[Bioperl-guts-l] bioperl-live/Bio/DB/GFF Feature.pm,1.74,1.75

Lincoln Stein lstein at dev.open-bio.org
Mon Aug 14 23:28:40 EDT 2006


Update of /home/repository/bioperl/bioperl-live/Bio/DB/GFF
In directory dev.open-bio.org:/tmp/cvs-serv25701/Bio/DB/GFF

Modified Files:
	Feature.pm 
Log Message:
fixed problem with segments glyph not showing target DNA / multiple alignments due to Bio::DB::GFF::Feature API change

Index: Feature.pm
===================================================================
RCS file: /home/repository/bioperl/bioperl-live/Bio/DB/GFF/Feature.pm,v
retrieving revision 1.74
retrieving revision 1.75
diff -C2 -d -r1.74 -r1.75
*** Feature.pm	4 May 2006 14:43:19 -0000	1.74
--- Feature.pm	15 Aug 2006 03:28:38 -0000	1.75
***************
*** 423,427 ****
   Usage   : $target = $f->target([$new_target])
   Function: get or set the feature target
!  Returns : a Bio::DB::GFF::Featname object
   Args    : a new group (optional)
   Status  : Public
--- 423,427 ----
   Usage   : $target = $f->target([$new_target])
   Function: get or set the feature target
!  Returns : a Bio::DB::GFF::Homol object
   Args    : a new group (optional)
   Status  : Public
***************
*** 429,434 ****
  This method works like group(), but only returns the group if it
  implements the start() method.  This is typical for
! similarity/assembly features, where the target encodes the start and stop
! location of the alignment.
  
  =cut
--- 429,437 ----
  This method works like group(), but only returns the group if it
  implements the start() method.  This is typical for
! similarity/assembly features, where the target encodes the start and
! stop location of the alignment.
! 
! The returned object is of type Bio::DB::GFF::Homol, which is a
! subclass of Bio::DB::GFF::Segment.
  
  =cut



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