[BioRuby-cvs] bioruby/doc Tutorial.rd,1.8,1.9

[Mitsuteru C. Nakao]

Update of /home/repository/bioruby/bioruby/doc
In directory pub.open-bio.org:/tmp/cvs-serv6369/doc

Modified Files:
	Tutorial.rd 
Log Message:
* Fixed rd format.


Index: Tutorial.rd
===================================================================
RCS file: /home/repository/bioruby/bioruby/doc/Tutorial.rd,v
retrieving revision 1.8
retrieving revision 1.9
diff -C2 -d -r1.8 -r1.9
*** Tutorial.rd	27 Oct 2005 11:55:58 -0000	1.8
--- Tutorial.rd	1 Nov 2005 04:31:48 -0000	1.9
***************
*** 232,236 ****
      require 'bio'
  
! 		# Read all lines from STDIN split by the GenBank delimiter
      while entry = gets(Bio::GenBank::DELIMITER)
        gb = Bio::GenBank.new(entry)      # creates GenBank object
--- 232,236 ----
      require 'bio'
  
!     # Read all lines from STDIN split by the GenBank delimiter
      while entry = gets(Bio::GenBank::DELIMITER)
        gb = Bio::GenBank.new(entry)      # creates GenBank object
***************
*** 246,252 ****
  
      #!/usr/bin/env ruby
! 
      require 'bio'
! 
      ff = Bio::FlatFile.new(Bio::GenBank, ARGF)
      ff.each_entry do |gb|
--- 246,252 ----
  
      #!/usr/bin/env ruby
!   
      require 'bio'
!     
      ff = Bio::FlatFile.new(Bio::GenBank, ARGF)
      ff.each_entry do |gb|
***************
*** 301,305 ****
        puts "# #{gb.accession} - #{gb.organism}"
  
! 			# iterates over each element in 'features'
        gb.features.each do |feature|
          position = feature.position
--- 301,305 ----
        puts "# #{gb.accession} - #{gb.organism}"
  
!       # iterates over each element in 'features'
        gb.features.each do |feature|
          position = feature.position
***************
*** 477,481 ****
      # Creates FASTA factory object ("ssearch" instead of "fasta34" can also work)
      factory = Bio::Fasta.local('fasta34', ARGV.pop)
! 		(EDITOR's NOTE: not consistent pop command)
  
      # Reads FASTA-formatted files (TRANSLATOR'S NOTE: something wrong in Japanese text)
--- 477,481 ----
      # Creates FASTA factory object ("ssearch" instead of "fasta34" can also work)
      factory = Bio::Fasta.local('fasta34', ARGV.pop)
!     (EDITOR's NOTE: not consistent pop command)
  
      # Reads FASTA-formatted files (TRANSLATOR'S NOTE: something wrong in Japanese text)
***************
*** 806,809 ****
--- 806,810 ----
  E-Utils|URL:http://eutils.ncbi.nlm.nih.gov/entrez/query/static/eutils_help.html>))
  for more details.
+