Hi Ross,
I am aware of Jason solutions. I just wanted to avoid going through the
pains of installing MacPorts… I am going to wait a bit more before doing so.
Many thanks!
Alan
On 26 October 2015 at 23:15, Ross Walker <ross.rosswalker.co.uk> wrote:
> Hi Alan,
>
> Others have seen problems with gcc 5.2 - it's just too 'new' right now.
> I'd suggest installing Mac Ports and gcc / gfortran 4.9 - I've had no
> issues with this and compiled just now using OSX 10.11.1. See Jason's
> extremely useful guide here:
>
> http://jswails.wikidot.com/mac-os-x
>
> All the best
> Ross
>
> > On Oct 26, 2015, at 16:03, Alan <alanwilter.gmail.com> wrote:
> >
> > So I am trying to get AT15 compiled.
> >
> > I use Fink with MacOS 10.11.1.
> >
> > I’ve installed Fink gcc 5.2 (the only option I have, since 4.2 is Mac OS
> > system and it not cross built with gfortran).
> >
> > I’ve changed AmberTools/src/configure2 so to use gfortran-fsf-5,
> g++-fsf-5
> > and gcc-fsf-5.
> >
> > All starts fine but at
> >
> > hecking NetCDF...
> > Using bundled NetCDF library.
> > NetCDF must be rebuilt.
> > Configuring NetCDF C interface (may be time-consuming)...
> > Compiling the NetCDF C interface (may be time-consuming)...
> > Configuring NetCDF Fortran interface (may be time-consuming)...
> > Compiling the NetCDF Fortran interface (may be time-consuming)...
> > Error: Could not compile with NetCDF Fortran interface.
> > Compile error follows:
> > Undefined symbols for architecture x86_64:
> > …
> > ___netcdf_MOD_nf90_sync in libnetcdff.a(netcdf.o)
> > ld: symbol(s) not found for architecture x86_64
> > collect2: error: ld returned 1 exit status
> >
> > Error: NetCDF build failed.
> > Configure failed due to the errors above!
> >
> > Who had successfully built AT15 on 10.11.1 with Fink gcc?
> >
> > Any suggestion would be very welcome.
> >
> > Thanks,
> >
> > Alan
> >
> > PS. I have Amber11 and I will try to get it working too, but let me get
> > AT15 first.
> >
> >
> > --
> > Alan Wilter SOUSA da SILVA, DSc
> > Senior Bioinformatician, UniProt
> > European Bioinformatics Institute (EMBL-EBI)
> > European Molecular Biology Laboratory
> > Wellcome Trust Genome Campus
> > Hinxton
> > Cambridge CB10 1SD
> > United Kingdom
> > Tel: +44 (0)1223 494588
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
>
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
--
Alan Wilter SOUSA da SILVA, DSc
Senior Bioinformatician, UniProt
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD
United Kingdom
Tel: +44 (0)1223 494588
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Received on Mon Oct 26 2015 - 16:30:05 PDT
