[BioRuby-cvs] bioruby/lib/bio/io fastacmd.rb,1.12,1.13

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby/lib/bio/io
In directory dev.open-bio.org:/tmp/cvs-serv27223/lib/bio/io

Modified Files:
	fastacmd.rb 
Log Message:
* fixed to work with newer version of fastacmd (suggested by the author
  of this module, Shuji Shigenbu)


Index: fastacmd.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/io/fastacmd.rb,v
retrieving revision 1.12
retrieving revision 1.13
diff -C2 -d -r1.12 -r1.13
*** fastacmd.rb	14 Jul 2006 14:30:09 -0000	1.12
--- fastacmd.rb	25 Jul 2006 18:18:21 -0000	1.13
***************
*** 147,151 ****
    # *Returns*:: a Bio::FastaFormat object for each iteration
    def each_entry
!     cmd = [ @fastacmd, '-d', @database, '-D', 'T' ]
      Bio::Command.call_command(cmd) do |io|
        io.close_write
--- 147,151 ----
    # *Returns*:: a Bio::FastaFormat object for each iteration
    def each_entry
!     cmd = [ @fastacmd, '-d', @database, '-D', '1' ]
      Bio::Command.call_command(cmd) do |io|
        io.close_write