[mpich-discuss] linking MPI
Gus Correa
gus at ldeo.columbia.edu
Mon Oct 24 11:46:16 CDT 2011
HI Carolina
It is easier to use the MPI compiler wrapper than the
bare compiler, because the wrapper knows the MPI libraries it needs,
the MPI include files it needs, and where to find them.
I.e. try to change the F90 macro in the makefile to
F90=/your/path/to/mpich2/bin/mpif90
My two cents,
Gus Correa
Carolina Carneiro wrote:
> Hi,
>
> I'm having problems to use the command make to compile a makefile. I'm
> trying to link the makefile to the MPI library, but it isn't working.
> Several errors are appearing:
>
> root at carol-HP-Pavilion-dv5-Notebook-PC:/home/carol/mocassin/mocassin.2.02.69#
> make mocassin
> /opt/intel/composer_xe_2011_sp1.6.233/composer_xe_2011_sp1.6.233/bin/intel64/ifort
> -O5 -o mocassin source/infnan.f90 source/constants_mod.f90
> source/vector_mod.f90 source/common_mod.f90 source/interpolation_mod.f90
> source/set_input_mod.f90 source/hydro_mod.f90 source/ph_mod.f90
> source/composition_mod.f90 source/continuum_mod.f90
> source/ionization_mod.f90 source/pathIntegration_mod.f90
> source/grid_mod.f90 source/dust_mod.f90 source/emission_mod.f90
> source/photon_mod.f90 source/update_mod.f90 source/output_mod.f90
> source/iteration_mod.f90 source/mocassin.f90
> -l/home/carol/mocassin/mpich2install/include
> source/common_mod.f90(240): warning #6379: The structure contains one or
> more misaligned fields. [GRID_TYPE]
> type grid_type ! derived grid type
> ---------^
> source/grid_mod.f90(491): error #5102: Cannot open include file 'mpif.h'
> include 'mpif.h'
> ----------------^
> compilation aborted for source/grid_mod.f90 (code 1)
> source/dust_mod.f90(17): error #5102: Cannot open include file 'mpif.h'
> include 'mpif.h'
> --------------^
> source/dust_mod.f90(97): error #6404: This name does not have a type,
> and must have an explicit type. [MPI_REAL]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> ------------------------------^
> source/dust_mod.f90(97): error #6404: This name does not have a type,
> and must have an explicit type. [MPI_SUM]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> ----------------------------------------^
> source/dust_mod.f90(97): error #6404: This name does not have a type,
> and must have an explicit type. [MPI_COMM_WORLD]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> -------------------------------------------------^
> compilation aborted for source/dust_mod.f90 (code 1)
> source/emission_mod.f90(8): error #7013: This module file was not
> generated by any release of this compiler. [GRID_MOD]
> use grid_mod
> --------^
> source/emission_mod.f90(217): error #6404: This name does not have a
> type, and must have an explicit type. [GETVOLUME]
> dV = getVolume(grid,ix,iy,iz)
> -------------^
> source/emission_mod.f90(536): error #6404: This name does not have a
> type, and must have an explicit type. [HLEVXSECP]
> phXSecHI = xSecArray(i-HIPnuP+1+HlevXSecP(1)-1)
> ---------------------------------------------^
> source/emission_mod.f90(545): error #6404: This name does not have a
> type, and must have an explicit type. [HEISINGXSECP]
> phXSecHeI = xSecArray(i-HeIPnuP+1+HeISingXSecP(1)-1)
> --------------------------------------------------^
> source/emission_mod.f90(553): error #6404: This name does not have a
> type, and must have an explicit type. [HEIIXSECP]
> phXSecHeII = xSecArray(i-HeIIPnuP+1+HeIIXSecP(1)-1)
> --------------------------------------------------------^
> source/emission_mod.f90(3109): remark #8291: Recommended relationship
> between field width 'W' and the number of fractional digits 'D' in this
> edit descriptor is 'W>=D+7'.
>
> read(unit=19,fmt='(A2,I2,1x,A23,11x,A7,1x,F9.4,7x,F9.6,4x,F12.6,1x,I2,1x,I2,1x,E8.2,1x,E8.2,1x,I2)',
> &
> -----------------------------------------------------------------------------------------^
> source/emission_mod.f90(3109): remark #8291: Recommended relationship
> between field width 'W' and the number of fractional digits 'D' in this
> edit descriptor is 'W>=D+7'.
>
> read(unit=19,fmt='(A2,I2,1x,A23,11x,A7,1x,F9.4,7x,F9.6,4x,F12.6,1x,I2,1x,I2,1x,E8.2,1x,E8.2,1x,I2)',
> &
> -------------------------------------------------------------------------------------------------^
> compilation aborted for source/emission_mod.f90 (code 1)
> source/photon_mod.f90(9): error #7013: This module file was not
> generated by any release of this compiler. [GRID_MOD]
> use grid_mod
> --------^
> compilation aborted for source/photon_mod.f90 (code 1)
> source/update_mod.f90(8): error #7013: This module file was not
> generated by any release of this compiler. [EMISSION_MOD]
> use emission_mod
> --------^
> source/update_mod.f90(234): error #6404: This name does not have a type,
> and must have an explicit type. [HLEVXSECP]
> phXSec = xSecArray(j-IPnuP+1+HlevXSecP(1)-1)
> ---------------------------------------------------^
> source/update_mod.f90(238): error #6404: This name does not have a type,
> and must have an explicit type. [HEISINGXSECP]
> phXSec = xSecArray(j-IPnuP+1+HeISingXSecP(1)-1)
> ---------------------------------------------------^
> source/update_mod.f90(242): error #6404: This name does not have a type,
> and must have an explicit type. [HEIIXSECP]
> phXSec = xSecArray(j-IPnuP+1+HeIIXSecP(1)-1)
> ---------------------------------------------------^
> source/update_mod.f90(1304): error #6632: Keyword arguments are invalid
> without an explicit interface. [FILE_NAME]
> call equilibrium(file_name=dataFile(elem, ion), &
> ------------------------------------------^
> source/update_mod.f90(1305): error #6632: Keyword arguments are invalid
> without an explicit interface. [IONDENUP]
>
> &ionDenUp=ionDenUsed(elementXref(elem),ion+1)/&
> -------------------------------^
> source/update_mod.f90(1306): error #6632: Keyword arguments are invalid
> without an explicit interface. [TE]
> &ionDenUsed(elementXref(elem),ion),
> Te=TeUsed,&
> ------------------------------------------------------------------^
> source/update_mod.f90(1307): error #6632: Keyword arguments are invalid
> without an explicit interface. [NE]
> &Ne=NeUsed, FlineEm=forbiddenLinesLarge(&
> -------------------------------^
> source/update_mod.f90(1307): error #6632: Keyword arguments are invalid
> without an explicit interface. [FLINEEM]
> &Ne=NeUsed, FlineEm=forbiddenLinesLarge(&
> ------------------------------------------^
> source/update_mod.f90(1310): error #6632: Keyword arguments are invalid
> without an explicit interface. [FILE_NAME]
> call equilibrium(file_name=dataFile(elem, ion), &
> ------------------------------------------^
> source/update_mod.f90(1311): error #6632: Keyword arguments are invalid
> without an explicit interface. [IONDENUP]
> &ionDenUp=0., Te=TeUsed,&
> -------------------------------^
> source/update_mod.f90(1311): error #6632: Keyword arguments are invalid
> without an explicit interface. [TE]
> &ionDenUp=0., Te=TeUsed,&
> --------------------------------------------^
> source/update_mod.f90(1312): error #6632: Keyword arguments are invalid
> without an explicit interface. [NE]
> &Ne=NeUsed, FlineEm=forbiddenLinesLarge(&
> -------------------------------^
> source/update_mod.f90(1312): error #6632: Keyword arguments are invalid
> without an explicit interface. [FLINEEM]
> &Ne=NeUsed, FlineEm=forbiddenLinesLarge(&
> ------------------------------------------^
> source/update_mod.f90(2033): error #6404: This name does not have a
> type, and must have an explicit type. [RESLINE]
> do imul = 1, resLine(iL)%nmul
> ----------------------------^
> source/update_mod.f90(2033): error #6837: The leftmost part-ref in a
> data-ref can not be a function reference. [RESLINE]
> do imul = 1, resLine(iL)%nmul
> ----------------------------^
> source/update_mod.f90(2033): error #6158: The structure-name is invalid
> or is missing. [RESLINE]
> do imul = 1, resLine(iL)%nmul
> ----------------------------^
> source/update_mod.f90(2034): error #6837: The leftmost part-ref in a
> data-ref can not be a function reference. [RESLINE]
> if (resLine(iL)%elem==1) then
> ----------------------^
> source/update_mod.f90(2034): error #6158: The structure-name is invalid
> or is missing. [RESLINE]
> if (resLine(iL)%elem==1) then
> ----------------------^
> source/update_mod.f90(2034): internal error: Please visit
> 'http://www.intel.com/software/products/support' for assistance.
> if (resLine(iL)%elem==1) then
> ^
> [ Aborting due to internal error. ]
> compilation aborted for source/update_mod.f90 (code 1)
> source/output_mod.f90(6): error #7013: This module file was not
> generated by any release of this compiler. [EMISSION_MOD]
> use emission_mod
> --------^
> source/output_mod.f90(342): error #6404: This name does not have a type,
> and must have an explicit type. [LOG10TE]
> log10Te = log10(TeUsed)
> -----------------------^
> source/output_mod.f90(343): error #6404: This name does not have a type,
> and must have an explicit type. [LOG10NE]
> log10Ne = log10(NeUsed)
> -----------------------^
> source/output_mod.f90(344): error #6404: This name does not have a type,
> and must have an explicit type. [SQRTEUSED]
> sqrTeUsed = sqrt(TeUsed)
> -----------------------^
> source/output_mod.f90(370): error #6410: This name has not been declared
> as an array or a function. [HIRECLINES]
> HIRecLines(iup, ilow) = &
> --------------------------------^
> source/output_mod.f90(370): internal error: Please visit
> 'http://www.intel.com/software/products/support' for assistance.
> HIRecLines(iup, ilow) = &
> ^
> [ Aborting due to internal error. ]
> compilation aborted for source/output_mod.f90 (code 1)
> source/iteration_mod.f90(35): error #5102: Cannot open include file 'mpif.h'
> include 'mpif.h'
> -------------------^
> source/iteration_mod.f90(7): error #7013: This module file was not
> generated by any release of this compiler. [EMISSION_MOD]
> use emission_mod
> --------^
> source/iteration_mod.f90(103): error #6404: This name does not have a
> type, and must have an explicit type. [BJUMPTEMP]
> BjumpTemp = 0.
> -----------------^
> source/iteration_mod.f90(153): error #6404: This name does not have a
> type, and must have an explicit type. [MPI_REAL]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> ------------------------^
> source/iteration_mod.f90(153): error #6404: This name does not have a
> type, and must have an explicit type. [MPI_SUM]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> ----------------------------------^
> source/iteration_mod.f90(153): error #6404: This name does not have a
> type, and must have an explicit type. [MPI_COMM_WORLD]
> & mpi_real, mpi_sum, mpi_comm_world, ierr)
> -------------------------------------------^
> source/iteration_mod.f90(477): error #6404: This name does not have a
> type, and must have an explicit type. [TOTALESCAPED]
> totalEscaped = 0.
> -----------^
> source/iteration_mod.f90(543): error #6632: Keyword arguments are
> invalid without an explicit interface. [ISTAR]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> --------------------------------------------------------^
> source/iteration_mod.f90(543): error #6632: Keyword arguments are
> invalid without an explicit interface. [N]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> ----------------------------------------------------------------^
> source/iteration_mod.f90(543): error #6632: Keyword arguments are
> invalid without an explicit interface. [GRID]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> ------------------------------------------------------------------------^
> source/iteration_mod.f90(544): error #6632: Keyword arguments are
> invalid without an explicit interface. [GPLOC]
> & gpLoc=gpLoc, cellLoc=cellLoc)
> ---------------------------------------^
> source/iteration_mod.f90(544): error #6632: Keyword arguments are
> invalid without an explicit interface. [CELLLOC]
> & gpLoc=gpLoc, cellLoc=cellLoc)
> ----------------------------------------------------^
> source/iteration_mod.f90(546): error #6632: Keyword arguments are
> invalid without an explicit interface. [ISTAR]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> --------------------------------------------------------^
> source/iteration_mod.f90(546): error #6632: Keyword arguments are
> invalid without an explicit interface. [N]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> ----------------------------------------------------------------^
> source/iteration_mod.f90(546): error #6632: Keyword arguments are
> invalid without an explicit interface. [GRID]
> call energyPacketDriver(iStar=0,n=load,
> grid=grid(1:nGrids), &
> ------------------------------------------------------------------------^
> source/iteration_mod.f90(547): error #6632: Keyword arguments are
> invalid without an explicit interface. [GPLOC]
> & gpLoc=gpLoc, cellLoc=cellLoc)
> ---------------------------------------^
> source/iteration_mod.f90(547): error #6632: Keyword arguments are
> invalid without an explicit interface. [CELLLOC]
> & gpLoc=gpLoc, cellLoc=cellLoc)
> ----------------------------------------------------^
> source/iteration_mod.f90(574): error #6404: This name does not have a
> type, and must have an explicit type. [MPI_INTEGER]
> & mpi_integer, mpi_sum, mpi_comm_world, ierr)
> ---------------------^
> compilation aborted for source/iteration_mod.f90 (code 1)
> source/mocassin.f90(43): error #5102: Cannot open include file 'mpif.h'
> include 'mpif.h'
> ------------^
> source/mocassin.f90(34): error #7002: Error in opening the compiled
> module file. Check INCLUDE paths. [DUST_MOD]
> use dust_mod
> --------^
> source/mocassin.f90(35): error #7013: This module file was not generated
> by any release of this compiler. [GRID_MOD]
> use grid_mod
> --------^
> source/mocassin.f90(55): error #6404: This name does not have a type,
> and must have an explicit type. [MPI_COMM_WORLD]
> call mpi_comm_rank(MPI_COMM_WORLD, taskid, ierr)
> -----------------------^
> compilation aborted for source/mocassin.f90 (code 1)
> make: *** [mocassin] Error 1
>
> The makefile is this:
>
> source1 = source/infnan.f90 source/constants_mod.f90
> source/vector_mod.f90 source/common_mod.f90 source/interpolation_mod.f90 \
> source/set_input_mod.f90 source/hydro_mod.f90 source/ph_mod.f90
> source/composition_mod.f90 \
> source/continuum_mod.f90 source/ionization_mod.f90
> source/pathIntegration_mod.f90 \
> source/grid_mod.f90 source/dust_mod.f90 source/emission_mod.f90
> source/photon_mod.f90 \
> source/update_mod.f90 \
> source/output_mod.f90 source/iteration_mod.f90 source/mocassin.f90
>
> source2 = source/infnan.f90 source/constants_mod.f90
> source/vector_mod.f90 source/common_mod.f90 source/interpolation_mod.f90 \
> source/set_input_mod.f90 source/hydro_mod.f90 source/ph_mod.f90
> source/composition_mod.f90 \
> source/continuum_mod.f90 source/ionization_mod.f90
> source/pathIntegration_mod.f90 \
> source/grid_mod.f90 source/dust_mod.f90 source/emission_mod.f90
> source/photon_mod.f90 \
> source/update_mod.f90 \
> source/output_mod.f90 source/iteration_mod.f90 source/mocassinWarm.f90
>
> source3 = source/infnan.f90 source/constants_mod.f90
> source/vector_mod.f90 source/common_mod.f90 source/interpolation_mod.f90 \
> source/set_input_mod.f90 source/hydro_mod.f90 source/ph_mod.f90
> source/composition_mod.f90 \
> source/continuum_mod.f90 source/ionization_mod.f90
> source/pathIntegration_mod.f90 \
> source/grid_mod.f90 source/dust_mod.f90 source/emission_mod.f90
> source/photon_mod.f90 \
> source/update_mod.f90 \
> source/output_mod.f90 source/iteration_mod.f90
> source/mocassinOutput.f90
>
> source4 = source/infnan.f90 source/constants_mod.f90
> source/vector_mod.f90 source/common_mod.f90 source/interpolation_mod.f90 \
> source/set_input_mod.f90 source/hydro_mod.f90 source/ph_mod.f90
> source/composition_mod.f90 \
> source/continuum_mod.f90 source/ionization_mod.f90
> source/pathIntegration_mod.f90 \
> source/grid_mod.f90 source/dust_mod.f90 source/emission_mod.f90
> source/photon_mod.f90 \
> source/update_mod.f90 \
> source/output_mod.f90 source/iteration_mod.f90 source/mocassinPlot.f90
>
> F90 =
> /opt/intel/composer_xe_2011_sp1.6.233/composer_xe_2011_sp1.6.233/bin/intel64/ifort
> LIBS = -l/home/carol/mocassin/mpich2install/include
> OPT1 = -O5
> OPT2 = -O5
>
> mocassin:
> $(F90) $(OPT1) -o mocassin $(source1) $(LIBS)
>
> mocassinWarm:
> $(F90) $(OPT1) -o mocassinWarm $(source2) $(LIBS)
>
> mocassinOutput:
> $(F90) $(OPT2) -o mocassinOutput $(source3) $(LIBS)
>
> mocassinPlot:
> $(F90) $(OPT2) -o mocassinPlot $(source4) $(LIBS)
>
> clean:
> /bin/rm *.o *~ *.mod mocassin mocassinWarm mocassinOutput mocassinPlot
>
> Does someone have a clue of what is the problem?
>
> Thanks,
> Carolina.
>
>
> ------------------------------------------------------------------------
>
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