[gradsusr] Problems compiling on Ubuntu 16.04
Stephen Woodbridge
stephenwoodbridge37 at gmail.com
Thu Jan 3 12:31:40 EST 2019
Hi all,
I'm trying to build GrADS and GradsPy on Ubuntu 16.04. I've found some
help in the archives but still no success. Here is what I have tried and
any help or suggestions would be welcome.
sudo su
mkdir /usr/local/lib/grads
cd /usr/local/lib/grads
wget
ftp://cola.gmu.edu/grads/Supplibs/2.2/builds/supplibs-centos7.4-x86_64.tar.gz
tar xzf supplibs-centos7.4-x86_64.tar.gz
# had to do the following as it seems that the 2.2 dir is expected
mkdir 2.2
mv supplibs 2.2/.
# not sure if this is needed but archive suggested it
ln -s /usr/local/lib/grads/2.2/supplibs/libpng15.so.15 /usr/lib/
ln -s /usr/local/lib/grads/2.2/supplibs/libhdf5.so.8 /usr/lib/
ln -s /usr/local/lib/grads/2.2/supplibs/libnetcdf.so.7 /usr/lib/
ln -s /usr/local/lib/grads/2.2/supplibs/libhdf5_hl.so.8 /usr/lib/
ln -s /usr/local/lib/grads/2.2/supplibs/libtiff.so.3 /usr/lib/
ln -s /usr/local/lib/grads/2.2/supplibs/libgeotiff.so /usr/lib/
cd ~woodbri
mkdir -p work/grads
cd work/grads
wget ftp://cola.gmu.edu/grads/2.2/grads-2.2.1-src.tar.gz
tar xzf grads-2.2.1-src.tar.gz
I have tried:
$ ./configure --with-hdf5=/usr/local/lib/grads/2.2/supplibs
--with-geotiff=/usr/local/lib/grads/2.2/supplibs
--with-netcdf=/usr/local/lib/grads/2.2/supplibs
--with-hdf4=/usr/local/lib/grads/2.2/supplibs
which resulted in:
+=========================================================================+
GrADS 2.2.1 : Configured on 01/03/19 for x86_64-unknown-linux-gnu
+=========================================================================+
+-------------------------------+
| |
| GrADS will be built with: |
| |
| - GUI disabled |
| + READLINE enabled |
| + GEOTIFF enabled |
| + SHAPEFILE enabled |
| + GD enabled |
| + CAIRO enabled |
| + GRIB2 enabled |
| - HDF4 disabled |
| + HDF5 enabled |
| - NETCDF disabled |
| - OPeNDAP disabled |
| |
+-------------------------------+
but I need netcdf support, so I tried the following which looked
promising until I tried to compile it:
$ SUPPLIBS=/usr/local/lib/grads/2.2/suplibs ./configure
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
/home/woodbri/work/grads/grads-2.2.1/etc/missing: Unknown
`--is-lightweight' option
Try `/home/woodbri/work/grads/grads-2.2.1/etc/missing --help' for more
information
configure: WARNING: 'missing' script is too old or missing
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 whether to enable maintainer-specific portions of Makefiles... no
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for gcc... 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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
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-unknown-linux-gnu file names to
x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain
format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... gcc -E
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 gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/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 for shl_load... no
checking for shl_load in -ldld... no
checking for dlopen... no
checking for dlopen in -ldl... yes
checking whether a program can dlopen itself... yes
checking whether a statically linked program can dlopen itself... no
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 for programs
---------------------
checking for gawk... (cached) gawk
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking for xlc++... no
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/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 ln -s works... yes
Setting host specific options
-----------------------------
Host machine: x86_64-unknown-linux-gnu
Checking system libraries, headers, and compiler features
---------------------------------------------------------
checking for cos in -lm... yes
checking for X... libraries , headers
checking for gethostbyname... yes
checking for connect... yes
checking for remove... yes
checking for shmat... yes
checking for IceConnectionNumber in -lICE... yes
checking for ANSI C header files... (cached) yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking whether byte ordering is bigendian... no
checking for off_t... yes
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for _LARGEFILE_SOURCE value needed for large files... no
Checking for optional feature support
-------------------------------------
checking for supplibs directory... /usr/local/lib/grads/2.2/supplibs/
Checking for libraries to support extra features ...
readline
--------
looking in /usr/local/lib/grads/2.2/supplibs/
checking readline/readline.h usability... no
checking readline/readline.h presence... no
checking for readline/readline.h... no
looking in other system locations
checking for a readline compatible library... -leditline
checking readline.h usability... no
checking readline.h presence... no
checking for readline.h... no
checking for readline/readline.h... (cached) no
checking whether readline supports history... yes
checking history.h usability... no
checking history.h presence... no
checking for history.h... no
checking readline/history.h usability... no
checking readline/history.h presence... no
checking for readline/history.h... no
geotiff
-------
looking in /usr/local/lib/grads/2.2/supplibs/
checking geotiff.h usability... yes
checking geotiff.h presence... yes
checking for geotiff.h... yes
checking geotiffio.h usability... yes
checking geotiffio.h presence... yes
checking for geotiffio.h... yes
checking xtiffio.h usability... yes
checking xtiffio.h presence... yes
checking for xtiffio.h... yes
checking for main in -ltiff... yes
checking for main in -lgeotiff... yes
shapefiles
----------
looking in /usr/local/lib/grads/2.2/supplibs/
checking shapefil.h usability... yes
checking shapefil.h presence... yes
checking for shapefil.h... yes
checking for main in -lshp... yes
looking in /usr/local/lib/grads/2.2/supplibs/ for additional dependent libs
png
---
checking for main in -lpng15... yes
zlib
----
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for compress in -lz... yes
jpeg
----
checking for main in -ljpeg... yes
jasper
------
checking jasper.h usability... yes
checking jasper.h presence... yes
checking for jasper.h... yes
checking for main in -ljasper... yes
xml2
----
checking for main in -lxml2... yes
curl
----
checking for main in -lcurl... yes
gd
--
looking in /usr/local/lib/grads/2.2/supplibs/
checking gd.h usability... yes
checking gd.h presence... yes
checking for gd.h... yes
checking for gdImageCreate in -lgd... yes
checking for gdImageJpeg in -lgd... yes
grib2
-----
looking in /usr/local/lib/grads/2.2/supplibs/
checking grib2.h usability... yes
checking grib2.h presence... yes
checking for grib2.h... yes
checking for main in -lgrib2c... yes
Cairo
-----
looking in /usr/local/lib/grads/2.2/supplibs/
checking cairo.h usability... yes
checking cairo.h presence... yes
checking for cairo.h... yes
checking cairo-xlib.h usability... yes
checking cairo-xlib.h presence... yes
checking for cairo-xlib.h... yes
checking ft2build.h usability... yes
checking ft2build.h presence... yes
checking for ft2build.h... yes
checking for main in -lpixman-1... yes
checking for main in -lfontconfig... yes
checking for main in -lfreetype... yes
checking for main in -lXrender... yes
checking for main in -lcairo... yes
hdf5
----
looking in /usr/local/lib/grads/2.2/supplibs/
checking hdf5.h usability... yes
checking hdf5.h presence... yes
checking for hdf5.h... yes
checking for main in -lhdf5... yes
checking for main in -lhdf5_hl... yes
udunits
-------
looking in /usr/local/lib/grads/2.2/supplibs/
checking udunits.h usability... yes
checking udunits.h presence... yes
checking for udunits.h... yes
checking for utInit in -ludunits... yes
hdf4
----
looking in /usr/local/lib/grads/2.2/supplibs/
checking mfhdf.h usability... yes
checking mfhdf.h presence... yes
checking for mfhdf.h... yes
checking for main in -ldf... yes
checking for main in -lmfhdf... yes
netcdf
------
looking in /usr/local/lib/grads/2.2/supplibs/
checking netcdf.h usability... yes
checking netcdf.h presence... yes
checking for netcdf.h... yes
checking for main in -lnetcdf... yes
gadap
-----
Disabled by default. Use --with-gadap to enable OPeNDAP access to
station data.
gui
---
looking in system locations
checking for main in -lXext... yes
checking for main in -lXt... yes
checking for main in -lXmu... yes
checking for main in -lXpm... yes
checking for main in -lXaw... no
checking for XAW7... checking for main in -lXt... (cached) yes
checking for main in -lXmu... (cached) yes
checking for main in -lXext... (cached) yes
checking for main in -lXpm... (cached) yes
checking for main in -lneXtaw... no
checking for main in -lXaw3d... no
checking for main in -lXaw... (cached) no
configure: creating src/VERSION
configure: creating src/buildinfo.h
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/config.h
config.status: executing libtool commands
+=========================================================================+
GrADS 2.2.1 : Configured on 01/03/19 for x86_64-unknown-linux-gnu
+=========================================================================+
+-------------------------------+
| |
| GrADS will be built with: |
| |
| - GUI disabled |
| + READLINE enabled |
| + GEOTIFF enabled |
| + SHAPEFILE enabled |
| + GD enabled |
| + CAIRO enabled |
| + GRIB2 enabled |
| + HDF4 enabled |
| + HDF5 enabled |
| + NETCDF4 enabled |
| + OPeNDAP enabled |
| for grids only |
| |
+-------------------------------+
Run 'make && make install' to build GrADS.
Executables will be installed to bin/ in current dir, unless prefix was
specified.
root at u19589217:/home/woodbri/work/grads/grads-2.2.1# make
Making all in src
make[1]: Entering directory '/home/woodbri/work/grads/grads-2.2.1/src'
make all-am
make[2]: Entering directory '/home/woodbri/work/grads/grads-2.2.1/src'
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -rdynamic
-version-info 1:0:1 -L/usr/local/lib/grads/2.2/supplibs//lib -o
libgxpGD.la -rpath /home/woodbri/work/grads/grads-2.2.1/lib
libgxpGD_la-gxprintGD.lo libgxpGD_la-gxGD.lo
-L/usr/local/lib/grads/2.2/supplibs//lib -lgd -lm
libtool: link: warning: library
`/usr/local/lib/grads/2.2/supplibs//lib/libgd.la' was moved.
/bin/grep: /homes/jma/supplibs/src/fontconfig/lib/libfontconfig.la: No
such file or directory
/bin/sed: can't read
/homes/jma/supplibs/src/fontconfig/lib/libfontconfig.la: No such file or
directory
libtool: link: `/homes/jma/supplibs/src/fontconfig/lib/libfontconfig.la'
is not a valid libtool archive
Makefile:711: recipe for target 'libgxpGD.la' failed
make[2]: *** [libgxpGD.la] Error 1
make[2]: Leaving directory '/home/woodbri/work/grads/grads-2.2.1/src'
Makefile:610: recipe for target 'all' failed
make[1]: *** [all] Error 2
make[1]: Leaving directory '/home/woodbri/work/grads/grads-2.2.1/src'
Makefile:458: recipe for target 'all-recursive' failed
make: *** [all-recursive] Error 1
And looking for why we have references to /homes/jma I found the following
root at u19589217:/usr/local/lib/grads/2.2/supplibs/lib# strings * | grep homes
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include/freetype2/freetype/config
/homes/jma/grads/supplibs/include/freetype2/freetype
/homes/jma/grads/supplibs/include/fontconfig
dependency_libs=' -L/homes/jma/grads/supplibs/lib -L/usr/lib64
-L/usr/local/grads/2.2/supplibs/lib -ljpeg
/homes/jma/supplibs/src/fontconfig/lib/libfontconfig.la
-L/homes/jma/supplibs/src/freetype/lib
/homes/jma/supplibs/src/freetype/lib/libfreetype.la -lbz2
-L/homes/jma/supplibs/src/libxml2/lib
/homes/jma/supplibs/src/libxml2/lib/libxml2.la -ldl
-L/homes/jma/supplibs/lib/lib
/homes/jma/grads/supplibs/lib/libfreetype.la
/homes/jma/grads/supplibs/lib/libpng15.la
/homes/jma/grads/supplibs/lib/libpng.la -lz -lm'
/homes/jma/supplibs/src/fontconfig/lib:/homes/jma/grads/supplibs/lib
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include/freetype2/freetype/config
/homes/jma/grads/supplibs/include/freetype2/freetype
/homes/jma/grads/supplibs/include/fontconfig
/homes/jma/supplibs/src/jpeg-6b
/homes/jma/supplibs/src/fontconfig/lib:/homes/jma/grads/supplibs/lib
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include/freetype2/freetype/config
/homes/jma/grads/supplibs/include/freetype2/freetype
/homes/jma/grads/supplibs/include/fontconfig
/homes/jma/supplibs/src/jpeg-6b
/homes/jma/supplibs/src/fontconfig/lib:/homes/jma/grads/supplibs/lib
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include
/homes/jma/grads/supplibs/include/freetype2/freetype/config
/homes/jma/grads/supplibs/include/freetype2/freetype
/homes/jma/grads/supplibs/include/fontconfig
/homes/jma/supplibs/src/jpeg-6b
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