Top Level Namespace

Includes:

Bio::Shell

Defined Under Namespace

Modules: Bio, BiorubyHelper Classes: BiorubyController, BiorubyGenerator, Hash, Object, String

Constant Summary

Seq1 =

">hgoe
LTFVENDKII NI
"

Constants included from Bio::Shell::Core

Bio::Shell::Core::BIOFLAT, Bio::Shell::Core::CONFIG, Bio::Shell::Core::DATADIR, Bio::Shell::Core::ESC_SEQ, Bio::Shell::Core::HISTORY, Bio::Shell::Core::MARSHAL, Bio::Shell::Core::MESSAGE, Bio::Shell::Core::OBJECT, Bio::Shell::Core::PLUGIN, Bio::Shell::Core::SCRIPT, Bio::Shell::Core::SESSION, Bio::Shell::Core::SHELLDIR

Instance Attribute Summary

Attributes included from Bio::Shell::Ghost

#cache, #config

Instance Method Summary

• #hoge(e) ⇒ Object
• #wget(url) ⇒ Object

Methods included from Bio::Shell::Ghost

#check_marshal, #close_history, #closing_splash, #config_color, #config_echo, #config_message, #config_pager, #config_show, #config_splash, #configure, #create_flat_dir, #create_real_dir, #create_save_dir, #create_save_dir_ask, #find_flat_dir, #load_config, #load_config_file, #load_history, #load_history_file, #load_object, #load_object_file, #load_plugin, #load_plugin_dir, #load_session, #open_history, #opening_splash, #save_config, #save_config_file, #save_history, #save_history_file, #save_object, #save_object_file, #save_script, #save_script_file, #save_session, #script, #script_begin, #script_end, #splash_message, #splash_message_action, #splash_message_action_color, #splash_message_color, #store_history

Methods included from Bio::Shell::Core

#ask_yes_or_no, #bioflat_dir, #colors, #config_file, #data_dir, #history_file, #object_file, #plugin_dir, #script_dir, #script_file, #session_dir, #shell_dir

Instance Method Details

#hoge(e) ⇒ Object

# File 'lib/bio/appl/sosui/report.rb', line 127

def hoge(ent)
  puts '==='
  puts ent
  puts '==='
  sosui = Bio::SOSUI::Report.new(ent)
  p [:entry_id, sosui.entry_id]
  p [:prediction, sosui.prediction]
  p [:tmhs.size, sosui.tmhs]
  pp [:tmhs, sosui.tmh]
end

#wget(url) ⇒ Object

# File 'lib/bio/db/go.rb', line 418

def wget(url)
  if /http:\/\/(.+?)\// =~ url
    host = $1
    path = url[(url.index(host) + host.size)..url.size]
  else
    raise ArgumentError, "Invalid URL\n#{url}"
  end

  result = Net::HTTP.new(host).get(path).body
end