Cannot compile in Debian 10

[asterismo]

I'm trying to compile this library in Debian 10, what version should i build? i'm trying to build netcdf-fortran-4.5.3 and i'm getting this error, but i understand Debian 10 is not the latest version of Debian and 4.5.3 i not the latest version of the library.

I'm trying with these commands:

cd ../netcdf-fortran-4.5.3
export NETCDF=/usr/local
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$NETCDF/lib
./configure --prefix=/usr/local
make
sudo make install

The error is:

-DHAVE_ALLOCA=1 -DHAVE_SSIZE_T=1 -DHAVE_PTRDIFF_T=1 -DSIZEOF_SHORT=2 -DSIZEOF_INT=4 -DSIZEOF_LONG=8 -DSIZEOF_FLOAT=4 -DSIZEOF_DOUBLE=8 -DSIZEOF_OFF_T=8 -DSIZEOF_SIZE_T=8 -DSIZEOF_PTRDIFF_T=8 -I. -I. -g -O2 -c module_netcdf_nf_interfaces.F90 -o module_netcdf_nf_interfaces.o >/dev/null 2>&1
/bin/bash ../libtool --tag=FC --mode=compile gfortran -I. -g -O2 -c -o module_netcdf_f03.lo module_netcdf_f03.f90
libtool: compile: gfortran -I. -g -O2 -c module_netcdf_f03.f90 -fPIC -o .libs/module_netcdf_f03.o
f951: Fatal Error: Reading module ‘netcdf_nf_interfaces’ at line 1834 column 18: Unexpected EOF
compilation terminated.
make[1]: *** [Makefile:797: module_netcdf_f03.lo] Error 1
make[1]: se sale del directorio '/nfs/home/cluster/instaladores/netcdf-fortran-4.5.3/fortran'
make: *** [Makefile:581: all-recursive] Error 1
cluster@cebollati:~/instaladores/netcdf-fortran-4.5.3$ gfortran --version
GNU Fortran (Debian 8.3.0-6) 8.3.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

[asterismo]

I also tried to compile netcdf-c-4.9.2 apparently no problem, and when trying to build netcdf-fortran-4.6.0 i get this error:

any ideas? thanks

E_VPRINTF=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_ALLOCA_H=1 -DHAVE_ALLOCA=1 -DHAVE_SSIZE_T=1 -DHAVE_PTRDIFF_T=1 -DSIZEOF_SHORT=2 -DSIZEOF_INT=4 -DSIZEOF_LONG=8 -DSIZEOF_FLOAT=4 -DSIZEOF_DOUBLE=8 -DSIZEOF_OFF_T=8 -DSIZEOF_SIZE_T=8 -DSIZEOF_PTRDIFF_T=8 -I. -I. -g -O2 -c module_netcdf_nf_data.F90 -fPIC -o .libs/module_netcdf_nf_data.o
module_netcdf_nf_data.F90:167:54:

Integer, Parameter :: NF_NOQUANTIZE = NC_NOQUANTIZE
1
Error: Symbol 'nc_noquantize' at (1) has no IMPLICIT type; did you mean 'nf_noquantize'?
module_netcdf_nf_data.F90:168:67:

Integer, Parameter :: NF_QUANTIZE_BITGROOM = NC_QUANTIZE_BITGROOM
1
Error: Symbol 'nc_quantize_bitgroom' at (1) has no IMPLICIT type; did you mean 'nf_quantize_bitgroom'?
make[1]: *** [Makefile:765: module_netcdf_nf_data.lo] Error 1
make[1]: se sale del directorio '/nfs/home/cluster/instaladores/netcdf-fortran-4.6.0/fortran'
make: *** [Makefile:587: all-recursive] Error 1

[WardF]

Thanks; I'm taking a look at this now.

[WardF]

Can you provide the config.log file for netcdf-fortran, and the libnetcdf.settings file generated by your libnetcdf install? I'm having issues recreating this in a local Debian 10 environment.

[hs-safl]

I think I also have similar problems associated with these statements.
My system environment: CentOS7, Intel compiler version 2021.5.0

The error message says:

module_netcdf_nf_data.F90(167): error #6592: This symbol must be a defined parameter, an enumerator, or an argument of an inquiry function that evaluates to a compile-time constant. [NC_NOQUANTIZE]
Integer, Parameter :: NF_NOQUANTIZE = NC_NOQUANTIZE
-----------------------------------------^
module_netcdf_nf_data.F90(168): error #6592: This symbol must be a defined parameter, an enumerator, or an argument of an inquiry function that evaluates to a compile-time constant. [NC_QUANTIZE_BITGROOM]
Integer, Parameter :: NF_QUANTIZE_BITGROOM = NC_QUANTIZE_BITGROOM
-----------------------------------------------^
module_netcdf_nf_data.F90(167): error #6404: This name does not have a type, and must have an explicit type. [NC_NOQUANTIZE]
Integer, Parameter :: NF_NOQUANTIZE = NC_NOQUANTIZE
-----------------------------------------^
module_netcdf_nf_data.F90(168): error #6404: This name does not have a type, and must have an explicit type. [NC_QUANTIZE_BITGROOM]
Integer, Parameter :: NF_QUANTIZE_BITGROOM = NC_QUANTIZE_BITGROOM
-----------------------------------------------^

I attached bash scripts, error, and output log and config.log, libnetcdf.settings in a zip file.

config.log
netcdf_fortran_log.zip

[WardF]

Thank you; I'm wondering if this is specific to the Intel compiler; I don't have access to those, although I've recently learned there are versions I may be able to use. Do you see the same issue if you try using gcc/gfortran?

[mcopik]

I'm experiencing the same issue with gfortran 11.3.

module_netcdf_nf_data.F90:167:54:

  167 |  Integer, Parameter :: NF_NOQUANTIZE   = NC_NOQUANTIZE
      |                                                      1
Error: Symbol ‘nc_noquantize’ at (1) has no IMPLICIT type; did you mean ‘nf_noquantize’?
module_netcdf_nf_data.F90:168:67:

  168 |  Integer, Parameter :: NF_QUANTIZE_BITGROOM  = NC_QUANTIZE_BITGROOM
      |                                                                   1
Error: Symbol ‘nc_quantize_bitgroom’ at (1) has no IMPLICIT type; did you mean ‘nf_quantize_bitgroom’?

[WardF]

I'll take a look at this; thanks for confirming use case with gfortran. I'll stand up a dev environment and see what I'm able to sort out.

[mcopik]

@WardF For what's it worth, I installed netcdf-c 4.9.2 with quantization support - at least that's according to the config.log. Not sure about the actual installation, as nc-config claims there's neither --has-quantize nor --has-quanitze flag (the latter comes from a typo in the list displayed by --help).

[lastephey]

I'm seeing the same thing trying to build in an Ubuntu jammy container with gfortran, netcdf-4.9.2, and netcdf-fortran-4.6.1.

FROM docker.io/ubuntu:jammy

RUN \
    apt-get update        && \
    apt-get upgrade --yes && \
    apt-get install --yes    \
        build-essential      \
        cmake                \
        gfortran             \
        libblas-dev          \
        liblapack-dev        \
        libcurl4-gnutls-dev  \
        libxml2-dev          \
        m4                   \
        pkg-config           \
        python3-dev          \
        python3-pip          \
        wget                 \
        vim              &&  \
    apt-get clean all    &&  \
    rm -rf /var/lib/apt/lists/*

...

#install netcdf c
ENV NCDIR=/opt/netcdf-c
ARG netcdf_c_version=4.9.2
RUN wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v$netcdf_c_version.tar.gz && \
    tar xvzf v$netcdf_c_version.tar.gz                                           && \
    cd netcdf-c-$netcdf_c_version                                                && \
    ./configure --prefix=$NCDIR --disable-hdf5 && \
    make && \
    make install

ENV LD_LIBRARY_PATH=$NCDIR/lib:$LD_LIBRARY_PATH

#install netcdf fortran
ENV NFDIR=/opt/netcdf-fortran
ARG netcdf_fortran_version=4.6.1
RUN wget https://github.com/Unidata/netcdf-fortran/archive/refs/tags/v$netcdf_fortran_version.tar.gz && \
    tar xvzf v$netcdf_fortran_version.tar.gz                                           && \
    cd netcdf-fortran-$netcdf_fortran_version                                                && \
    CPPFLAGS=-I${NCDIR}/include LDFLAGS=-L${NCDIR}/lib ./configure --prefix=$NFDIR --disable-fortran-type-check && \
    make && \
    make install

libtool: compile:  gfortran -DPACKAGE_NAME=\"netCDF-Fortran\" -DPACKAGE_TARNAME=\"netcdf-fortran\" -DPACKAGE_VERSION=\"4.6.1\" "-DPACKAGE_STRING=\"netCDF-Fortran 4.6.1\"" -DPACKAGE_BUGREPORT=\"[email protected]\" -DPACKAGE_URL=\"\" -DPACKAGE=\"netcdf-fortran\" -DVERSION=\"4.6.1\" -DNF_RELAX_COORD_BOUND=1 -DENABLE_CDF5=1 -DNF_HAS_QUANTIZE=1 -DHAVE_F2008=1 -DHAVE_TS29113_SUPPORT=1 -DTEMP_LARGE=\".\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_TIME_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DNCBYTE_T=byte "-DNCSHORT_T=integer*2" -DNF_INT1_T=byte "-DNF_INT2_T=integer*2" "-DNF_INT8_T=integer*8" -DNF_INT1_IS_C_SIGNED_CHAR=1 -DNF_INT2_IS_C_SHORT=1 -DNF_INT_IS_C_INT=1 -DNF_INT8_IS_C_LONG_LONG=1 -DNF_REAL_IS_C_FLOAT=1 -DNF_DOUBLEPRECISION_IS_C_DOUBLE=1 -DHAVE_LIBM=1 -DHAVE_NETCDF_H=1 -DHAVE_NC_DEF_OPAQUE=1 -DHAVE_NCCREATE=1 -DHAVE_NC_SET_LOG_LEVEL=1 -DHAVE_OC_OPEN=1 -DHAVE_NC_DEF_VAR_SZIP=1 -DLOGGING=1 -DHAVE_SYS_PARAM_H=1 -DHAVE_LOCALE_H=1 -DHAVE_STDIO_H=1 -DHAVE_STDARG_H=1 -DHAVE_ERRNO_H=1 -DHAVE_CTYPE_H=1 -DHAVE_FCNTL_H=1 -DHAVE_MALLOC_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRINGS_H=1 -DHAVE_UNISTD_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_GETOPT_H=1 -DHAVE_SYS_TIME_H=1 -DHAVE_SYS_RESOURCE_H=1 -DHAVE_DIRENT_H=1 -DHAVE_SYS_WAIT_H=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_VPRINTF=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -DHAVE_ALLOCA_H=1 -DHAVE_ALLOCA=1 -DHAVE_SSIZE_T=1 -DHAVE_PTRDIFF_T=1 -DSIZEOF_SHORT=2 -DSIZEOF_INT=4 -DSIZEOF_LONG=8 -DSIZEOF_FLOAT=4 -DSIZEOF_DOUBLE=8 -DSIZEOF_OFF_T=8 -DSIZEOF_SIZE_T=8 -DSIZEOF_PTRDIFF_T=8 -I. -I/opt/netcdf-c/include -I. -g -O2 -fallow-argument-mismatch -c module_netcdf_nf_data.F90  -fPIC -o .libs/module_netcdf_nf_data.o
module_netcdf_nf_data.F90:167:54:

  167 |  Integer, Parameter :: NF_NOQUANTIZE   = NC_NOQUANTIZE
      |                                                      1
Error: Symbol 'nc_noquantize' at (1) has no IMPLICIT type; did you mean 'nf_noquantize'?
module_netcdf_nf_data.F90:168:67:

  168 |  Integer, Parameter :: NF_QUANTIZE_BITGROOM  = NC_QUANTIZE_BITGROOM
      |                                                                   1
Error: Symbol 'nc_quantize_bitgroom' at (1) has no IMPLICIT type; did you mean 'nf_quantize_bitgroom'?
make[1]: *** [Makefile:766: module_netcdf_nf_data.lo] Error 1
make[1]: Leaving directory '/opt/netcdf-fortran-4.6.1/fortran'
make: *** [Makefile:588: all-recursive] Error 1
Error: building at STEP "RUN wget https://github.com/Unidata/netcdf-fortran/archive/refs/tags/v$netcdf_fortran_version.tar.gz &&     tar xvzf v$netcdf_fortran_version.tar.gz                                           &&     cd netcdf-fortran-$netcdf_fortran_version                                                &&     CPPFLAGS=-I${NCDIR}/include LDFLAGS=-L${NCDIR}/lib ./configure --prefix=$NFDIR --disable-fortran-type-check &&     make &&     make install": while running runtime: exit status 2

Just through trial and error I found I could get netcdf-fortran 4.5.3 to build with netcdf-c 4.8.0. Are there any known good combinations of these libraries for Debian?