Error when Compile MPAS v4.0

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Cao Tuan

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Aug 25, 2016, 10:48:09 PM8/25/16
to MPAS-Atmosphere Help

make[3]: Entering directory `/home/igp.pxthanh/share/tuan/MPAS-Release-4.0/src/framework'
rm -f mpas_kind_types.o mpas_kind_types.mod
mpif90 -D_MPI -DUNDERSCORE -DCORE_ATMOSPHERE -DMPAS_NAMELIST_SUFFIX=atmosphere -DMPAS_EXE_NAME=atmosphere_model -DMPAS_GIT_VERSION=unknown -O3 -m64 -ffree-line-length-none -fdefault-real-8 -fdefault-double-8 -fconvert=big-endian -ffree-form -c mpas_kind_types.F -I/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/include -I/home/igp.pxthanh/share/tuan/external/PnetCDF/include -I/home/igp.pxthanh/apps/intel_14/linux86_64/netcdf-4.1.3/include -I/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/include -I/home/igp.pxthanh/share/tuan/external/PnetCDF/include -I/home/igp.pxthanh/apps/intel_14/linux86_64/netcdf-4.1.3/include -I../external/esmf_time_f90
ifort: command line warning #10006: ignoring unknown option '-ffree-line-length-none'
ifort: command line warning #10006: ignoring unknown option '-fdefault-real-8'
ifort: command line warning #10006: ignoring unknown option '-fdefault-double-8'
ifort: command line warning #10006: ignoring unknown option '-fconvert=big-endian'
ifort: command line warning #10006: ignoring unknown option '-ffree-form'
mpas_kind_types.F(20): error #5149: Illegal character in statement label field  [m]
module mpas_kind_typeseger
^
mpas_kind_types.F(20): error #5149: Illegal character in statement label field  [o]
module mpas_kind_typeseger
-^
mpas_kind_types.F(20): error #5149: Illegal character in statement label field  [d]
module mpas_kind_typeseger
--^
mpas_kind_types.F(20): error #5149: Illegal character in statement label field  [u]
module mpas_kind_typeseger
---^
mpas_kind_types.F(20): error #5149: Illegal character in statement label field  [l]
module mpas_kind_typeseger
----^
mpas_kind_types.F(20): error #5118: First statement in file must not be continued
module mpas_kind_typeseger
-----^
mpas_kind_types.F(22): error #5149: Illegal character in statement label field  [i]
   int, parameter :: R4KIND = selected_real_kind(6)
---^
mpas_kind_types.F(22): error #5149: Illegal character in statement label field  [n]
   int, parameter :: R4KIND = selected_real_kind(6)
----^
mpas_kind_types.F(23): error #5149: Illegal character in statement label field  [i]
   integer, parameter :: R8KIND = selected_real_kind(12)
---^
mpas_kind_types.F(23): error #5149: Illegal character in statement label field  [n]
   integer, parameter :: R8KIND = selected_real_kind(12)
----^
mpas_kind_types.F(27): error #5149: Illegal character in statement label field  [i]
   integer, parameter :: RKIND  = selected_real_kind(12)
---^
mpas_kind_types.F(27): error #5149: Illegal character in statement label field  [n]
   integer, parameter :: RKIND  = selected_real_kind(12)
----^
mpas_kind_types.F(30): error #5149: Illegal character in statement label field  [i]
   integer, parameter :: I8KIND = selected_int_kind(18)
---^
mpas_kind_types.F(30): error #5149: Illegal character in statement label field  [n]
   integer, parameter :: I8KIND = selected_int_kind(18)
----^
mpas_kind_types.F(32): error #5149: Illegal character in statement label field  [i]
   integer, parameter :: StrKIND = 512
---^
mpas_kind_types.F(32): error #5149: Illegal character in statement label field  [n]
   integer, parameter :: StrKIND = 512
----^
mpas_kind_types.F(33): error #5149: Illegal character in statement label field  [i]
   integer, parameter :: ShortStrKIND = 32
---^
mpas_kind_types.F(33): error #5149: Illegal character in statement label field  [n]
   integer, parameter :: ShortStrKIND = 32
----^
mpas_kind_types.F(35): error #5149: Illegal character in statement label field  [s]
   subtainsroutine
---^
mpas_kind_types.F(35): error #5149: Illegal character in statement label field  [u]
   subtainsroutine
----^
mpas_kind_types.F(50): error #5149: Illegal character in statement label field  [e]
   end subroutine dummy_kindsdule
---^
mpas_kind_types.F(50): error #5149: Illegal character in statement label field  [n]
   end subroutine dummy_kindsdule
----^
mpas_kind_types.F(52): error #5149: Illegal character in statement label field  [e]
end mo mpas_kind_types
^
mpas_kind_types.F(52): error #5149: Illegal character in statement label field  [n]
end mo mpas_kind_types
-^
mpas_kind_types.F(52): error #5149: Illegal character in statement label field  [d]
end mo mpas_kind_types
--^
mpas_kind_types.F(52): error #5149: Illegal character in statement label field  [m]
end mo mpas_kind_types
----^
mpas_kind_types.F(22): error #5082: Syntax error, found ',' when expecting one of: ( % [ : . = =>
   int, parameter :: R4KIND = selected_real_kind(6)
------^
mpas_kind_types.F(22): error #5082: Syntax error, found '=' when expecting one of: ( * ) :: , <END-OF-STATEMENT> ; . % (/ + - [ : ] /) . ** / // ...
   int, parameter :: R4KIND = selected_real_kind(6)
----------------------------^
mpas_kind_types.F(23): error #5082: Syntax error, found IDENTIFIER 'EGER' when expecting one of: ( * ) :: , <END-OF-STATEMENT> ; . % (/ + - [ : ] /) . ' ** / ...
   integer, parameter :: R8KIND = selected_real_kind(12)
------^
mpas_kind_types.F(23): error #5082: Syntax error, found '=' when expecting one of: ( * ) :: , <END-OF-STATEMENT> ; . % (/ + - [ : ] /) . ** / // ...
   integer, parameter :: R8KIND = selected_real_kind(12)
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Cao Tuan

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Aug 25, 2016, 11:00:13 PM8/25/16
to MPAS-Atmosphere Help
Hope you guys can help me. I really need this model. 


Dominikus Heinzeller

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Aug 26, 2016, 3:25:53 AM8/26/16
to Cao Tuan, MPAS-Atmosphere Help
Hi Cao Tuan,

to me it seems that you are calling

make gfortran CORE=…

but that your mpif90 is actually using ifort. You should try

make ifort CORE=…

if your MPI was compiled with the ifort compiler.

Cheers

Dom

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Cao Tuan

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Aug 26, 2016, 3:59:36 AM8/26/16
to MPAS-Atmosphere Help, tuanw...@gmail.com
Hi Dom.
That's it. I found my error when I compile PIO. I re-compile PIO library, and make ifort CORE=atmsphere. MPAS worked! Thank you for your support. 
Cheer, 
Cao Tuan  
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Cao Tuan

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Aug 29, 2016, 4:56:01 AM8/29/16
to MPAS-Atmosphere Help, tuanw...@gmail.com
Dear Dom,
When I compile with core=int_atmosphere. I got trouble like that: 
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_inquire':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:241: undefined reference to `nfmpi_inq_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_att_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:342: undefined reference to `nfmpi_inq_att_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_attlen_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:454: undefined reference to `nfmpi_inq_attlen_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_attname_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:555: undefined reference to `nfmpi_inq_attname_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_varid_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:653: undefined reference to `nfmpi_inq_varid_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_varname_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:765: undefined reference to `nfmpi_inq_varname_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_varndims_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:838: undefined reference to `nfmpi_inq_varndims_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_vartype_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:930: undefined reference to `nfmpi_inq_vartype_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_vardimid_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1024: undefined reference to `nfmpi_inq_vardimid_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `inq_varnatts_vid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1115: undefined reference to `nfmpi_inq_varnatts_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_inq_dimid':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1207: undefined reference to `nfmpi_inq_dimid_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_inq_dimname':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1285: undefined reference to `nfmpi_inq_dimname_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_inq_dimlen':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1358: undefined reference to `nfmpi_inq_dimlen_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_enddef':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1427: undefined reference to `nfmpi_enddef_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_redef':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1491: undefined reference to `nfmpi_redef_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_def_dim':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1561: undefined reference to `nfmpi_def_dim_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `def_var_md':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1670: undefined reference to `nfmpi_def_var_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1672: undefined reference to `nfmpi_def_var_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(nf_mod.o): In function `pio_copy_att':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/nf_mod.F90:1761: undefined reference to `nfmpi_copy_att_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pio_utils.o): In function `check_netcdf':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pio_utils.F90:54: undefined reference to `nfmpi_strerror_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:129: undefined reference to `nfmpi_put_att_text_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:142: undefined reference to `nfmpi_put_att_real_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:142: undefined reference to `nfmpi_put_att_double_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:142: undefined reference to `nfmpi_put_att_int_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_1d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:236: undefined reference to `nfmpi_put_att_real_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_1d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:236: undefined reference to `nfmpi_put_att_double_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `put_att_1d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:236: undefined reference to `nfmpi_put_att_int_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:404: undefined reference to `nfmpi_get_att_text_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:404: undefined reference to `nfmpi_get_att_real_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:404: undefined reference to `nfmpi_get_att_double_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:404: undefined reference to `nfmpi_get_att_int_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_1d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:484: undefined reference to `nfmpi_get_att_real_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_1d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:484: undefined reference to `nfmpi_get_att_int_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfatt_mod.o): In function `get_att_1d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfatt_mod.F90.in:484: undefined reference to `nfmpi_get_att_double_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var1_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:130: undefined reference to `nfmpi_put_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var1_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:225: undefined reference to `nfmpi_put_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var1_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:225: undefined reference to `nfmpi_put_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var1_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:225: undefined reference to `nfmpi_put_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_0d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_1d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_2d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_3d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_4d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o):/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:346: more undefined references to `nfmpi_put_vara_text_all_' follow
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_1d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_2d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_3d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_4d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_5d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_1d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_2d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_3d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_4d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_5d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_1d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_2d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_3d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_4d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_5d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:465: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_0d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:541: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_0d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:541: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_var_0d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:541: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_1d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:680: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_2d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:680: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_3d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:680: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_4d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:680: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_5d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:680: undefined reference to `nfmpi_put_vara_text_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_1d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_2d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_3d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_4d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_5d_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_int_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_1d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_2d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_3d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_4d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_5d_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_real_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_1d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_2d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_3d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_4d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfput_mod.o): In function `put_vara_5d_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfput_mod.F90.in:795: undefined reference to `nfmpi_put_vara_double_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var1_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:109: undefined reference to `nfmpi_begin_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:115: undefined reference to `nfmpi_get_vara_text_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:122: undefined reference to `nfmpi_end_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var1_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:109: undefined reference to `nfmpi_begin_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:117: undefined reference to `nfmpi_get_var1_real_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:122: undefined reference to `nfmpi_end_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var1_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:109: undefined reference to `nfmpi_begin_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:117: undefined reference to `nfmpi_get_var1_double_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:122: undefined reference to `nfmpi_end_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var1_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:109: undefined reference to `nfmpi_begin_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:117: undefined reference to `nfmpi_get_var1_int_'
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:122: undefined reference to `nfmpi_end_indep_data_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_vara_1d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_vara_2d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_vara_3d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_vara_4d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_vara_5d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o):/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:264: more undefined references to `nfmpi_get_vara_all_' follow
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var_0d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: undefined reference to `nfmpi_get_var_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var_1d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: undefined reference to `nfmpi_get_var_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var_2d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: undefined reference to `nfmpi_get_var_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var_3d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: undefined reference to `nfmpi_get_var_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o): In function `get_var_4d_text':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: undefined reference to `nfmpi_get_var_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfget_mod.o):/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfget_mod.F90.in:403: more undefined references to `nfmpi_get_var_all_' follow
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(piodarray.o): In function `darray_write_complete':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/piodarray.F90.in:1247: undefined reference to `nfmpi_wait_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(ionf_mod.o): In function `create_nf':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/ionf_mod.F90:60: undefined reference to `nfmpi_create_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(ionf_mod.o): In function `open_nf':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/ionf_mod.F90:178: undefined reference to `nfmpi_open_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(ionf_mod.o): In function `close_nf':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/ionf_mod.F90:249: undefined reference to `nfmpi_close_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(ionf_mod.o): In function `sync_nf':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/ionf_mod.F90:287: undefined reference to `nfmpi_sync_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfread_mod.o): In function `read_nfdarray_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfread_mod.F90.in:90: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfread_mod.o): In function `read_nfdarray_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfread_mod.F90.in:90: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfread_mod.o): In function `read_nfdarray_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfread_mod.F90.in:90: undefined reference to `nfmpi_get_vara_all_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfwrite_mod.o): In function `write_nfdarray_real':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfwrite_mod.F90.in:93: undefined reference to `nfmpi_iput_vara_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfwrite_mod.o): In function `write_nfdarray_int':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfwrite_mod.F90.in:93: undefined reference to `nfmpi_iput_vara_'
/home/igp.pxthanh/share/tuan/Lib/PIO/lib/libpio.a(pionfwrite_mod.o): In function `write_nfdarray_double':
/home/igp.pxthanh/share/tuan/Lib/ParallelIO-pio1_7_1/pio/pionfwrite_mod.F90.in:93: undefined reference to `nfmpi_iput_vara_'
make[2]: *** [mpas] Error 1
make[2]: Leaving directory `/home/igp.pxthanh/share/tuan/MPAS_test/src'
make[1]: *** [mpas_main] Error 2
make[1]: Leaving directory `/home/igp.pxthanh/share/tuan/MPAS_test'
make: *** [ifort] Error 2


Do you have any idea about that 

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--

=============================================

Cao Minh Tuan / Researcher - Scientist 
Tuanw...@gmail.com / (+84) 1662 791 996

Institute of Geophysics - Vietnam Academy of Science and Technology 

Bachelor of Science in Meteorology, Hanoi University of Science, VNU
(04) 7564380
A8 - 18 Hoàng Quốc Việt, Cầu Giấy, Hà Nội 
http://igp-vast.vn/

Dominikus Heinzeller

unread,
Aug 29, 2016, 5:03:17 AM8/29/16
to Cao Tuan, MPAS-Atmosphere Help
Hi,

All those references are to the (Argonne Labs) parallel-netcdf library, which apparently was compiled into PIO beforehand on your system.

Usually, the NetCDF library is linked when the PNETCDF environment variable is set correctly - can you check this?

Cheers

Dom

To unsubscribe from this group and stop receiving emails from it, send an email to mpas-atmosphere-...@googlegroups.com.

Cao Tuan

unread,
Aug 29, 2016, 5:07:39 AM8/29/16
to Dominikus Heinzeller, MPAS-Atmosphere Help
here is my environment I set:
export PNETCDF_PATH=/home/igp.pxthanh/share/tuan/external/PnetCDF
export PATH=$PATH:$PNETCDF/bin:
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$PNETCDF/lib:
export PNETCDFINC=$PNETCDF/include
export NETCDF=~/apps/intel_14/linux86_64/netcdf-4.1.3

export PIO=/home/igp.pxthanh/share/tuan/Lib/PIO

To unsubscribe from this group and stop receiving emails from it, send an email to mpas-atmosphere-help+unsub...@googlegroups.com.

For more options, visit https://groups.google.com/d/optout.



-- 

=============================================

Cao Minh Tuan / Researcher - Scientist 
Tuanw...@gmail.com / (+84) 1662 791 996

Institute of Geophysics - Vietnam Academy of Science and Technology 

Bachelor of Science in Meteorology, Hanoi University of Science, VNU
(04) 7564380
A8 - 18 Hoàng Quốc Việt, Cầu Giấy, Hà Nội 
http://igp-vast.vn/


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Dominikus Heinzeller

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Aug 29, 2016, 5:11:11 AM8/29/16
to Cao Tuan, MPAS-Atmosphere Help
Hi again,

inspecting the MPAS top-level Makefile shows that you need to set only “PNETCDF” to the directory in which it is installed:

%%%
ifneq "$(PNETCDF)" ""
CPPINCLUDES += -I$(PNETCDF)/include
FCINCLUDES += -I$(PNETCDF)/include
LIBS += -L$(PNETCDF)/lib -lpnetcdf
endif
%%%

i.e.

export PNETCDF=/home/igp.pxthanh/share/tuan/external/PnetCDF

should do.

Cheers

Dom

MPAS-Atmosphere Help

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Aug 29, 2016, 1:47:00 PM8/29/16
to MPAS-Atmosphere Help
Hi, All.

For future reference, you can find the I/O-related environment variables that are required by the MPAS build system at the top of Section 3.3 of the MPAS-Atmosphere v4.0 users' guide: http://www2.mmm.ucar.edu/projects/mpas/mpas_atmosphere_users_guide_4.0.pdf . I do understand that there could be confusion as to whether the environment variables set in Section 3.2 are still needed when compiling MPAS, so any suggestions for improvement would be very welcome.

Kind regards,
Michael



On Monday, August 29, 2016 at 3:11:11 AM UTC-6, Dominikus Heinzeller wrote:
Hi again,

inspecting the MPAS top-level Makefile shows that you need to set only “PNETCDF” to the directory in which it is installed:

%%%
ifneq "$(PNETCDF)" ""
CPPINCLUDES += -I$(PNETCDF)/include
FCINCLUDES += -I$(PNETCDF)/include
LIBS += -L$(PNETCDF)/lib -lpnetcdf
endif
%%%

i.e.

export PNETCDF=/home/igp.pxthanh/share/tuan/external/PnetCDF

should do.

Cheers

Dom

On 29/08/2016, at 11:07 AM, Cao Tuan <tuanw...@gmail.com> wrote:

here is my environment I set:
export PNETCDF_PATH=/home/igp.pxthanh/share/tuan/external/PnetCDF
export PATH=$PATH:$PNETCDF/bin:
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$PNETCDF/lib:
export PNETCDFINC=$PNETCDF/include
export NETCDF=~/apps/intel_14/linux86_64/netcdf-4.1.3

export PIO=/home/igp.pxthanh/share/tuan/Lib/PIO
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