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Gentoo's Bugzilla – Attachment 372680 Details for
Bug 504606
sci-misc/nco-4.4.2 - .../work/nco-4.4.2/src/nco++/ncap2_utl.hh:46:59: fatal error: nco_netcdf.h: No such file or directory
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build log
build.log (text/plain), 71.72 KB, created by
Dallas
on 2014-03-14 20:59:05 UTC
(
hide
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Description:
build log
Filename:
MIME Type:
Creator:
Dallas
Created:
2014-03-14 20:59:05 UTC
Size:
71.72 KB
patch
obsolete
>[32;01m * [39;49;00mPackage: sci-misc/nco-4.4.2 >[32;01m * [39;49;00mRepository: gentoo >[32;01m * [39;49;00mMaintainer: sci@gentoo.org >[32;01m * [39;49;00mUSE: amd64 dap doc elibc_glibc gsl kernel_linux ncap2 udunits userland_GNU >[32;01m * [39;49;00mFEATURES: preserve-libs sandbox userpriv usersandbox >>>> Unpacking source... >>>> Unpacking nco-4.4.2.tar.gz to /var/tmp/portage/sci-misc/nco-4.4.2/work >>>> Source unpacked in /var/tmp/portage/sci-misc/nco-4.4.2/work >>>> Preparing source in /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2 ... > [32;01m*[0m Running elibtoolize in: nco-4.4.2/ > [32;01m*[0m Applying target-nm/2.4.2 patch ... > [32;01m*[0m Running elibtoolize in: nco-4.4.2/autobld/ > [32;01m*[0m Applying portage/1.2.0 patch ... > [32;01m*[0m Applying sed/1.5.6 patch ... > [32;01m*[0m Applying as-needed/2.4.2 patch ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2 ... >>>> Working in BUILD_DIR: "/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build" > * econf: updating nco-4.4.2/autobld/config.guess with /usr/share/gnuconfig/config.guess > * econf: updating nco-4.4.2/autobld/config.sub with /usr/share/gnuconfig/config.sub >/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/configure --prefix=/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --libdir=/usr/lib64 --disable-silent-rules --disable-dependency-tracking --docdir=/usr/share/doc/nco-4.4.2 --enable-shared --disable-static --disable-udunits --enable-dap-netcdf --enable-gsl --enable-ncap2 --enable-udunits2 --enable-netcdf4 >configure: loading site script /usr/share/config.site >checking build system type... x86_64-pc-linux-gnu >checking host system type... x86_64-pc-linux-gnu >checking target system type... x86_64-pc-linux-gnu >checking for grep that handles long lines and -e... /bin/grep >checking for egrep... /bin/grep -E >checking for a BSD-compatible install... /usr/lib64/portage/bin/ebuild-helpers/xattr/install -c >checking whether build environment is sane... yes >checking for a thread-safe mkdir -p... /bin/mkdir -p >checking for gawk... gawk >checking whether make sets $(MAKE)... yes >checking whether make supports nested variables... yes >checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc >checking whether the C compiler works... yes >checking for C compiler default output file name... a.out >checking for suffix of executables... >checking whether we are cross compiling... no >checking for suffix of object files... o >checking whether we are using the GNU C compiler... yes >checking whether x86_64-pc-linux-gnu-gcc accepts -g... yes >checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... none needed >checking for style of include used by make... GNU >checking dependency style of x86_64-pc-linux-gnu-gcc... none >checking for x86_64-pc-linux-gnu-g++... x86_64-pc-linux-gnu-g++ >checking whether we are using the GNU C++ compiler... yes >checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes >checking dependency style of x86_64-pc-linux-gnu-g++... none >checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E >checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E >checking for x86_64-pc-linux-gnu-gcc option to accept ISO C99... -std=gnu99 >checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to accept ISO Standard C... (cached) -std=gnu99 >checking for flex... flex >checking lex output file root... lex.yy >checking lex library... -lfl >checking whether yytext is a pointer... yes >checking for bison... bison -y >checking whether ln -s works... yes >checking how to print strings... printf >checking for a sed that does not truncate output... /bin/sed >checking for fgrep... /bin/grep -F >checking for ld used by x86_64-pc-linux-gnu-gcc -std=gnu99... /usr/x86_64-pc-linux-gnu/bin/ld >checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld... yes >checking for BSD- or MS-compatible name lister (nm)... /usr/bin/x86_64-pc-linux-gnu-nm -B >checking the name lister (/usr/bin/x86_64-pc-linux-gnu-nm -B) interface... BSD nm >checking the maximum length of command line arguments... 1572864 >checking whether the shell understands some XSI constructs... yes >checking whether the shell understands "+="... yes >checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop >checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop >checking for /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files... -r >checking for x86_64-pc-linux-gnu-objdump... x86_64-pc-linux-gnu-objdump >checking how to recognize dependent libraries... pass_all >checking for x86_64-pc-linux-gnu-dlltool... no >checking for dlltool... no >checking how to associate runtime and link libraries... printf %s\n >checking for x86_64-pc-linux-gnu-ar... x86_64-pc-linux-gnu-ar >checking for archiver @FILE support... @ >checking for x86_64-pc-linux-gnu-strip... x86_64-pc-linux-gnu-strip >checking for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib >checking command to parse /usr/bin/x86_64-pc-linux-gnu-nm -B output from x86_64-pc-linux-gnu-gcc -std=gnu99 object... ok >checking for sysroot... no >checking for x86_64-pc-linux-gnu-mt... no >checking for mt... no >checking if : is a manifest tool... no >checking for ANSI C header files... yes >checking for sys/types.h... yes >checking for sys/stat.h... yes >checking for stdlib.h... yes >checking for string.h... yes >checking for memory.h... yes >checking for strings.h... yes >checking for inttypes.h... yes >checking for stdint.h... yes >checking for unistd.h... yes >checking for dlfcn.h... yes >checking for objdir... .libs >checking if x86_64-pc-linux-gnu-gcc -std=gnu99 supports -fno-rtti -fno-exceptions... no >checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to produce PIC... -fPIC -DPIC >checking if x86_64-pc-linux-gnu-gcc -std=gnu99 PIC flag -fPIC -DPIC works... yes >checking if x86_64-pc-linux-gnu-gcc -std=gnu99 static flag -static works... yes >checking if x86_64-pc-linux-gnu-gcc -std=gnu99 supports -c -o file.o... yes >checking if x86_64-pc-linux-gnu-gcc -std=gnu99 supports -c -o file.o... (cached) yes >checking whether the x86_64-pc-linux-gnu-gcc -std=gnu99 linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes >checking whether -lc should be explicitly linked in... no >checking dynamic linker characteristics... GNU/Linux ld.so >checking how to hardcode library paths into programs... immediate >checking whether stripping libraries is possible... yes >checking if libtool supports shared libraries... yes >checking whether to build shared libraries... yes >checking whether to build static libraries... no >checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E >checking for ld used by x86_64-pc-linux-gnu-g++... /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64 >checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) is GNU ld... yes >checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes >checking for x86_64-pc-linux-gnu-g++ option to produce PIC... -fPIC -DPIC >checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes >checking if x86_64-pc-linux-gnu-g++ static flag -static works... yes >checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... yes >checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... (cached) yes >checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes >checking dynamic linker characteristics... (cached) GNU/Linux ld.so >checking how to hardcode library paths into programs... immediate >checking whether to enable maintainer-specific portions of Makefiles... no >checking for working memcmp... yes >checking whether lstat correctly handles trailing slash... yes >checking whether stat accepts an empty string... no >checking for working strtod... yes >checking for canonicalize_file_name... yes >checking for floor... no >checking for gethostname... yes >checking for getpagesize... yes >checking for getrusage... yes >checking for memchr... yes >checking for memmove... yes >checking for memset... yes >checking for mkstemp... yes >checking for pow... no >checking for readlink... yes >checking for realpath... yes >checking for regcomp... yes >checking for setlocale... yes >checking for sqrt... no >checking for strchr... yes >checking for strerror... yes >checking for strpbrk... yes >checking for strrchr... yes >checking for strstr... yes >checking for strtol... yes >checking for ANSI C header files... (cached) yes >checking getopt.h usability... yes >checking getopt.h presence... yes >checking for getopt.h... yes >checking libintl.h usability... yes >checking libintl.h presence... yes >checking for libintl.h... yes >checking limits.h usability... yes >checking limits.h presence... yes >checking for limits.h... yes >checking locale.h usability... yes >checking locale.h presence... yes >checking for locale.h... yes >checking netinet/in.h usability... yes >checking netinet/in.h presence... yes >checking for netinet/in.h... yes >checking for stdlib.h... (cached) yes >checking for string.h... (cached) yes >checking for strings.h... (cached) yes >checking for unistd.h... (cached) yes >checking cstdlib usability... yes >checking cstdlib presence... yes >checking for cstdlib... yes >checking for an ANSI C-conforming const... yes >checking for inline... inline >checking for pid_t... yes >checking for size_t... yes >checking whether struct tm is in sys/time.h or time.h... time.h >checking for uid_t in sys/types.h... yes >checking for ptrdiff_t... yes >checking size of int*... 8 >checking whether C++ compiler implements namespaces... yes >checking whether C++ compiler has working valarray<T>... yes >checking for special C compiler options needed for large files... no >checking for _FILE_OFFSET_BITS value needed for large files... no >################################# ># Test for netCDF # >################################ >checking for /opt/local/include/netcdf.h... no >checking for /opt/local/lib/libnetcdf.a... no >checking for /sopt/netcdf/netcdf411-gcc-serial/include/netcdf.h... no >checking for /sopt/netcdf/netcdf411-gcc-serial/lib/libnetcdf.a... no >checking netcdf.h usability... yes >checking netcdf.h presence... yes >checking for netcdf.h... yes >checking for nc_open in -lnetcdf... yes >################################# ># Test for netCDF4 support # >################################# >checking whether NC_CHUNKED is declared... yes >configure: netcdf.h contains netCDF4 definitions >checking for nc_def_var_chunking in -lnetcdf... yes >configure: Good news: Simple program compiles and links to netCDF4 library >checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to support OpenMP... -fopenmp >Beginning generic tests for DAP support >Testing for DAP-netCDF support (is DAP in libnetcdf.a?)... >checking for nc__opendap in -lnetcdf... yes >configure: DAP support enabled >checking for getopt_long... yes >checking for _g95_ac_array in -lf95... no >checking for sin in -lm... yes >checking for sinf in -lsunmath... no >checking for gettext in -lintl... no >checking for res_init in -lresolv... no >checking for main in -lsocket... no >checking for main in -lthread... no >checking for nco_open in -lnco... no >checking for nc_inq_format... yes >checking for getopt... yes >checking for getopt_long... (cached) yes >checking for atan2... yes >checking for acosf... yes >checking for asinf... yes >checking for atanf... yes >checking for atan2f... yes >checking for cosf... yes >checking for expf... yes >checking for fabsf... yes >checking for fmodf... yes >checking for log10f... yes >checking for logf... yes >checking for powf... yes >checking for sinf... yes >checking for sqrtf... yes >checking for tanf... yes >checking for erff... yes >checking for erfcf... yes >checking for gammaf... yes >checking for acoshf... yes >checking for asinhf... yes >checking for atanhf... yes >checking for coshf... yes >checking for sinhf... yes >checking for tanhf... yes >checking for ceilf... yes >checking for floorf... yes >checking for nearbyint... yes >checking for rint... yes >checking for round... yes >checking for trunc... yes >checking for nearbyintf... yes >checking for rintf... yes >checking for roundf... yes >checking for truncf... yes >checking for getopt_long... (cached) yes >checking for strdup... yes >checking for strcasecmp... yes >checking for strcasestr... yes >########################################################## ># Sorting out MacOSX build parameters # >########################################################## >################################# ># Testing for ANTLR support # >################################# >checking for runantlr... no >checking for antlr... antlr >configure: antlr library was found >######################################## ># Testing for GSL support # >######################################## >configure: These GSL library and header tests must succeed for GSL support: >checking for gsl_sf_gamma_inc in -lgsl... yes >checking for /usr/include/gsl/gsl_sf_gamma.h... yes >configure: GSL support enabled >checking regex.h usability... yes >checking regex.h presence... yes >checking for regex.h... yes >checking for sys/types.h... (cached) yes >checking for regexec... yes >checking for regcomp... (cached) yes >checking for regfree... yes >######################################## ># Testing for UDUNITS support # >######################################## >checking for XML_ParserCreate in -lexpat... yes >checking for /usr/include/udunits2/udunits2.h... no >checking for /usr/include/udunits2.h... yes >checking for /usr/lib/x86_64-linux-gnu/libudunits2.a... no >checking for /usr/lib/i386-linux-gnu/libudunits2.a... no >checking for /opt/local/include/udunits2/udunits2.h... no >checking for /opt/local/lib/libudunits2.a... no >checking for /usr/share/udunits/udunits2.xml... yes >configure: NB: Following tests of UDUnits2 library and header must succeed for UDUnits2 support: >checking for ut_read_xml in -ludunits2... yes >checking udunits2.h usability... yes >checking udunits2.h presence... yes >checking for udunits2.h... yes >configure: UDUnits2 support enabled >checking for ncgen... /usr/bin/ncgen >configure: Creating sample netCDF data files for self-tests >can't open file data/in.cdl for reading: >No such file or directory >can't open file data/in_grp.cdl for reading: >No such file or directory >can't open file data/in_grp_1.cdl for reading: >No such file or directory >can't open file data/in_grp_2.cdl for reading: >No such file or directory >can't open file data/in_grp_3.cdl for reading: >No such file or directory >can't open file data/in_1.cdl for reading: >No such file or directory >can't open file data/in_2.cdl for reading: >No such file or directory >can't open file data/cmip5.cdl for reading: >No such file or directory >can't open file data/obs.cdl for reading: >No such file or directory >ln: failed to create symbolic link 'data/85.nc': No such file or directory >ln: failed to create symbolic link 'data/86.nc': No such file or directory >ln: failed to create symbolic link 'data/87.nc': No such file or directory >ln: failed to create symbolic link 'data/88.nc': No such file or directory >ln: failed to create symbolic link 'data/89.nc': No such file or directory >ln: failed to create symbolic link 'data/h0001.nc': No such file or directory >ln: failed to create symbolic link 'data/h0002.nc': No such file or directory >ln: failed to create symbolic link 'data/h0003.nc': No such file or directory >ln: failed to create symbolic link 'src/nco_c++/in.nc': No such file or directory >############################### ># Require Shared Libs? # >############################### >checking for makeinfo... yes >checking that generated files are newer than configure... done >configure: creating ./config.status >config.status: creating Makefile >config.status: creating data/Makefile >config.status: creating src/Makefile >config.status: creating src/nco/Makefile >config.status: creating man/Makefile >config.status: creating src/nco_c++/Makefile >config.status: creating src/nco++/Makefile >config.status: creating doc/Makefile >config.status: creating config.h >config.status: executing depfiles commands >config.status: executing libtool commands > >Configuration Parameters: >AR_FLAGS............. cru >CC................... x86_64-pc-linux-gnu-gcc -std=gnu99 >CFLAGS............... -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE >CPP.................. x86_64-pc-linux-gnu-gcc -E >CPPFLAGS............. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include >CXX.................. x86_64-pc-linux-gnu-g++ >CXXFLAGS............. -mtune=generic -O2 -pipe >OPENMP_CFLAGS........ -fopenmp >ENABLE_DAP_NETCDF.... yes >ENABLE_DAP........... yes >ENABLE_GSL........... yes >HAVE_NETCDF4_H....... yes >ENABLE_NETCDF4....... yes >NETCDF4_ROOT......... >ENABLE_UDUNITS....... no >ENABLE_UDUNITS2...... yes >GSL_ROOT............. /usr >HAVE_ANTLR........... antlr >HAVE_MAKEINFO........ yes >HOST................. >host................. x86_64-pc-linux-gnu >HOSTNAME............. crozon >LDFLAGS.............. -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed >LIBS................. -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >install prefix ...... /usr >******************************************************************* >Configuration complete. You are now ready to run 'make'. >Ensure 'make' points to GNU Make (AT&T Make chokes on GNU syntax). >If the build fails, please examine the file 'configure.eg' >in the top-level NCO directory. It contains examples known to >build NCO for various platforms and compilers. >******************************************************************* >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2 ... >>>> Working in BUILD_DIR: "/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build" >make -j3 >make all-recursive >make[1]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build' >Making all in data >make[2]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/data' >/usr/bin/ncgen -o big.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/big.cdl >/usr/bin/ncgen -o in.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in.cdl >/usr/bin/ncgen -o in_rec_zero.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in_rec_zero.cdl >/usr/bin/ncgen -k netCDF-4 -o in_grp.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in_grp.cdl >/usr/bin/ncgen -k netCDF-4 -o in_grp_1.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in_grp_1.cdl >/usr/bin/ncgen -k netCDF-4 -o in_grp_2.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in_grp_2.cdl >/usr/bin/ncgen -k netCDF-4 -o in_grp_3.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/in_grp_3.cdl >/usr/bin/ncgen -k netCDF-4 -o cmip5.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/cmip5.cdl >/usr/bin/ncgen -k netCDF-4 -o obs.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/obs.cdl >/usr/bin/ncgen -k netCDF-4 -o mdl.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/mdl.cdl >/usr/bin/ncgen -k netCDF-4 -o mdl2.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/mdl2.cdl >/usr/bin/ncgen -k netCDF-4 -o hdn.nc /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/data/hdn.cdl >make[2]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/data' >Making all in src >make[2]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src' >Making all in nco >make[3]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco' >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -c -o nco_att_utl.lo /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/nco_att_utl.c >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -c -o nco_aux.lo /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/nco_aux.c >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=compile x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -c -o nco_bnr.lo /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/nco_bnr.c >libtool: compile: x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/nco_att_utl.c -fPIC -DPIC -o .libs/nco_att_utl.o >libtool: compile: x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 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>x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco -I../.. -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/ncap.c >test -f ncap_yacc.c || /bin/sh /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/autobld/ylwrap /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/ncap_yacc.y y.tab.c ncap_yacc.c y.tab.h `echo ncap_yacc.c | sed -e s/cc$/hh/ -e s/cpp$/hpp/ -e s/cxx$/hxx/ -e s/c++$/h++/ -e s/c$/h/` y.output ncap_yacc.output -- bison -y -d --name-prefix=nco_yy >test -f ncap_lex.c || /bin/sh /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/autobld/ylwrap /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco/ncap_lex.l lex.nco_yy.c ncap_lex.c -- flex -Pnco_yy >x86_64-pc-linux-gnu-gcc -std=gnu99 -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco 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-Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncks ncks.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncpdq ncpdq.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed -o ncra ncra.o libnco.la -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed -o ncrename ncrename.o libnco.la -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed -o ncwa ncwa.o ncap_utl.o ncap_lex.o ncap_yacc.o libnco.la -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncra ncra.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncwa ncwa.o ncap_utl.o ncap_lex.o ncap_yacc.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncrename ncrename.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >/bin/sh ../../libtool --tag=CXX --tag=CC --mode=link x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed -o ncap ncap_utl.o ncap.o ncap_yacc.o ncap_lex.o libnco.la -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >libtool: link: x86_64-pc-linux-gnu-gcc -std=gnu99 -mtune=generic -O2 -pipe -std=c99 -D_BSD_SOURCE -D_POSIX_SOURCE -Wl,-O1 -o .libs/ncap ncap_utl.o ncap.o ncap_yacc.o ncap_lex.o -L/usr/lib -Wl,--as-needed ./.libs/libnco.so -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm /usr/lib64/libudunits2.so >make[3]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco' >Making all in nco_c++ >make[3]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco_c++' >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_att.lo `test -f 'nco_att.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_att.cc >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_dmn.lo `test -f 'nco_dmn.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_dmn.cc >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_fl.lo `test -f 'nco_fl.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_fl.cc >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_att.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_att.o >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_fl.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_fl.o >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_dmn.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_dmn.o >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_hgh.lo `test -f 'nco_hgh.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_hgh.cc >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_hgh.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_hgh.o >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_utl.lo `test -f 'nco_utl.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_utl.cc >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=compile x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o libnco_c___la-nco_var.lo `test -f 'nco_var.cc' || echo '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/'`nco_var.cc >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_utl.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_utl.o >libtool: compile: x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++ -I../.. -DABORT_ON_ERROR -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco_c++/nco_var.cc -fPIC -DPIC -o .libs/libnco_c___la-nco_var.o >ln -f -s ../../data/in.nc in.nc >/bin/sh ../../libtool --tag=CXX --tag=CXX --mode=link x86_64-pc-linux-gnu-g++ -mtune=generic -O2 -pipe -release 4.4.2 -L/usr/lib -lnetcdf -Wl,-O1 -Wl,--as-needed -o libnco_c++.la -rpath /usr/lib64 libnco_c___la-nco_att.lo libnco_c___la-nco_dmn.lo libnco_c___la-nco_fl.lo libnco_c___la-nco_hgh.lo libnco_c___la-nco_utl.lo libnco_c___la-nco_var.lo -ludunits2 -lexpat -lgsl -lm -lnetcdf -lnetcdf -lnetcdf -lcurl -L/usr/lib64 -lgsl -lgslcblas -lm -ludunits2 >libtool: link: x86_64-pc-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/crtbeginS.o .libs/libnco_c___la-nco_att.o .libs/libnco_c___la-nco_dmn.o .libs/libnco_c___la-nco_fl.o .libs/libnco_c___la-nco_hgh.o .libs/libnco_c___la-nco_utl.o .libs/libnco_c___la-nco_var.o -L/usr/lib -Wl,--as-needed -lexpat -lnetcdf -lcurl -L/usr/lib64 /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so /usr/lib64/libudunits2.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.7.3/../../../../lib64/crtn.o -mtune=generic -O2 -Wl,-O1 -Wl,-soname -Wl,libnco_c++-4.4.2.so -o .libs/libnco_c++-4.4.2.so >libtool: link: (cd ".libs" && rm -f "libnco_c++.so" && ln -s "libnco_c++-4.4.2.so" "libnco_c++.so") >libtool: link: ( cd ".libs" && rm -f "libnco_c++.la" && ln -s "../libnco_c++.la" "libnco_c++.la" ) >make[3]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco_c++' >Making all in nco++ >make[3]: Entering directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco++' >x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++ -I../.. -I./ -I../nco -I/usr/include -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o Invoke.o /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/Invoke.cc >x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++ -I../.. -I./ -I../nco -I/usr/include -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o ncap2.o /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2.cc >x86_64-pc-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++ -I../.. -I./ -I../nco -I/usr/include -I/usr/include -DHAVE_NETCDF4_H -I/usr/include -I/usr/include -mtune=generic -O2 -pipe -c -o ncap2_utl.o /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2_utl.cc >In file included from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2_utl.cc:9:0: >/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2_utl.hh:46:59: fatal error: nco_netcdf.h: No such file or directory >compilation terminated. >make[3]: *** [ncap2_utl.o] Error 1 >make[3]: *** Waiting for unfinished jobs.... >In file included from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/vtl_cls.hh:11:0, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/fmc_cls.hh:12, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/libnco++.hh:21, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2.cc:83: >/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2_utl.hh:46:59: fatal error: nco_netcdf.h: No such file or directory >compilation terminated. >make[3]: *** [ncap2.o] Error 1 >In file included from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/vtl_cls.hh:11:0, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/fmc_cls.hh:12, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/libnco++.hh:21, > from /var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/Invoke.cc:13: >/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2/src/nco++/ncap2_utl.hh:46:59: fatal error: nco_netcdf.h: No such file or directory >compilation terminated. >make[3]: *** [Invoke.o] Error 1 >make[3]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src/nco++' >make[2]: *** [all-recursive] Error 1 >make[2]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build/src' >make[1]: *** [all-recursive] Error 1 >make[1]: Leaving directory `/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build' >make: *** [all] Error 2 > [31;01m*[0m ERROR: sci-misc/nco-4.4.2::gentoo failed (compile phase): > [31;01m*[0m emake failed > [31;01m*[0m > [31;01m*[0m If you need support, post the output of `emerge --info '=sci-misc/nco-4.4.2::gentoo'`, > [31;01m*[0m the complete build log and the output of `emerge -pqv '=sci-misc/nco-4.4.2::gentoo'`. > [31;01m*[0m The complete build log is located at '/var/tmp/portage/sci-misc/nco-4.4.2/temp/build.log'. > [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-misc/nco-4.4.2/temp/environment'. > [31;01m*[0m Working directory: '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2_build' > [31;01m*[0m S: '/var/tmp/portage/sci-misc/nco-4.4.2/work/nco-4.4.2'
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