[Bioperl-guts-l] bioperl-live/Bio/Map FPCMarker.pm, 1.9, 1.10 Relative.pm, 1.4, 1.5 RelativeI.pm, 1.3, 1.4

Senduran Balasubramaniam sendu at dev.open-bio.org
Wed Sep 20 07:50:10 EDT 2006


Update of /home/repository/bioperl/bioperl-live/Bio/Map
In directory dev.open-bio.org:/tmp/cvs-serv7925/Bio/Map

Modified Files:
	FPCMarker.pm Relative.pm RelativeI.pm 
Log Message:
POD cleanup: escape <>

Index: Relative.pm
===================================================================
RCS file: /home/repository/bioperl/bioperl-live/Bio/Map/Relative.pm,v
retrieving revision 1.4
retrieving revision 1.5
diff -C2 -d -r1.4 -r1.5
*** Relative.pm	20 Sep 2006 10:40:50 -0000	1.4
--- Relative.pm	20 Sep 2006 11:50:08 -0000	1.5
***************
*** 47,52 ****
  =head1 DESCRIPTION
  
! A Relative object is used to describe what the co-ordinates (->numerical(),
! ->start(), ->end()) of a Position are relative to. By default they are
  implicitly assumed to be relative to the start of the map the Position is on.
  But setting the ->relative() of a Position to one of these objects lets us
--- 47,52 ----
  =head1 DESCRIPTION
  
! A Relative object is used to describe what the co-ordinates (numerical(),
! start(), end()) of a Position are relative to. By default they are
  implicitly assumed to be relative to the start of the map the Position is on.
  But setting the ->relative() of a Position to one of these objects lets us

Index: FPCMarker.pm
===================================================================
RCS file: /home/repository/bioperl/bioperl-live/Bio/Map/FPCMarker.pm,v
retrieving revision 1.9
retrieving revision 1.10
diff -C2 -d -r1.9 -r1.10
*** FPCMarker.pm	20 Sep 2006 10:20:01 -0000	1.9
--- FPCMarker.pm	20 Sep 2006 11:50:08 -0000	1.10
***************
*** 124,138 ****
             through L<Bio::MapIO::fpc>
   Returns : L<Bio::Map::FPCMarker> object
!  Args    :    -name => marker name string,
! 	      -type    => type string,
! 	      -global  => global position for marker,
! 	      -frame   => boolean if marker is framework or placement,
! 	      -group   => group number for marker,
! 	      -subgroup=> subgroup number of marker,
! 	      -anchor  => boolean if marker is anchored,
! 	      -clones  => all the clone elements in map (hashref),
! 	      -contigs => all the contig elements (hasref),
! 	      -position => mapping of marker names to map position (hasref),
!           -remark => remarks, separated by newlines
  =cut
  
--- 124,139 ----
             through L<Bio::MapIO::fpc>
   Returns : L<Bio::Map::FPCMarker> object
!  Args    : -name     => marker name string,
! 	       -type     => type string,
! 	       -global   => global position for marker,
! 	       -frame    => boolean if marker is framework or placement,
! 	       -group    => group number for marker,
! 	       -subgroup => subgroup number of marker,
! 	       -anchor   => boolean if marker is anchored,
! 	       -clones   => all the clone elements in map (hashref),
! 	       -contigs  => all the contig elements (hasref),
! 	       -position => mapping of marker names to map position (hasref),
!            -remark   => remarks, separated by newlines
! 
  =cut
  

Index: RelativeI.pm
===================================================================
RCS file: /home/repository/bioperl/bioperl-live/Bio/Map/RelativeI.pm,v
retrieving revision 1.3
retrieving revision 1.4
diff -C2 -d -r1.3 -r1.4
*** RelativeI.pm	20 Sep 2006 10:20:01 -0000	1.3
--- RelativeI.pm	20 Sep 2006 11:50:08 -0000	1.4
***************
*** 24,29 ****
  =head1 DESCRIPTION
  
! A Relative object is used to describe what the co-ordinates (->numerical(),
! ->start(), ->end()) of a Position are relative to. By default they are
  implicitly assumed to be relative to the start of the map the Position is on.
  But setting the ->relative() of a Position to one of these objects lets us
--- 24,29 ----
  =head1 DESCRIPTION
  
! A Relative object is used to describe what the co-ordinates (numerical(),
! start(), end()) of a Position are relative to. By default they are
  implicitly assumed to be relative to the start of the map the Position is on.
  But setting the ->relative() of a Position to one of these objects lets us



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