Hello Nikulina, welcome to Perl Monks, take time trying to understand the requirements for BioPerl installation. I haven't tried CPAN manual installation for BioPerl since I find the PPM quite a stable one. Now, since you have added all the repositories mentioned in the table that is quite it!. Searching for All the packages from PPM would not yield BioPerl, since it is a Perl non-core module, so you need to search for it in the repositories you have connected to, AND then INSTALL it for it to be added to the modules you currently have. This in itself is not a big task if you are spending patient time understanding it...

Check installation instructions, it got some links that are useful..

In brief, after you have gotten familiar with what installation requirements are needed for your environment, invoke the PPM manager in shell mode by typing ppm-shell at your command prompt, then type search BioPerl, check if the search returned "Bundle-BioPerl" after that just type install Bundle-BioPerl, if that is not the case, then make sure that you are connected to all the repositories you have added to your package manager, by typing repo list and see how many enabled repositories are there... and enabling every disabled one by typing repo on followed by the repository id number..

I find the PPM shell mode more robust than the GUI one..

if ( $seq =~ /[A-Z]/) is better written as if ( $seq =~ /[AGCT]/) ...

Excellence is an Endeavor of Persistence. A Year-Old Monk :D .

In reply to Re: How to find any of many motifs? by biohisham
in thread How to find any of many motifs? by Nikulina

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