[Bioperl-l] IO::String missing

[Prachi Shah]

Ya, I understand that the documentation says
IO::String is installed in the Bundle. So when I ran
some sample scripts after installing BIO::Perl and
Bundle::BioPerl, I got the error "Cannot locate
IO::String in @INC". After some trials to figure it
out, I realised that the IO/String.pm did not exist on
my system. Maybe its a bug, or I did something wrong.
But now that I see that it was not just me who had
this problem, I am starting to outrule the second.
Anyway, I installed IO::String separately and
everything worked!

Prachi.


--- Jason Stajich <jason at cgt.mc.duke.edu> wrote:
> It is in the bundle:
> 
>
http://search.cpan.org/author/CRAFFI/Bundle-BioPerl-2.04/BioPerl.pm
> 
> -jason
> 
> On Thu, 6 Feb 2003, Prachi Shah wrote:
> 
> > Hi,
> >
> > That happens with Windows and Unix installations
> too.
> > Bundle::BioPerl also does not install IO::String.
> You
> > will have to install it separately.
> >
> > Prachi.
> >
> > --- nkuipers <nkuipers at uvic.ca> wrote:
> > > Hello,
> > >
> > > I just downloaded the 1.2 distro.  I am not
> root,
> > > therefore I used perl
> > > MakeFile.PL LIB=/home/nkuipers/lib.  A number of
> > > warnings were thrown during
> > > make test, most having to do with the absence of
> > > IO::String (a few others
> > > regarding certain XML parsers and SOAP are of no
> > > concern to me).
> > >
> > > A test script that contains only:
> > >
> > > use lib "/home/nkuipers/lib";
> > > use Bio::Index::Blast;
> > >
> > > throws the warning:
> > >
> > > "Can't locate IO/String.pm in @INC (@INC
> > > contains...) at
> > > /home/nkuipers/lib/Bio/Index/Blast.pm line 87.
> > >
> > > Line 87 is "use IO::String;".
> > >
> > > In browsing the CPAN bioperl1.2 namespace and
> > > www.bioperl.org I could not find
> > > an IO::String module to install manually before
> > > installing bioperl1.2.  Could
> > > someone please tell me where I am being stupid?
> > > Thanks.
> > >
> > > I am on Red Hat 8.0 using Perl 5.8.0.
> > >
> > > Cheers,
> > >
> > > Nathanael Kuipers
> > > ---
> > > Bioinformatics Technician
> > > Center for Biomedical Research,
> > > Dept. of Biology, University of Victoria
> > > Victoria BC, Canada
> > >
> > > _______________________________________________
> > > Bioperl-l mailing list
> > > Bioperl-l at bioperl.org
> > > http://bioperl.org/mailman/listinfo/bioperl-l
> >
> >
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> 
> --
> Jason Stajich
> Duke University
> jason at cgt.mc.duke.edu


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