Re: [AMBER] {AMBER} installation on mac osx 10.11.6 hanging when configuring NetCDF

From: mirko hennig <>
Date: Tue, 9 Aug 2016 15:29:50 +0000 (UTC)

thanks for the quick reply david!
>Why do you describe this as an "endless loop"?  It sounds like the netcdf
>installation is failing, and then configure stops.  Is that not correct?

configure does not stop or fail, you can wait for hours as the previous mailing list entry also indicated, you have to manually kill ./configure 

>What does "clang -v" or "gcc -v" report? 
[Mirkos-MBP:~/my_CNS/Amber/amber14] mirko% gcc -vUsing built-in specs.COLLECT_GCC=gccCOLLECT_LTO_WRAPPER=/opt/local/libexec/gcc/x86_64-apple-darwin15/4.9.3/lto-wrapperTarget: x86_64-apple-darwin15Configured with: /opt/local/var/macports/build/_opt_mports_dports_lang_gcc49/gcc49/work/gcc-4.9.3/configure --prefix=/opt/local --build=x86_64-apple-darwin15 --enable-languages=c,c++,objc,obj-c++,lto,fortran,java --libdir=/opt/local/lib/gcc49 --includedir=/opt/local/include/gcc49 --infodir=/opt/local/share/info --mandir=/opt/local/share/man --datarootdir=/opt/local/share/gcc-4.9 --with-local-prefix=/opt/local --with-system-zlib --disable-nls --program-suffix=-mp-4.9 --with-gxx-include-dir=/opt/local/include/gcc49/c++/ --with-gmp=/opt/local --with-mpfr=/opt/local --with-mpc=/opt/local --with-isl=/opt/local --disable-isl-version-check --with-cloog=/opt/local --disable-cloog-version-check --enable-stage1-checking --disable-multilib --enable-lto --enable-libstdcxx-time --with-as=/opt/local/bin/as --with-ld=/opt/local/bin/ld --with-ar=/opt/local/bin/ar --with-bugurl= --with-pkgversion='MacPorts gcc49 4.9.3_0' --with-build-config=bootstrap-debugThread model: posixgcc version 4.9.3 (MacPorts gcc49 4.9.3_0) 
> the corresponding lot file is not very informative:>Can you post the entire log file (as an attachment)?  What you provided looks
>just like the top of the log file, and doesn't report any problems.

that is/was the entire log file:
[Mirkos-MBP:amber14/AmberTools/src] mirko% more netcdf_config.logconfigure: netCDF 4.3.0checking build system type... x86_64-apple-darwin15.6.0checking host system type... x86_64-apple-darwin15.6.0checking target system type... x86_64-apple-darwin15.6.0checking for a BSD-compatible install... /usr/bin/install -cchecking whether build environment is sane... yeschecking for a thread-safe mkdir -p... ./install-sh -c -dchecking for gawk... nochecking for mawk... nochecking for nawk... nochecking for awk... awkchecking whether make sets $(MAKE)... 
many thanksMirko

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Received on Tue Aug 09 2016 - 09:00:02 PDT
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