how to compile and install CDFTOOLS to deal with ORCA025 data

[malibin1983]

Dear All,

I tried to use the CDFTOOLS to deal with ORCA025 data, but it is wrong with information "forrtl: severe (174): SIGSEGV, segmentation fault occurred". However, there is no problem when I deal with ORCA1 data. I think there are some flags are missed when I compile it. The following is the flags I used during the compilation:

export HDF5_LIB=/data01/malb/local/lib
export NETCDF_LIB=/data01/malb/local/lib
export NETCDF_INC=/data01/malb/local/include

libs

LIBS =
-L$(HDF5_LIB) -L$(NETCDF_LIB) -I$(NETCDF_INC)
-lhdf5 -lnetcdf -lnetcdff -lhdf5_hl -L/lib64 -limf -lm -lz

F90 = mpiifort
OMP=
#OMP=-openmp
NC4 = -D key_netcdf4
#NC4 =

#CMIP6 = -D key_CMIP6
CMIP6 =

GSW=
#GSW=-D key_GSW
GSWLIB=
#GSWLIB=-lgsw

FFLAGS = -O $(NC4) $(CMIP6) -assume byterecl -convert big_endian -DHAVE_LIBNETCDF64 $(LIBS) $(OMP)

INSTALL = ../bin
INSTALL_MAN = ../man

Does anybody know how to compile and install the CDFTOOLS to deal with the ORCA025 data?

Thank you very much in advance.

Best,
Libin Ma

[molines]

Hello ! I suggest to increase the stack size before running the program : ulimit -s unlimited It should fix this segmentation fault error without recompiling. Best Jean-Marc MOLINES

…

On 04/01/2022 04:18, malibin1983 wrote: Dear All, I tried to use the CDFTOOLS to deal with ORCA025 data, but it is wrong with information "*forrtl: severe (174): SIGSEGV, segmentation fault occurred*". However, there is no problem when I deal with ORCA1 data. I think there are some flags are missed when I compile it. The following is the flags I used during the compilation: export HDF5_LIB=/data01/malb/local/lib export NETCDF_LIB=/data01/malb/local/lib export NETCDF_INC=/data01/malb/local/include libs LIBS = -L$(HDF5_LIB) -L$(NETCDF_LIB) -I$(NETCDF_INC) -lhdf5 -lnetcdf -lnetcdff -lhdf5_hl -L/lib64 -limf -lm -lz F90 = mpiifort OMP= #OMP=-openmp NC4 = -D key_netcdf4 #NC4 = #CMIP6 = -D key_CMIP6 CMIP6 = GSW= #GSW=-D key_GSW GSWLIB= #GSWLIB=-lgsw FFLAGS = -O $(NC4) $(CMIP6) -assume byterecl -convert big_endian -DHAVE_LIBNETCDF64 $(LIBS) $(OMP) INSTALL = ../bin INSTALL_MAN = ../man Does anybody know how to compile and install the CDFTOOLS to deal with the ORCA025 data? Thank you very much in advance. Best, Libin Ma — Reply to this email directly, view it on GitHub <#48>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AFJFLTD76GA3LA7VNNMVJWLUUJRHPANCNFSM5LGPKILQ>. Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

-- Jean-Marc Molines Modélisation de l'océan / Ingénieur de recherche IGE (UMR5001 / UR 252) /CNRS, Grenoble INP, IRD, et UGA/ Institut des Géosciences de l'Environnement MEOM/IGE UGA CS 40 700 38058 Grenoble cedex 9 Tél. :04 38 38 81 63 (Nouveau ! ) Web :http://www.ige-grenoble.fr/ Twitter : @IGE_Grenoble