John,
My recollection using gcc and gfortran on Mac OS X 10.5 (Leopard) is
that they both default to 32-bit. My makefiles define CC (and,
sometimes, LD) as "gcc -m64", plus FC as "gfortran -m64" to get things
to work. Note: the -m64 flag is NOT in defined in the CFLAGS, FCFLAGS
and LDFLAGS variables -- since -m64 is really selecting a different
compiler/linker, it should be defined as part of those variables,
regardless of the rest of the options.
For example, here's my (non-HDF) make configure of netCDF using gcc/g+
+/gfortran:
cd netcdf-$(VERSION) ; \
./configure >configure.log 2>&1 \
CC="gcc -m64" \
CFLAGS="-g -O2" \
CXX="g++ -m64" \
CXXFLAGS="-g -O2" \
CPPFLAGS="-DNDEBUG -DgFortran" \
FC="gfortran -m64" \
FCFLAGS="-g -O2"
(I haven't tried -O3, which supposedly invokes the gcc vectorizer/sse
code generator.)
Larry Baker
US Geological Survey
650-329-5608
baker@xxxxxxxx
On Aug 2, 2010, at 8:36 AM, John Helly wrote:
Hi.
I copied all the source (netcdf-beta.tar and hdf5-1.8.5) to another
mac and upgraded Xcode and then installed the gfortran you specified
and bingo.
+-------------------------------------------------------------+
| Congratulations! You have successfully installed netCDF! |
| |
| You can use script "nc-config" to find out the relevant |
| compiler options to build your application. Enter |
| |
| nc-config --help |
| |
| for additional information. |
| |
| CAUTION: |
| |
| If you have not already run "make check", then we strongly |
| recommend you do so. It does not take very long. |
| |
| Before using netCDF to store important data, test your |
| build with "make check". |
| |
| NetCDF is tested nightly on many platforms at Unidata |
| but your platform is probably different in some ways. |
| |
| If any tests fail, please see the netCDF web site: |
| http://www.unidata.ucar.edu/software/netcdf/ |
| |
| NetCDF is developed and maintained at the Unidata Program |
| Center. Unidata provides a broad array of data and software |
| tools for use in geoscience education and research. |
| http://www.unidata.ucar.edu |
+-------------------------------------------------------------+
iceberg:netcdf-4.1.2-beta1 hellyj$
Here's the script I used. Note that this is a 64bit build since I
turned off the -m32 option. At least I think it defaults to 64-bit.
#!/bin/bash
make distclean
#export LDFLAGS="-L/usr/local/hdf5-1.8.5-macosx32-static"
#export DYLD_LIBRARY_PATH=/usr/local/hdf5-1.8.5-macosx32-static:
$DYLD_LIBRARY_PATH
export DYLD_LIBRARY_PATH=/usr/local/hdf5-1.8.5:$DYLD_LIBRARY_PATH
#export LD_LIBRARY_PATH=/usr/local/hdf5-1.8.5-macosx32-static:
$LD_LIBRARY_PATH
#
echo "LD_LIBRARY_PATH: $LD_LIBRARY_PATH"
echo "DYLD_LIBRARY_PATH:$DYLD_LIBRARY_PATH"
export CC=/usr/bin/cc
#export CFLAGS='-m32'
#export CPPFLAGS=-Df2cFortran
export F77=gfortran
export FC=gfortran
export FCFLAGS=-qsuffix=cpp=f90
./configure --prefix=/usr/local/netcdf-4.1.2beta --enable-netcdf-4 --
enable-f90 --with-hdf5=/usr/local/hdf5-1.8.5
#./configure --prefix=/usr/local/netcdf-4.1.1 --enable-netcdf-4 --
enable-f90 --with-hdf5=/usr/local/hdf5-1.8.5-macosx32-static
#
#export LDFLAGS="-L/usr/local/hdf5-1.8.5-macosx64-static"
#./configure --prefix=/usr/local/netcdf-4.1.1 --enable-netcdf-4 --
enable-f90 --with-hdf5=/usr/local/hdf5-1.8.5-macosx64-static
I'm going to try to reproduce this on my laptops where I was having
the previous problems.
Cheers.
--------------
John Helly, UCSD / San Diego Supercomputer Center / Scripps
Institution of Oceanography, Climate, Atmospheric Science, and
Physical Oceanography / +01 760 840 8660 mobile / stonesteps
(Skype) / stonesteps7 (iChat) / /www.sdsc.edu/~hellyj
On Aug 2, 2010, at 8:20 AM, John Helly wrote:
Thanks, Roy. Sounds like just the kind of black magic I need.
Cheers.
--------------
John Helly, UCSD / San Diego Supercomputer Center / Scripps
Institution of Oceanography, Climate, Atmospheric Science, and
Physical Oceanography / +01 760 840 8660 mobile / stonesteps
(Skype) / stonesteps7 (iChat) / /www.sdsc.edu/~hellyj
On Aug 2, 2010, at 7:52 AM, Roy Mendelssohn wrote:
Hi John:
I notice you are using HDF-1.8.5. A few days ago I emailed the list
about that, and Ed replied that at the moment they do not work with
HDF-1.8.5 (i can't find the email but look at the archives). You
need to use the version of HDF 1.8.4 that is on the netcdf ftp
site. I have been able to compile that with:
1. the gcc and gfortran from fink
2. the gcc from apple and the gfortran from R at: http://r.research.att.com/tools/
- make certain you scroll down and get the gfortran for Snwo
Leopard, not the one at the top of the page.
HTH,
-Roy
Greetings.
I am struggling to compile netcdf-4.1.1 on OSX 10.6.4 with hdf5 and
fortran so I can build Dave Pierce's new ncview. I have worked my
way through some earlier problems and have come to this script:
#!/bin/bash
make distclean
#export LDFLAGS="-L/usr/local/hdf5-1.8.5-macosx32-static"
export CC=/usr/bin/cc
export CFLAGS='-m32'
#export CPPFLAGS=-Df2cFortran
export F77=gfortran
export FC=gfortran
export FCFLAGS=-qsuffix=cpp=f90
./configure --prefix=/usr/local/netcdf-4.1.1 --enable-netcdf-4 --
enable-f90 --with-hdf5=/usr/local/hdf5-1.8.5-macosx32-static
#
#export LDFLAGS="-L/usr/local/hdf5-1.8.5-macosx64-static"
#./configure --prefix=/usr/local/netcdf-4.1.1 --enable-netcdf-4 --
enable-f90 --with-hdf5=/usr/local/hdf5-1.8.5-macosx64-static
This got me past some earlier problems with 32-bit fortran
libraries (I think) but now I'm getting complaints about the hdf5
libraries even though they seem to be found for some things.
checking for manual-page index command...
checking hdf5.h usability... yes
checking hdf5.h presence... yes
checking for hdf5.h... yes
checking whether we should try to build netCDF-4... yes
checking for H5Fflush in -lhdf5... no
configure: error: Can't find or link to the hdf5 library. Configure
with --disable-netcdf-4 or see config.log for errors.
I'm attaching the config.log for those who might care to look. In
the script above, you can see that I experimented with defining the
LDFLAGS and this solved the problem of the missing -lhdf5 but
introduced a bunch of other even stranger problems that made me
think I was overriding some more basic library paths by specifying
LDFLAGS. Anyway, I couldn't figure out what those problems were so
I backed up to this in hoping that someone out there would have a
suggestion.
Any help would be appreciated.
Cheers.
--------------
John Helly, UCSD / San Diego Supercomputer Center / Scripps
Institution of Oceanography, Climate, Atmospheric Science, and
Physical Oceanography / +01 760 840 8660 mobile / stonesteps
(Skype) / stonesteps7 (iChat) / /www.sdsc.edu/~hellyj
<config.log>
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**********************
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U.S. Government or NOAA."
**********************
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
1352 Lighthouse Avenue
Pacific Grove, CA 93950-2097
e-mail: Roy.Mendelssohn@xxxxxxxx (Note new e-mail address)
voice: (831)-648-9029
fax: (831)-648-8440
www: http://www.pfeg.noaa.gov/
"Old age and treachery will overcome youth and skill."
"From those who have been given much, much will be expected"
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