[Bioperl-l] bioperl / emboss on windows

uludag at ebi.ac.uk uludag at ebi.ac.uk
Mon May 4 11:39:55 EDT 2009


It looks like EMBOSS was disabled in Bio\Factory\EMBOSS.pm for Windows
platform. After commenting out the related condition in the _program_list
function (as shown below) i don't get the "Application [needle] is not
available" error any more.

    if( #$^O =~ /MSWIN/i ||

Regards,
Mahmut


> I have installed the bioperl and emboss on my* windows xp*, as guided on
> the web. But it
> --------------------- WARNING ---------------------
> *MSG: Application [needle] is not available!*
> ---------------------------------------------------
>
>
> use warnings;
> use CGI;
> use Bio::Perl;
> use Bio::Root::Root;
> use Bio::Factory::ApplicationFactoryI;
> use Bio::Factory::EMBOSS;
> use Bio::Tools::Run::EMBOSSApplication;
>
>
>
> *my $f = Bio::Factory::EMBOSS -> new();*
> *$f->program("needle");*
> #my $factory = new Bio::Factory::EMBOSS;
> #my $compseqapp = $factory->program("needle");





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