[EXTERNAL] Parallel NetCDF Configure Error

[Gates, Jason Matthew]

Thanks so much, Wei-keng.  I had installed the Xcode command-line tools, as that should have been all that was needed, but apparently for my particular versions of the OS, Xcode, and its command-line tools, I needed to install the entirety of Xcode.  That, plus the recommendation in your stackoverflow link, did the trick.

Thanks again,

Jason M. Gates

> On Jul 31, 2019, at 10:08 AM, Wei-keng Liao <wkliao at eecs.northwestern.edu> wrote:
> 
> Hi, Jason
> 
> From your file ‘config.log’, I am seeing the error message below.
> 
> /Users/jmgate/toolchain/install/gcc-9.1.0/lib/gcc/x86_64-apple-darwin18.6.0/9.1.0/include-fixed/stdio.h:78:10: fatal error: _stdio.h: No such file or directory
>   78 | #include <_stdio.h>
>      |          ^~~~~~~~~~
> compilation terminated.
> 
> This indicates your installation of Xcode may not be complete.
> Please try command
>    xcode-select —install
> 
> Googling shows the following 2 links related to this problem.
> https://stackoverflow.com/questions/52509602/cant-compile-c-program-on-a-mac-after-upgrade-to-mojave/52530212
> https://github.com/Microsoft/LightGBM/issues/1420
> 
> Wei-keng
> 
>> On Jul 30, 2019, at 10:22 AM, Gates, Jason Matthew via parallel-netcdf <parallel-netcdf at lists.mcs.anl.gov> wrote:
>> 
>> ​Good morning,
>> 
>> I'm trying to build pnetcdf-1.11.2, but I'm running into the following configure error:
>> 
>> checking whether we are cross compiling... configure: error: in `/Users/jmgate/toolchain/build/pnetcdf-1.11.2':
>> configure: error: cannot run C compiled programs.
>> If you meant to cross compile, use `--host'.
>> See `config.log' for more details
>> 
>> The config.log file and the full output from the following configure command
>> 
>> /Users/jmgate/toolchain/src/pnetcdf-1.11.2/configure --prefix=${TOOLCHAIN_INSTALL}/pnetcdf-1.11.2 2>&1 | tee config$(date +%y%m%d%H%M%S).log
>> 
>> are attached.  My compiler/TPL stack so far (and not all these are relevant, but included for the sake of completeness) is
>> 	• ​​gcc-9.1.0
>> 	• openmpi-4.0.1
>> 	• cmake-3.15.0
>> 	• python-​3.7.3
>> 	• lapack-3.8.0
>> 	• boost-1.70.0
>> 	• zlib-1.2.11
>> 	• hdf5-1.10.5
>> This is on Mac OS-X 10.14.6.  Any help resolving the configure error would be appreciated.
>> 
>> Many thanks,
>> 
>> Jason M. Gates
>> 
>> <config.log><config190730074416.log>
> 

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