[Bioperl-l] repeatmasker

Mauricio Herrera Cuadra arareko at campus.iztacala.unam.mx
Tue Jan 2 16:12:34 UTC 2007

Hi Karen,

It seems like you don't have the RepeatMasker executable installed in 
your machine and available for BioPerl to make use of it. You'll need to 
download and install it first. You can do it from here:


I don't know if there's a compiled version of RM available for Windows. 
Does anyone knows about this? Chris, Nathan?


Karen Buysse wrote:
> Dear all,
> I want to use the BioPerl repeatmasker program.
> However, when I run the following program (=first lines of the synopsis):
> use Bio::Tools::Run::RepeatMasker;
>   my @params=("mam" => 1,"noint"=>1);
>   my $factory = Bio::Tools::Run::RepeatMasker->new(@params);
> I get the error message: *RepeatMasker program not found as  or not 
> executable.*
> I have the file *RepeatMasker.pm* in the following directories:
> C:/Perl/lib/Bio/Tools/Run
> C:/Perl/site/lib/Bio/Tools/Run
> Can anyone please help me with this?
> Many thanks in advance and a happy new year,
> Karen

arareko at campus.iztacala.unam.mx
Laboratorio de Genética
Unidad de Morfofisiología y Función
Facultad de Estudios Superiores Iztacala, UNAM

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