[BioC] RBGL 1.8.1 installation error on linux

[Li.Long at isb-sib.ch]

Hi, Johannes, Jeff and others,

Getting back to this.  It seems that there's some interplay among the
header files which caused compilation errors (big time).  I separated the
troubled function (for transitive.closure) and I could go through w/o
problems.

The codes are in svn: RBGL1.9.2.

If you have sometime, could you please try it and let me know if it works
in your previous setting?

Thanks a great deal!

Li


> hi all,
> as far as i understood the boost library (or RBGL) bases mainly on
> templates, concerning this i found something at the gcc site
> http://gcc.gnu.org/gcc-4.1/changes.html
>
> The (undocumented) extension which permitted templates with default
> arguments to be bound to template template parameters with fewer
> parameters
> has been deprecated, and will be removed in the next major release of G++.
> For example:
>
>        template <template <typename> class C>
>        void f(C<double>) {}
>
>        template <typename T, typename U = int>
>        struct S {};
>
>        template void f(S<double>);
>
> makes use of the deprecated extension. The reason this code is not valid
> ISO
> C++ is that S is a template with two parameters; therefore, it cannot be
> bound to C which has only one parameter.
>
> if this is the reason that the package doesn't compile it won't work on
> systems with the gcc4.1 or later...
>
> jo
>
> On 5/11/06, Jeff Gentry <jgentry at jimmy.harvard.edu> wrote:
>>
>> > based on your suggestions i tested now some new settings, i used the
>> gcc
>> > 3.2.3 compiler (g++32 ) to compile the package (unfortunately there is
>> no
>> > 4.0 version available for FC5) and get, on my system with R 2.3 and
>> > RBGL_1.8.1 the same error as before. but interestingly the
>> installation
>> of
>> > RBGL_1.6.0.tar.gz with the g++32 worked (but not with the g++ from gcc
>> 4.1).
>> > well, i guess i will have to try on...
>>
>> FWIW I have the same problem on my system (RHEL3, AMD64), and just
>> looked
>> and indeed it is gcc 3.2.3.
>>
>>
>
>
> --
> Johannes Rainer, Msc
> Tyrolean Cancer Research Institute
> Innrain 66, 6020 Innsbruck, Austria
> Tel.: +43 512 570485 15
> Email: johannes.rainer at tcri.at
>           johannes.rainer at tugraz.at
>
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