[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]

[netCDF #SAR-432650]: Fwd: reg:wrf installation

Hi Amit,

You're using a fairly old version of netCDF, 3.6.2, from over 6 years ago, and
that specific bug was fixed in a subsequent release.  The fix required inserting
the statement

#include <cstring>

at the top of the file cxx/ncvalues.cpp in the sources, running "make clean", 
then
rerunning configure and make check.

Alternatively, you could try a more recent version, such as netCDF 4.2.1.1.

If you don't need features of netCDF-4, you can configure with 
--disable-netcdf-4
and you won't need to build and install HDF5 first.  If you decide to use 
netcdf-4.2.1.1, it only builds the netCDF C library.  Once it is installed, you
can build the netCDF-Fortran library from the separate netcdf-fortran-4.2
release, and similarly for the C++ library, if you need it.  Building 
netcdf-4.2.1.1
and the netcdf-fortran-4.2 release is described here:

  http://www.unidata.ucar.edu/netcdf/docs/build_classic.html
  http://www.unidata.ucar.edu/netcdf/docs/netcdf-fortran-install.html

Or, you could get the yum netcdf package, which currently installs version 
4.1.1.

--Russ

> I need a little help for wrf installation in my office for testing purpose.
> 
> The following steps i have done serially:
> 
> *my system configuration  *
> Fedora 16
> i3 64-bit processor
> 4GB RAM
> 500GB Hard Disk
> 
> 1) Configured ZLIB (Success)
> 2) Configured JASPER (Success)
> 3) Configured LIBPNG (Success)
> 4) Installed usiing yum (Success)
> gcc.i686                4.6.2-1.fc16       @fedorarepo
> gcc-c++.i686            4.6.2-1.fc16       @fedorarepo
> gcc-gfortran.i686       4.6.2-1.fc16       @fedorarepo
> 
> 5) installed intel compiler (l_fcompxe_2013.2.146 with trailed licenced
> key) (Success)
> 6) netcdf-3.6.2
> 6.1 ./configure (Success)
> 6.2 after entering *"make"* we are getting the following error.
> 
> [root@apsdps netcdf-3.6.2]# make
> make  all-recursive
> make[1]: Entering directory `/wrfpkgs/netcdf-3.6.2'
> Making all in f90
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/f90'
> make[2]: Nothing to be done for `all'.
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/f90'
> Making all in fortran
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/fortran'
> make  all-am
> make[3]: Entering directory `/wrfpkgs/netcdf-3.6.2/fortran'
> depbase=`echo fort-attio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-attio.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-attio.lo fort-attio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-attio.lo -MD -MP -MF .deps/fort-attio.Tpo -c fort-attio.c -o
> fort-attio.o
> depbase=`echo fort-control.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-control.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-control.lo fort-control.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-control.lo -MD -MP -MF .deps/fort-control.Tpo -c fort-control.c -o
> fort-control.o
> depbase=`echo fort-dim.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-dim.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-dim.lo fort-dim.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-dim.lo -MD -MP -MF .deps/fort-dim.Tpo -c fort-dim.c -o fort-dim.o
> depbase=`echo fort-genatt.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-genatt.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-genatt.lo fort-genatt.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-genatt.lo -MD -MP -MF .deps/fort-genatt.Tpo -c fort-genatt.c -o
> fort-genatt.o
> depbase=`echo fort-geninq.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-geninq.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-geninq.lo fort-geninq.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-geninq.lo -MD -MP -MF .deps/fort-geninq.Tpo -c fort-geninq.c -o
> fort-geninq.o
> depbase=`echo fort-genvar.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-genvar.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-genvar.lo fort-genvar.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-genvar.lo -MD -MP -MF .deps/fort-genvar.Tpo -c fort-genvar.c -o
> fort-genvar.o
> depbase=`echo fort-lib.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-lib.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-lib.lo fort-lib.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-lib.lo -MD -MP -MF .deps/fort-lib.Tpo -c fort-lib.c -o fort-lib.o
> depbase=`echo fort-misc.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-misc.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-misc.lo fort-misc.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-misc.lo -MD -MP -MF .deps/fort-misc.Tpo -c fort-misc.c -o
> fort-misc.o
> depbase=`echo fort-v2compat.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-v2compat.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-v2compat.lo fort-v2compat.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-v2compat.lo -MD -MP -MF .deps/fort-v2compat.Tpo -c fort-v2compat.c
> -o fort-v2compat.o
> depbase=`echo fort-vario.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-vario.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-vario.lo fort-vario.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-vario.lo -MD -MP -MF .deps/fort-vario.Tpo -c fort-vario.c -o
> fort-vario.o
> depbase=`echo fort-var1io.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-var1io.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-var1io.lo fort-var1io.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-var1io.lo -MD -MP -MF .deps/fort-var1io.Tpo -c fort-var1io.c -o
> fort-var1io.o
> depbase=`echo fort-varaio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-varaio.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-varaio.lo fort-varaio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-varaio.lo -MD -MP -MF .deps/fort-varaio.Tpo -c fort-varaio.c -o
> fort-varaio.o
> depbase=`echo fort-varmio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-varmio.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-varmio.lo fort-varmio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-varmio.lo -MD -MP -MF .deps/fort-varmio.Tpo -c fort-varmio.c -o
> fort-varmio.o
> depbase=`echo fort-varsio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
> -I.. -I.    -I../libsrc    -g -O2 -MT fort-varsio.lo -MD -MP -MF
> "$depbase.Tpo" -c -o fort-varsio.lo fort-varsio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc -g -O2
> -MT fort-varsio.lo -MD -MP -MF .deps/fort-varsio.Tpo -c fort-varsio.c -o
> fort-varsio.o
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2   -o libnetcdff.la
> fort-attio.lo fort-control.lo fort-dim.lo fort-genatt.lo fort-geninq.lo
> fort-genvar.lo fort-lib.lo fort-misc.lo fort-v2compat.lo fort-vario.lo
> fort-var1io.lo fort-varaio.lo fort-varmio.lo fort-varsio.lo  ../f90/
> libnetcdff90.la
> libtool: link: rm -fr  .libs/libnetcdff.a .libs/libnetcdff.la
> libtool: link: (cd .libs/libnetcdff.lax/libnetcdff90.a && ar x
> /wrfpkgs/netcdf-3.6.2/fortran/../f90/.libs/libnetcdff90.a)
> libtool: link: ar cru .libs/libnetcdff.a  fort-attio.o fort-control.o
> fort-dim.o fort-genatt.o fort-geninq.o fort-genvar.o fort-lib.o fort-misc.o
> fort-v2compat.o fort-vario.o fort-var1io.o fort-varaio.o fort-varmio.o
> fort-varsio.o  .libs/libnetcdff.lax/libnetcdff90.a/typeSizes.o
> .libs/libnetcdff.lax/libnetcdff90.a/netcdf.o
> libtool: link: ranlib .libs/libnetcdff.a
> libtool: link: rm -fr .libs/libnetcdff.lax
> libtool: link: creating libnetcdff.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdff.la" && ln -s "../
> libnetcdff.la" "libnetcdff.la" )
> make[3]: Leaving directory `/wrfpkgs/netcdf-3.6.2/fortran'
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/fortran'
> Making all in libsrc
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/libsrc'
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2   -o
> libnetcdf.la-rpath /usr/local/lib  -version-info 4:0:0 -no-undefined
> attr.lo ncx.lo
> putget.lo dim.lo error.lo libvers.lo nc.lo string.lo v1hpg.lo var.lo
> posixio.lo libnetcdf2.la ../fortran/libnetcdff.la
> libtool: link: rm -fr  .libs/libnetcdf.a .libs/libnetcdf.la.libs/libnetcdf.lai
> libtool: link: (cd .libs/libnetcdf.lax/libnetcdf2.a && ar x
> /wrfpkgs/netcdf-3.6.2/libsrc/./.libs/libnetcdf2.a)
> libtool: link: (cd .libs/libnetcdf.lax/libnetcdff.a && ar x
> /wrfpkgs/netcdf-3.6.2/libsrc/../fortran/.libs/libnetcdff.a)
> libtool: link: ar cru .libs/libnetcdf.a  attr.o ncx.o putget.o dim.o
> error.o libvers.o nc.o string.o v1hpg.o var.o posixio.o
> .libs/libnetcdf.lax/libnetcdf2.a/v2i.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-genatt.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-var1io.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-misc.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-varmio.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-varsio.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-control.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-genvar.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-geninq.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-v2compat.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-dim.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-attio.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-lib.o
> .libs/libnetcdf.lax/libnetcdff.a/typeSizes.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-vario.o
> .libs/libnetcdf.lax/libnetcdff.a/netcdf.o
> .libs/libnetcdf.lax/libnetcdff.a/fort-varaio.o
> libtool: link: ranlib .libs/libnetcdf.a
> libtool: link: rm -fr .libs/libnetcdf.lax
> libtool: link: creating libnetcdf.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdf.la" && ln -s "../
> libnetcdf.la" "libnetcdf.la" )
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/libsrc'
> Making all in nctest
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/nctest'
> make[2]: Nothing to be done for `all'.
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/nctest'
> Making all in ncgen
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/ncgen'
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2   -o ncgen  main.o
> load.o ncgentab.o escapes.o getfill.o init.o genlib.o ../libsrc/libnetcdf.la
> libtool: link: gcc -g -O2 -o ncgen main.o load.o ncgentab.o escapes.o
> getfill.o init.o genlib.o  ../libsrc/.libs/libnetcdf.a
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/ncgen'
> Making all in ncdump
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/ncdump'
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2   -o ncdump  ncdump.o
> vardata.o dumplib.o -lm  ../libsrc/libnetcdf.la
> libtool: link: gcc -g -O2 -o ncdump ncdump.o vardata.o dumplib.o  -lm
> ../libsrc/.libs/libnetcdf.a
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/ncdump'
> Making all in nf_test
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/nf_test'
> make[2]: Nothing to be done for `all'.
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/nf_test'
> Making all in cxx
> make[2]: Entering directory `/wrfpkgs/netcdf-3.6.2/cxx'
> depbase=`echo ncvalues.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CXX --mode=compile c++ -DHAVE_CONFIG_H -I. -I.
> -I.. -I../fortran  -DDEBUG   -I../libsrc   -g -O2 -MT ncvalues.lo -MD -MP
> -MF "$depbase.Tpo" -c -o ncvalues.lo ncvalues.cpp; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit
> 1; fi
> libtool: compile:  c++ -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran -DDEBUG
> -I../libsrc -g -O2 -MT ncvalues.lo -MD -MP -MF .deps/ncvalues.Tpo -c
> ncvalues.cpp -o ncvalues.o
> ncvalues.cpp: In member function 'virtual char*
> NcValues_ncbyte::as_string(long int) const':
> ncvalues.cpp:238:60: error: 'strncpy' was not declared in this scope
> ncvalues.cpp: In member function 'virtual char*
> NcValues_char::as_string(long int) const':
> ncvalues.cpp:246:60: error: 'strncpy' was not declared in this scope
> make[2]: *** [ncvalues.lo] Error 1
> make[2]: Leaving directory `/wrfpkgs/netcdf-3.6.2/cxx'
> make[1]: *** [all-recursive] Error 1
> make[1]: Leaving directory `/wrfpkgs/netcdf-3.6.2'
> make: *** [all] Error 2
> 
> 
> please try to resolve this error.
> 
> 
> 
> 
> --
> M. MALLESWARA RAO
> M.Tech (Atmospheric Science)
> Young Professional in Cyclone Models
> APSDPS, AP Secreteriat, Hyderabad
> 
> 
> 
> --
> M. MALLESWARA RAO
> M.Tech (Atmospheric Science)
> Young Professional in Cyclone Models
> APSDPS, AP Secreteriat, Hyderabad
> 
> 
Russ Rew                                         UCAR Unidata Program
address@hidden                      http://www.unidata.ucar.edu



Ticket Details
===================
Ticket ID: SAR-432650
Department: Support netCDF
Priority: Normal
Status: Closed