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

Fields, Christopher J cjfields at illinois.edu
Fri Sep 2 09:00:27 EDT 2011


I think, if this is actively being used, we should split it away from bioperl-ext and release it on its own.  Otherwise I worry about the long-term support for it/

chris

On Sep 2, 2011, at 3:44 AM, Dave Messina wrote:

> 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/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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