[BioRuby-cvs] bioruby/lib/bio/util/color_scheme buried.rb, 1.2, 1.3 helix.rb, 1.2, 1.3 hydropathy.rb, 1.2, 1.3 nucleotide.rb, 1.2, 1.3 strand.rb, 1.3, 1.4 taylor.rb, 1.2, 1.3 turn.rb, 1.2, 1.3 zappo.rb, 1.2, 1.3
Trevor Wennblom
trevor at dev.open-bio.org
Sun Dec 31 19:47:37 UTC 2006
Update of /home/repository/bioruby/bioruby/lib/bio/util/color_scheme
In directory dev.open-bio.org:/tmp/cvs-serv32077/util/color_scheme
Modified Files:
buried.rb helix.rb hydropathy.rb nucleotide.rb strand.rb
taylor.rb turn.rb zappo.rb
Log Message:
Update license for ColorScheme.
Index: strand.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/strand.rb,v
retrieving revision 1.3
retrieving revision 1.4
diff -C2 -d -r1.3 -r1.4
*** strand.rb 13 Dec 2005 14:58:07 -0000 1.3
--- strand.rb 31 Dec 2006 19:47:35 -0000 1.4
***************
*** 2,35 ****
# bio/util/color_scheme/strand.rb - Color codings for strand propensity
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Strand < Score
#########
--- 2,16 ----
# bio/util/color_scheme/strand.rb - Color codings for strand propensity
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Strand < Score #:nodoc:
#########
Index: turn.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/turn.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** turn.rb 13 Dec 2005 14:58:07 -0000 1.2
--- turn.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/turn.rb - Color codings for turn propensity
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Turn < Score
#########
--- 2,16 ----
# bio/util/color_scheme/turn.rb - Color codings for turn propensity
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Turn < Score #:nodoc:
#########
Index: hydropathy.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/hydropathy.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** hydropathy.rb 13 Dec 2005 14:58:07 -0000 1.2
--- hydropathy.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,30 ****
# bio/util/color_scheme/hydropathy.rb - Color codings for hydrophobicity
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
--- 2,11 ----
# bio/util/color_scheme/hydropathy.rb - Color codings for hydrophobicity
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
***************
*** 36,40 ****
# 1157, 105-132, 1982
! class Hydropathy < Score
#########
--- 17,21 ----
# 1157, 105-132, 1982
! class Hydropathy < Score #:nodoc:
#########
Index: nucleotide.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/nucleotide.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** nucleotide.rb 13 Dec 2005 14:58:07 -0000 1.2
--- nucleotide.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/nucleotide.rb - Color codings for nucleotides
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Nucleotide < Simple
#########
--- 2,16 ----
# bio/util/color_scheme/nucleotide.rb - Color codings for nucleotides
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Nucleotide < Simple #:nodoc:
#########
Index: buried.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/buried.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** buried.rb 13 Dec 2005 14:58:07 -0000 1.2
--- buried.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/buried.rb - Color codings for buried amino acids
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Buried < Score
#########
--- 2,16 ----
# bio/util/color_scheme/buried.rb - Color codings for buried amino acids
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Buried < Score #:nodoc:
#########
Index: helix.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/helix.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** helix.rb 13 Dec 2005 14:58:07 -0000 1.2
--- helix.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/helix.rb - Color codings for helix propensity
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Helix < Score
#########
--- 2,16 ----
# bio/util/color_scheme/helix.rb - Color codings for helix propensity
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Helix < Score #:nodoc:
#########
Index: taylor.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/taylor.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** taylor.rb 13 Dec 2005 14:58:07 -0000 1.2
--- taylor.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/taylor.rb - Taylor color codings for amino acids
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Taylor < Simple
#########
--- 2,16 ----
# bio/util/color_scheme/taylor.rb - Taylor color codings for amino acids
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Taylor < Simple #:nodoc:
#########
Index: zappo.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/util/color_scheme/zappo.rb,v
retrieving revision 1.2
retrieving revision 1.3
diff -C2 -d -r1.2 -r1.3
*** zappo.rb 13 Dec 2005 14:58:07 -0000 1.2
--- zappo.rb 31 Dec 2006 19:47:35 -0000 1.3
***************
*** 2,35 ****
# bio/util/color_scheme/zappo.rb - Zappo color codings for amino acids
#
! # Copyright:: Copyright (C) 2005 Trevor Wennblom <trevor at corevx.com>
! # License:: LGPL
#
# $Id$
#
- #
- #--
- #
- # This library is free software; you can redistribute it and/or
- # modify it under the terms of the GNU Lesser General Public
- # License as published by the Free Software Foundation; either
- # version 2 of the License, or (at your option) any later version.
- #
- # This library is distributed in the hope that it will be useful,
- # but WITHOUT ANY WARRANTY; without even the implied warranty of
- # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- # Lesser General Public License for more details.
- #
- # You should have received a copy of the GNU Lesser General Public
- # License along with this library; if not, write to the Free Software
- # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
- #
- #++
- #
- #
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Zappo < Simple
#########
--- 2,16 ----
# bio/util/color_scheme/zappo.rb - Zappo color codings for amino acids
#
! # Author:: Trevor Wennblom <mailto:trevor at corevx.com>
! # Copyright:: Copyright (c) 2005-2007 Midwinter Laboratories, LLC (http://midwinterlabs.com)
! # License:: Distributes under the same terms as Ruby
#
# $Id$
#
require 'bio/util/color_scheme'
module Bio::ColorScheme
! class Zappo < Simple #:nodoc:
#########
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