[Nek5000-users] intel compilers

Sat Sep 30 04:46:17 CDT 2017

makenek realclean

On 30 Sep 2017, at 06:37, "nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> " <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> > wrote:

Thanks a lot, Philipp, for you feedback. I know what you mean: ./makenek clean. Am I right?
I use this command. It works with gnu compilers, but when i compile nek with intel ( mpiifort and mpiicc ) it doesn't.

During the compilation a get two types of string in my console: this 

mpiicc  -c  -O2  -DNEKNEK -DMPI -DUNDERSCORE -DTIMER  /home/itp/ryzhenkov/Nek5000/core/3rd_party/finiparser.c -o obj/finiparser.o;

and this

/home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(gs.o): In function `cr_exec': gs.c:(.text+0x322): undefined reference to `ompi_mpi_unsigned_char'.

It seems like in one part ( Nek5000/core/3rd_party/ ) all options set properly, but in another part ( Nek5000/3rd_party/gslib/src ) links to mpi library are absent.

Regards, Vatlav.

> you need to clean the object files in gs lib.
> makenek realclean I think is the command.
> Best regards,
> Philipp
>
>  On 2017-09-29 11:56, nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> wrote:
>> Hi Neks!
>>
>> How to compile new version of Nek with mpiifort and mpiicc?
>>
>> When i try to do that a catch errors like:
>>
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(gs.o): In
>> function `cr_exec':
>> gs.c:(.text+0x322): undefined reference to `ompi_mpi_unsigned_char'
>> gs.c:(.text+0x388): undefined reference to `ompi_mpi_unsigned_char'
>> gs.c:(.text+0x3d5): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(gs.o): In
>> function `pw_exec':
>> gs.c:(.text+0x56f): undefined reference to `ompi_mpi_unsigned_char'
>> gs.c:(.text+0x629): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(gs.o):gs.c:(.text+0x1f8b):
>> more undefined references to `ompi_mpi_unsigned_char' follow
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(gs.o): In
>> function `gs_setup_pick_':
>> gs.c:(.text+0x3a1b): undefined reference to `MPI_Comm_f2c'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(crystal.o): In
>> function `gslibcrystal_router':
>> crystal.c:(.text+0x30e): undefined reference to `ompi_mpi_unsigned_char'
>> crystal.c:(.text+0x34a): undefined reference to `ompi_mpi_unsigned_char'
>> crystal.c:(.text+0x3e0): undefined reference to `ompi_mpi_unsigned_char'
>> crystal.c:(.text+0x4d3): undefined reference to `ompi_mpi_unsigned_char'
>> crystal.c:(.text+0x51b): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(crystal.o):crystal.c:(.text+0x585):
>> more undefined references to `ompi_mpi_unsigned_char' follow
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(comm.o): In
>> function `gslibcomm_allreduce.part.4':
>> comm.c:(.text+0x4b): undefined reference to `ompi_mpi_float'
>> comm.c:(.text+0xf1): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x163): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x18c): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x243): undefined reference to `ompi_mpi_op_max'
>> comm.c:(.text+0x297): undefined reference to `ompi_mpi_int'
>> comm.c:(.text+0x2a7): undefined reference to `ompi_mpi_op_prod'
>> comm.c:(.text+0x2b3): undefined reference to `ompi_mpi_long'
>> comm.c:(.text+0x2c3): undefined reference to `ompi_mpi_long_long_int'
>> comm.c:(.text+0x2d3): undefined reference to `ompi_mpi_double'
>> comm.c:(.text+0x2e3): undefined reference to `ompi_mpi_op_min'
>> comm.c:(.text+0x2f3): undefined reference to `ompi_mpi_op_sum'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(comm.o): In
>> function `gslibcomm_scan':
>> comm.c:(.text+0x441): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x468): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x4ed): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x51b): undefined reference to `ompi_mpi_unsigned_char'
>> comm.c:(.text+0x56b): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(comm.o):comm.c:(.text+0x600):
>> more undefined references to `ompi_mpi_unsigned_char' follow
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(fcrystal.o): In
>> function `crystal_setup_':
>> fcrystal.c:(.text+0x59): undefined reference to `MPI_Comm_f2c'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(fcrs.o): In
>> function `crs_setup_':
>> fcrs.c:(.text+0x3e): undefined reference to `MPI_Comm_f2c'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(findpts.o): In
>> function `comm_init_check_.constprop.8':
>> findpts.c:(.text+0x186): undefined reference to `MPI_Comm_f2c'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(xxt.o): In
>> function `sum':
>> xxt.c:(.text+0x154): undefined reference to `ompi_mpi_unsigned_char'
>> xxt.c:(.text+0x1c8): undefined reference to `ompi_mpi_unsigned_char'
>> xxt.c:(.text+0x21c): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(xxt.o): In
>> function `apply_QQt':
>> xxt.c:(.text+0x313): undefined reference to `ompi_mpi_unsigned_char'
>> xxt.c:(.text+0x3c8): undefined reference to `ompi_mpi_unsigned_char'
>> /home/itp/ryzhenkov/Nek5000/3rd_party/gslib/src/libgs.a(xxt.o):xxt.c:(.text+0x41b):
>> more undefined references to `ompi_mpi_unsigned_char' follow.
>>
>> It looks like there are no links to mpi library.
>>
>> With old version compilation successful.
>>
>> Regards, Vatslav
>>
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