Error in Bioperl program execution

1
votes

I have installed bioperl but confused where to get it and where to run the bioperl program.Then I have tested for it and it was successful I have run a program for multiple seq. alignment.

Generated an error

Can't locate Bio/Tools/Run/Alignment/Clustalw.pm in @INC (@INC contains: /etc/perl /usr/local/lib/perl/5.14.2 /usr/local/share/perl/5.14.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.14 /usr/share/perl/5.14 /usr/local/lib/site_perl .) at msa.pl line 3. BEGIN failed--compilation aborted at msa.pl line 3.

1
algorithmperlbioinformaticsbioperlclustal
I suggest you provide more details concerning how you installed it and what operating system you are using. - John C
Yes .. I hv installed thorough CPAN bioperl.org/wiki/Installing_BioPerl_on_Ubuntu_Server and am using Ubuntu 12.04LS and it contains perl 5.14.2 in default - Rajkishore90
Bio::Tools::Run::Alignment::Clustalw is not part of BioPerl, that is why it can't be located. That module is part of the BioPerl-Run package, so that is what you need installed. - SES

1 Answers

2
votes

That means that the Bio::Tools::Run::Alignment::Clustalw module is missing. You need to install it. Use cpan Bio::Tools::Run::Alignment::Clustalw to install it.

Also see: Installing perl dependency automatically in perl