>> Do the examples run properly? >>> >>> -Barbara >>> >>> ======================================================== >>> Barbara Jones, The HDF Group Helpdesk, [email protected] >>> <mailto:[email protected]> >>> Support Services: https://www.hdfgroup.org/support/ >>> <https://www.hdfgroup.org/support/> >>> ======================================================== >>> >>> >>> <> >>> From: Hdf-forum [mailto:[email protected] >>> <mailto:[email protected]>] On Behalf Of ?? >>> Sent: Monday, November 20, 2017 3:24 AM >>> To: [email protected] <mailto:[email protected]> >>> Subject: [Hdf-forum] Errors when install HDF5 >>> >>> Hi all: >>> >>> Recently I am going to use HDF5, I install it with following command: >>> >>> “ >>> ./configure —prefix=usr/local/hdf5 —enable-fortran >>> >>> make >>> >>> make check >>> >>> make install >>> >>> make check-install >>> " >>> >>> Everything goes well but when I run “make check-install”, it has some >>> errors say: >>> >>> >>> “ >>> Testing run-fortran-ex.sh >>> ===================== >>> ################# h5_crtdat ################# >>> Assembler messages: >>> error: can't create h5_crtdat.o: for write >>> messed up compiling h5_crtdat.f90 >>> rm: cannot remove `*.o': No such file or directory >>> rm: cannot remove `*.h5': No such file or directory >>> >>> Makefile:1207: recipe for target ‘installcheck-local’ failed >>> make[3]: *** [installcheck-local] Error 1 >>> make[3]: Leaving directory >>> `/home/ustc/Download/hdf5-1.10.1/fortran/examples’ >>> Makefile:1244: recipe for target ’installcheck-local’ failed >>> make[2]: *** [installcheck-local] Error 1 >>> make[2]: Leaving directory `/home/ustc/Download/hdf5-1.10.1/fortran’ >>> Makefile:811: recipe for target ‘installcheck-recursive’ failed >>> make[1]: *** [installcheck-recursive] Error 1 >>> make[1]: Leaving directory `/home/ustc/Download/hdf5-1.10.1/fortran’ >>> Makefile:650: recipe for target ‘installcheck-recursive’ failed >>> make: *** [installcheck-recursive] Error 1 >>> “ >>> >>> I have google a lot but it seems like a bug that haven’t been solved. I am >>> soooo puzzled by this problem, please help me. >>> >>> My Ubuntu version is 16.04, ifort version is 18.0.1. >>> >>> Best, >>> >>> Jie >>> _______________________________________________ >>> Hdf-forum is for HDF software users discussion. >>> [email protected] <mailto:[email protected]> >>> http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org >>> <http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org> >>> Twitter: https://twitter.com/hdf5 <https://twitter.com/hdf5> >> <check.out><config.log><configure.out><make.out> >
_______________________________________________ Hdf-forum is for HDF software users discussion. [email protected] http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org Twitter: https://twitter.com/hdf5
