Re: biology/openbabel seems to require lower gcc version

[Jason Bacon <outpaddling%yahoo.com@localhost>]

On 2019-04-17 05:00, Mayuresh wrote:
> On NetBSD 8.0_RC1 with default gcc 5.5.0 openbable shows compilation
> errors of the kind:
>
> /usr/pkgsrc/biology/openbabel/work/openbabel-2.3.2/include/openbabel/shared_ptr.h:33:17:
> error: 'std::tr1' has not been declared
>        using std::tr1::shared_ptr;
>
> Tried setting the standard to c++11 (instead of c++03 set in the
> Makefile). With that, the above error goes away, but a newer one appears
> like:
>
> /usr/include/g++/bits/stl_pair.h:276:5: note:   template argument
> deduction/substitution failed:
> /usr/pkgsrc/biology/openbabel/work/openbabel-2.3.2/src/ops/sort.cpp:147:68:
> note:   cannot convert 'iter.__
> gnu_cxx::__normal_iterator<_Iterator,
> _Container>::operator*<OpenBabel::OBBase**, std::vector<OpenBabel::OB
> Base*> >()' (type 'OpenBabel::OBBase*') to type 'OpenBabel::OBBase*&&'
>         valvec.push_back(std::make_pair<OBBase*,std::string>(*iter, s));
>
> On Linux with gcc 4.9.2 it is building fine.
>
> Is there a way I can ask pkgsrc to use older gcc version than the default
> one? I tried setting variables mentioned on this page, but nothing worked:
> compiler always defaulted to 5.5.0
>
> https://wiki.netbsd.org/pkgsrc/gcc/
>
> Please advise.
>
> Mayuresh
The current package version, 2.3.2 dates to Oct 2012.  Have you 
considered upgrading the package to the latest release instead?

https://github.com/openbabel/openbabel/releases

This will likely work with newer compilers and would be a better use of 
man-hours, unless you really need the old version for some reason.

Cheers,

    JB