[Bioperl-l] dependencies in emboss.pm

[Florent Angly]

Yoshiro,
The module Bio::Emboss::Methods is located in the bioperl-run package. Have
you installed bioperl-run in addition to bioperl-live?
Best,
Florent


On Fri, Mar 7, 2014 at 7:10 PM, Yoshiro Nagao <ng999 at yahoo.co.jp> wrote:

> First, please let me apologize to you for this primitive question about
> installation (if there is more proper mailing list for this sort of
> question,
> please let me know one).
>
> I tried to run the following tutorial script on my Ubuntu 12:
>
>
> https://github.com/bioperl/bioperl-live/blob/master/examples/align/aligntutorial.pl
>
> Since Bio::Factory::Emboss was not installed in my Ubuntu,
> I downloaded and installed Bio-Emboss-5.0.0.1.tar.gz from
> http://search.cpan.org/dist/Bio-Emboss/Emboss.pm
>
> Then, I modified the aligntutorial.pl as in:
>
> use lib "/home/usr/Bio-Emboss-5.0.0.1";
> use Emboss;
> #use Bio::Factory::Emboss;
>
> However, when I ran the aligntutorial.pl, another error message
>   Can't locate Bio/Emboss/Methods.pm
> appeared.
>
> Perhaps, I 'installed' the emboss very wrongly.
>
> How can I install the emboss module nicely, so that
> I do not have to rewrite the aligntutorial.pl or modules, or
> whatever other scripts on the GitHub site?
>
> Sorry for the silly question.
>
> Yoshiro
>
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