[Bioperl-l] minicpan (CPAN::Mini) doesn't mirror BioPerl-1.6.1

George Hartzell hartzell at alerce.com
Fri Mar 4 13:16:03 EST 2011


Chris Fields writes:
 > On Mar 3, 2011, at 5:04 PM, George Hartzell wrote:
 > 
 > > Hi all,
 > > 
 > > I'm using minicpan (from CPAN::Mini) to keep a cpan mirror.  My mirror
 > > does not contain BioPerl-1.6.1.tar.gz even though search.cpan.org
 > > seems to have it.  The only tarballs that end up in Chris' directory
 > > are these:
 > > 
 > > /Users/hartzell/tmp/minicpan//authors/id/C/CJ/CJFIELDS/BioPerl-db-1.6.0.tar.gz
 > > /Users/hartzell/tmp/minicpan//authors/id/C/CJ/CJFIELDS/BioPerl-network-1.6.0.tar.gz
 > > /Users/hartzell/tmp/minicpan//authors/id/C/CJ/CJFIELDS/BioPerl-run-1.6.1.tar.gz
 > > 
 > > It is listed in the 02packages.details.txt.gz file that is mirrored.
 > > 
 > > Thoughts, suggestions?
 > > 
 > > Thanks,
 > > 
 > > g.
 > 
 > That's odd; could it be the repo you created the mirror from?
 > 
 > This is my PAUSE account:
 > 
 >  BioPerl-1.6.0.meta                                   78518  Sun, 25 Jan 2009 05:19:20 GMT
 >  BioPerl-1.6.0.readme                                 12174  Sun, 25 Jan 2009 05:19:41 GMT
 >  BioPerl-1.6.0.tar.gz                               6813396  Sun, 25 Jan 2009 17:14:12 GMT
 >  BioPerl-1.6.1.meta                                   82231  Tue, 29 Sep 2009 16:33:52 GMT
 >  BioPerl-1.6.1.readme                                 12174  Tue, 29 Sep 2009 16:33:49 GMT
 >  BioPerl-1.6.1.tar.gz                               10462526  Tue, 29 Sep 2009 16:43:11 GMT
 >  BioPerl-DB-1.6.0_001.tar.gz                         494106  Wed, 30 Sep 2009 20:49:59 GMT
 >  BioPerl-Network-1.6.0_001.tar.gz                   2198338  Wed, 30 Sep 2009 20:50:18 GMT
 >  BioPerl-Run-1.6.1_001.tar.gz                       4289239  Wed, 30 Sep 2009 21:07:38 GMT
 >  BioPerl-db-1.6.0.meta                                 7728  Tue, 24 Feb 2009 02:58:05 GMT
 >  BioPerl-db-1.6.0.readme                               7066  Tue, 24 Feb 2009 02:58:05 GMT
 >  BioPerl-db-1.6.0.tar.gz                             392773  Tue, 24 Feb 2009 15:33:05 GMT
 >  BioPerl-network-1.6.0.meta                            1268  Tue, 24 Feb 2009 03:00:26 GMT
 >  BioPerl-network-1.6.0.readme                          3669  Tue, 24 Feb 2009 03:00:28 GMT
 >  BioPerl-network-1.6.0.tar.gz                       1410782  Tue, 24 Feb 2009 15:33:16 GMT
 >  BioPerl-run-1.6.0.meta                               10289  Tue, 24 Feb 2009 02:59:26 GMT
 >  BioPerl-run-1.6.0.readme                               576  Tue, 24 Feb 2009 02:59:26 GMT
 >  BioPerl-run-1.6.0.tar.gz                           4082430  Tue, 24 Feb 2009 15:34:43 GMT
 >  BioPerl-run-1.6.1.meta                               10289  Wed, 25 Feb 2009 16:07:06 GMT
 >  BioPerl-run-1.6.1.readme                               576  Wed, 25 Feb 2009 16:07:06 GMT
 >  BioPerl-run-1.6.1.tar.gz                           4082463  Wed, 25 Feb 2009 16:14:37 GMT
 >  CHECKSUMS                                             5035  Sun, 03 Oct 2010 19:21:56 GMT
 > 
 > chris
 > 
 > 

Ok, apparently we've earned a reputation, and it has preceeded us....
Here's the code that Ricardo uses to filter the list of things to mirror:

  sub _filter_module {
    my $self = shift;
    my $args = shift;
  
    if ($self->{skip_perl}) {
      return 1 if $args->{path} =~ m{/(?:emb|syb|bio)?perl-\d}i;
      return 1 if $args->{path} =~ m{/(?:parrot|ponie)-\d}i;
      return 1 if $args->{path} =~ m{/(?:kurila)-\d}i;
      return 1 if $args->{path} =~ m{/\bperl-?5\.004}i;
      return 1 if $args->{path} =~ m{/\bperl_mlb\.zip}i;
    }
  
    return 1 if $self->__do_filter($self->{path_filters},   $args->{path});
    return 1 if $self->__do_filter($self->{module_filters}, $args->{module});
    return 0;
  }

I'll ask him why he's filtering bioperl out and we can see if we can
fix it.  I'm hoping that it's just an over-eager cut-n-paste of stuff
that he thinks of as the "perl" source (which is why it's within the
skip_perl test) and not that we've done something egregious.

g.


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