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PIO1.f90 error &

  • Thread starter Deleted member 3607
  • Start date
D

Deleted member 3607

Guest
Getting two errors when trying to make init_atmosphere.


Code: 
PAS_EXE_NAME=init_atmosphere_model -DMPAS_NATIVE_TIMERS -DMPAS_GIT_VERSION=v7.3 -O3 -ffree-line-length-none -fconvert=big-endian -ffree-form -fdefault-real-8 -fdefault-double-8 -c mpas_derived_types.F -I/home/will/MPAS-A/Libs/grib2/include -I/home/will/MPAS-A/Libs/NETCDF/include -I/home/will/MPAS-A/Libs/grib2/include -I/home/will/MPAS-A/Libs/NETCDF/include -I/home/will/MPAS-A/Libs/grib2/include -I/home/will/MPAS-A/Libs/grib2/include -I/home/will/MPAS-A/Libs/NETCDF/include -I/home/will/MPAS-A/Libs/grib2/include -I/home/will/MPAS-A/Libs/NETCDF/include -I/home/will/MPAS-A/Libs/grib2/include -I../external/esmf_time_f90
mpas_io_types.inc:4:46:

    4 |    integer, parameter :: MPAS_IO_OFFSET_KIND = PIO_OFFSET
      |                                              1
Error: Parameter ‘pio_offset’ at (1) has not been declared or is a variable, which does not reduce to a constant expression
mpas_io_types.inc:70:20:

   70 |       integer (kind=MPAS_IO_OFFSET_KIND) :: frame_number = 1
      |                    1
Error: Parameter ‘mpas_io_offset_kind’ at (1) has not been declared or is a variable, which does not reduce to a constant expression



Code: 
make[1]: Entering directory '/home/will/MPAS-A/MPAS-Model'
Checking for a usable PIO library...
=> PIO 1 detected
f951: Error: Cannot open file ‘pio1.f90’
<built-in>: Fatal Error: cannot open input file: pio1.f90
compilation terminated.
f951: Error: Cannot open file ‘pio1.f90’
<built-in>: Fatal Error: cannot open input file: pio1.f90
compilation terminated.

All libraries are installed properly and exports are as followed.

Code: 
export MPAS_EXTERNAL_LIBS="-L$DIR/NETCDF/lib -L$DIR/grib2/lib -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -ldl -lz"
export MPAS_EXTERNAL_INCLUDES="-I$DIR/NETCDF/include -I$DIR/grib2/include"
export PIO=$DIR/grib2
export LD_LIBRARY_PATH=$DIR/NETCDF/lib:$LD_LIBRARY_PATH
export NETCDF=$DIR/NETCDF
export PNETCDF=$DIR/grib2
export HDF5=$DIR/grib2
 
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Deleted member 3607

Guest
Tried all the fixes listed on the forum and no luck.
 
D

Deleted member 3607

Guest
attached debug output
 

Attachments

  • make.out.txt
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D

Deleted member 3607

Guest
Tried this fix and still gets the same error

Code: 
make gfortran CORE=init_atmosphere USE_PIO2=true PRECISION=single
 
D

Deleted member 3607

Guest
There was a problem with the links for hdf5 and netcdf. Needed to link them directly.
Code: 
export MPAS_EXTERNAL_LIBS="-L$DIR/NETCDF/lib -L$DIR/grib2/lib -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -ldl -lz"
export MPAS_EXTERNAL_INCLUDES="-I$DIR/NETCDF/include -I$DIR/grib2/include"
 
M

mgduda

Administrator
Staff member
Whatheway said:
There was a problem with the links for hdf5 and netcdf. Needed to link them directly.
Code: 
export MPAS_EXTERNAL_LIBS="-L$DIR/NETCDF/lib -L$DIR/grib2/lib -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -ldl -lz"
export MPAS_EXTERNAL_INCLUDES="-I$DIR/NETCDF/include -I$DIR/grib2/include"
Click to expand...
Just to make sure I understand, you were able to successfully build after making some adjustments to the HDF5 and NetCDF links?
 
D

Deleted member 3607

Guest
mgduda said:
Whatheway said:
There was a problem with the links for hdf5 and netcdf. Needed to link them directly.
Code: 
export MPAS_EXTERNAL_LIBS="-L$DIR/NETCDF/lib -L$DIR/grib2/lib -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -ldl -lz"
export MPAS_EXTERNAL_INCLUDES="-I$DIR/NETCDF/include -I$DIR/grib2/include"
Click to expand...
Just to make sure I understand, you were able to successfully build after making some adjustments to the HDF5 and NetCDF links?
Click to expand...

Correct, for some reason due to changing the default locations of the NETCDF and other libraries the code needed them to be included to the path. So I used -I and -L and it made it work.

Still didn't like the PIO1 files not being in certain location. Kept on saying it couldn't find/open them even though they exist and can be seen. So I used PIO2 and it worked fine for compiling and installation.
 
D

daniloceano

New member
Hello.

I was not sure if I should continue the thread here or create a new post... but I am facing the same issue:

Code: 
danilocs@svante2:/scr1/danilocs/MPAS/MPAS-Model$ make -j4 gfortran CORE=init_atmosphere PRECISION=single DEBUG=true USE_PIO2=true > log_build.txt
gfortran: error: pio1.f90: Arquivo ou diretório não encontrado
gfortran: error: pio2.f90: Arquivo ou diretório não encontrado
make[6]: aviso: -jN forçado no submake: desabilitando o modo jobserver.
make[6]: aviso: -jN forçado no submake: desabilitando o modo jobserver.
mpas_log.F:42:7:

   42 |    use mpas_derived_types
      |       1
Fatal Error: Cannot read module file ‘mpas_derived_types.mod’ opened at (1), because it was created by a different version of GNU Fortran
compilation terminated.
make[3]: ** [mpas_log.o] Erro 1
make[2]: ** [frame] Erro 2
make[2]: ** Esperando que outros processos terminem.
make[1]: ** [mpas_main] Erro 2
make: ** [gfortran] Erro 2

Attached is the configuration file with export for all libraries

Any suggestions?
 
D

daniloceano

New member
Just a small update: I change the system language to english and here it its my error log

Code: 
danilocs@svante2:/scr1/danilocs/MPAS/MPAS-Model$ make -j4 gfortran CORE=init_atmosphere PRECISION=single DEBUG=true USE_PIO2=true > log_build.txt
gfortran: error: pio1.f90: No such file or directory
gfortran: error: pio2.f90: No such file or directory
make[6]: warning: -jN forced in submake: disabling jobserver mode.
make[6]: warning: -jN forced in submake: disabling jobserver mode.
mpas_log.F:42:7:

   42 |    use mpas_derived_types
      |       1
Fatal Error: Cannot read module file 'mpas_derived_types.mod' opened at (1), because it was created by a different version of GNU Fortran
compilation terminated.
make[3]: *** [mpas_log.o] Error 1
make[2]: *** [frame] Error 2
make[2]: *** Waiting for unfinished jobs....
make[1]: *** [mpas_main] Error 2
make: *** [gfortran] Error 2

And attached the error log
 

Attachments

  • log_build.txt
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D

Deleted member 3607

Guest
daniloceano said:
Hello.

I was not sure if I should continue the thread here or create a new post... but I am facing the same issue:

Code: 
danilocs@svante2:/scr1/danilocs/MPAS/MPAS-Model$ make -j4 gfortran CORE=init_atmosphere PRECISION=single DEBUG=true USE_PIO2=true > log_build.txt
gfortran: error: pio1.f90: Arquivo ou diretório não encontrado
gfortran: error: pio2.f90: Arquivo ou diretório não encontrado
make[6]: aviso: -jN forçado no submake: desabilitando o modo jobserver.
make[6]: aviso: -jN forçado no submake: desabilitando o modo jobserver.
mpas_log.F:42:7:

   42 |    use mpas_derived_types
      |       1
Fatal Error: Cannot read module file ‘mpas_derived_types.mod’ opened at (1), because it was created by a different version of GNU Fortran
compilation terminated.
make[3]: ** [mpas_log.o] Erro 1
make[2]: ** [frame] Erro 2
make[2]: ** Esperando que outros processos terminem.
make[1]: ** [mpas_main] Erro 2
make: ** [gfortran] Erro 2

Attached is the configuration file with export for all libraries

Any suggestions?
Click to expand...
@daniloceano

If you wouldn't mind creating a new post. The Admins like the board to keep different issues separated since they are usually different environments.
 
N

nloza

New member
Hello!

I am trying to compile the MPAS model, but I have been problems with thw PIO library. Someone had the same problem and could resolved it?
 

Attachments

  • Make_file_error_PIO.JPG
    Make_file_error_PIO.JPG
    217.9 KB · Views: 4
M

mgduda

Administrator
Staff member
nloza said:
Hello!

I am trying to compile the MPAS model, but I have been problems with thw PIO library. Someone had the same problem and could resolved it?
Click to expand...
Have you set the PIO environment variable to the installation path of the PIO library? What do you see if you run the commands
Code: 
echo $PIO
ls -l $PIO/lib
 
N

nloza

New member
mgduda said:
Have you set the PIO environment variable to the installation path of the PIO library? What do you see if you run the commands
Code: 
echo $PIO
ls -l $PIO/lib
Click to expand...
Yes of course, I attached a screen capture
 

Attachments

  • Make_file_error_PIO2.JPG
    Make_file_error_PIO2.JPG
    30.3 KB · Views: 2
M

mgduda

Administrator
Staff member
It looks like you may have installed a PIO 1.x version, rather than the newer PIO 2.x library, based on the presence of just a libpio.a file in your $PIO/lib directory. Is that correct?

Anyway, if you're using MPAS v8.0 or later, an alternative may be to use the SMIOL I/O library rather than PIO. To activate SMIOL at compile time, you can just unset the PIO environment variable, and SMIOL will be automatically compiled along with the rest of the MPAS source code. The only library requirement for SMIOL is the Parallel-NetCDF library, whose installation directory should be indicated by the PNETCDF environment variable.

As a side note about posting on the forum, it's better to quote the actual text from your terminal screen, rather than posting a screen shot. Text within a screenshot isn't searchable on the forum, and it's also not possible, for example, for someone to copy and paste the text in a reply.
 
N

nloza

New member
mgduda said:
It looks like you may have installed a PIO 1.x version, rather than the newer PIO 2.x library, based on the presence of just a libpio.a file in your $PIO/lib directory. Is that correct?

Anyway, if you're using MPAS v8.0 or later, an alternative may be to use the SMIOL I/O library rather than PIO. To activate SMIOL at compile time, you can just unset the PIO environment variable, and SMIOL will be automatically compiled along with the rest of the MPAS source code. The only library requirement for SMIOL is the Parallel-NetCDF library, whose installation directory should be indicated by the PNETCDF environment variable.

As a side note about posting on the forum, it's better to quote the actual text from your terminal screen, rather than posting a screen shot. Text within a screenshot isn't searchable on the forum, and it's also not possible, for example, for someone to copy and paste the text in a reply.
Click to expand...


Thank you very much for your support!!!

First, indeed the versions of the libraries were wrong.

Second, thank you very much for your support again, a part has already been solved just by compiling MPAS V8.0.1, however, during the "make" process it now shows me the following errors:



mpif90 -D_MPI -DCORE_INIT_ATMOSPHERE -DMPAS_NAMELIST_SUFFIX=init_atmosphere -DMPAS_EXE_NAME=init_atmosphere_model -DSINGLE_PRECISION -DMPAS_NATIVE_TIMERS -DMPAS_GIT_VERSION=unknown -DMPAS_BUILD_TARGET=gfortran -DMPAS_SMIOL_SUPPORT -O3 -ffree-line-length-none -fconvert=big-endian -ffree-form -c mpas_geotile_manager.F -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/MPAS-Model-8.0.1/src/external/SMIOL -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I./inc -I../framework -I../operators -I../external/esmf_time_f90
mpas_geotile_manager.F:625.27:

c_tile_ptr = c_loc(tile % tile)
1
Error: El argumento 'tile' para 'c_loc' en (1) debe ser un POINTER escalar asociado
make[3]: *** [mpas_geotile_manager.o] Error 1
make[3]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1/src/core_init_atmosphere'
make[2]: *** [dycore] Error 2
make[2]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1/src'
make[1]: *** [mpas_main] Error 2
make[1]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1'
make: *** [gfortran] Error 2
[mpas@localhost MPAS-Model-8.0.1]$
 
M

mgduda

Administrator
Staff member
nloza said:
Thank you very much for your support!!!
Click to expand...
Always glad to help!

nloza said:
Second, thank you very much for your support again, a part has already been solved just by compiling MPAS V8.0.1, however, during the "make" process it now shows me the following errors:



mpif90 -D_MPI -DCORE_INIT_ATMOSPHERE -DMPAS_NAMELIST_SUFFIX=init_atmosphere -DMPAS_EXE_NAME=init_atmosphere_model -DSINGLE_PRECISION -DMPAS_NATIVE_TIMERS -DMPAS_GIT_VERSION=unknown -DMPAS_BUILD_TARGET=gfortran -DMPAS_SMIOL_SUPPORT -O3 -ffree-line-length-none -fconvert=big-endian -ffree-form -c mpas_geotile_manager.F -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/MPAS-Model-8.0.1/src/external/SMIOL -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I/home/mpas/MPAS/Libs/netcdf/include -I/home/mpas/MPAS/Libs/grib2/include -I./inc -I../framework -I../operators -I../external/esmf_time_f90
mpas_geotile_manager.F:625.27:

c_tile_ptr = c_loc(tile % tile)
1
Error: El argumento 'tile' para 'c_loc' en (1) debe ser un POINTER escalar asociado
make[3]: *** [mpas_geotile_manager.o] Error 1
make[3]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1/src/core_init_atmosphere'
make[2]: *** [dycore] Error 2
make[2]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1/src'
make[1]: *** [mpas_main] Error 2
make[1]: se sale del directorio `/home/mpas/MPAS/MPAS-Model-8.0.1'
make: *** [gfortran] Error 2
[mpas@localhost MPAS-Model-8.0.1]$
Click to expand...
Which version of the 'gfortran' compiler are you using?
 
M

mgduda

Administrator
Staff member
It may be that you will need a newer version of the GNU compilers. I have verified that MPAS-A v8.0.1 will build successfully with the GNU 7.4.0 compilers, but it's been a while since I've tried anything older than that.
 
N

nloza

New member
mgduda said:
It may be that you will need a newer version of the GNU compilers. I have verified that MPAS-A v8.0.1 will build successfully with the GNU 7.4.0 compilers, but it's been a while since I've tried anything older than that.
Click to expand...
Ok ok thank you very much, I'll to update the compiler and I let you know if it worked
 
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