[Bioperl-l] Bio::Ext::Align?

Dave Messina David.Messina at sbc.su.se
Fri Sep 2 04:44:07 EDT 2011


As it happens, a colleague of mine needed Bio::Ext::Align for hhrpred:
http://toolkit.tuebingen.mpg.de/hhpred


He got it working thus:

> Hi Dave,
> thanks a lot. i made it work. The error i got later on was:

 relocation R_X86_64_32 against `.rodata.str1.1' can not be used when making
> a shared object;
> recompile with -fPIC
>


> the solution is:
> perl Makefile.PL PREFIX=<path to installation> /fftwsingle --enable-shared
> --with-pic --enable-single
> <edit Makefile to add -fPIC to CFLAGS>
> make
> make install
> http://forums.fedoraforum.org/<http://forums.fedoraforum.org/showthread.php?t=232607>
> showthread.php?t=232607<http://forums.fedoraforum.org/showthread.php?t=232607>




Dave





On Fri, Sep 2, 2011 at 06:31, Fields, Christopher J
<cjfields at illinois.edu>wrote:

> Yes, it's essentially deprecated (unmaintained).  I don't know of anyone
> who has packaged that up in a while, if ever.
>
> chris
>
> On Sep 1, 2011, at 10:49 PM, Jack Tanner wrote:
>
> > I'd like to run Bio::Ext::Align, from bioperl-ext. Seems like a pretty
> quiet codebase these days... Is it dead?
> >
> > Does anyone have a spec file for building an SRPM for it for RHEL 6?
> > _______________________________________________
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>
>
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