[Bioperl-l] latest BioPerl hard to find in CPAN?

Heikki Lehvaslaiho heikki at sanbi.ac.za
Wed Oct 22 03:54:40 EDT 2008


CPAN web query by typing 'cpan:bioperl' into konqueror that gets expanded to
  http://search.cpan.org/search?mode=dist&query=bioperl

gives bioperl bioperl-1.5.2 as the first one in the list.

Luckily, most people looking for a module will be using the web interface. 
That does not explain why the same query from the command line
  cpan[7]> d /bioperl/
does not show the latest release! More digging into this is needed.

   -Heikki

On Wednesday 22 October 2008 02:21:00 Dave Messina wrote:
> Hey everybody,
>
> When I looked in CPAN for bioperl 1.5.2 (the latest version available
> on CPAN), I couldn't find it.
>
> cpan[4]> i /bioperl/
> Bundle    Bundle::BioPerl        (CRAFFI/Bundle-BioPerl-2.1.8.tar.gz)
> Distribution    BIRNEY/bioperl-1.2.1.tar.gz
> Distribution    BIRNEY/bioperl-1.2.2.tar.gz
> Distribution    BIRNEY/bioperl-1.2.3.tar.gz
> Distribution    BIRNEY/bioperl-1.2.tar.gz
> Distribution    BIRNEY/bioperl-1.4.tar.gz
> Distribution    BIRNEY/bioperl-db-0.1.tar.gz
> Distribution    BIRNEY/bioperl-ext-1.4.tar.gz
> Distribution    BIRNEY/bioperl-gui-0.7.tar.gz
> Distribution    BIRNEY/bioperl-run-1.2.2.tar.gz
> Distribution    BIRNEY/bioperl-run-1.4.tar.gz
> Distribution    BOZO/Fry-Lib-BioPerl-0.15.tar.gz
> Distribution    CRAFFI/Bundle-BioPerl-2.1.8.tar.gz
> Module  = Bio::LiveSeq::IO::BioPerl (BIRNEY/bioperl-1.2.3.tar.gz)
> Module    Bio::Phylo::Adaptor::Bioperl::Datum (RVOSA/Bio-
> Phylo-0.17_RC6.tar.gz)
> Module    Bio::Phylo::Adaptor::Bioperl::Matrix (RVOSA/Bio-
> Phylo-0.17_RC6.tar.gz)
> Module    Bio::Phylo::Adaptor::Bioperl::Node (RVOSA/Bio-
> Phylo-0.17_RC6.tar.gz)
> Module    Bio::Phylo::Adaptor::Bioperl::Tree (RVOSA/Bio-
> Phylo-0.17_RC6.tar.gz)
> Module    Fry::Lib::BioPerl      (BOZO/Fry-Lib-BioPerl-0.15.tar.gz)
> Author          BIOPERLML ("Bioperl-l" <bioperl-l at lists.open-bio.org>)
> 20 items found
>
>
> I happen to know where it is, so I know it's there.
>
> cpan[7]> ls SENDU
> Fetching with LWP:
>    ftp://ftp.funet.fi/pub/languages/perl/CPAN/authors/id/S/CHECKSUMS
> Fetching with LWP:
>    ftp://ftp.funet.fi/pub/languages/perl/CPAN/authors/id/S/SE/CHECKSUMS
> Fetching with LWP:
>   
> ftp://ftp.funet.fi/pub/languages/perl/CPAN/authors/id/S/SE/SENDU/CHECKSUMS
> 5919092 2007-02-14 SENDU/bioperl-1.5.2_102.tar.gz
>    320154 2006-12-06 SENDU/bioperl-db-1.5.2_100.tar.gz
>     99082 2006-12-06 SENDU/bioperl-network-1.5.2_100.tar.gz
>    942093 2006-12-06 SENDU/bioperl-run-1.5.2_100.tar.gz
>
>
> But surely this will hamper others, no?
>
>
> Dave
>
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l

-- 
______ _/      _/_____________________________________________________
      _/      _/
     _/  _/  _/  Heikki Lehvaslaiho    heikki at_sanbi _ac _za
    _/_/_/_/_/  Senior Scientist    skype: heikki_lehvaslaiho
   _/  _/  _/  SANBI, South African National Bioinformatics Institute
  _/  _/  _/  University of Western Cape, South Africa
     _/      Phone: +27 21 959 2096   FAX: +27 21 959 2512
___ _/_/_/_/_/________________________________________________________



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