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######################################################
# This is to check what signals are available from the
# command line on different platforms.
#
# === Results
#
# Mac:
#   ctrl-T: INFO
#   ctrl-\: QUIT
#   ctrl-Z: TSTP

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# This script demonstrates that ENV variables are inherited
# in system calls.  The printout (assuming VARIABLE is not
# set beforehand) is:
#
#   % ruby env_inheritance.rb
#   before: 
#   reset:  blue
#   system: blue
#   popen:  blue
#   after:  blue

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require 'benchmark'
require 'rack'

include Rack::Utils

# This illustrates the little optimizations to Rack::Utils that you might
# consider.  The parse_query optimization prevents the regeneration of the
# default separator regexp:
#
#   /[#{d}] */n

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== JQuery Extension

Illustrates that something in jquery > 1.2.6 causes toolbars in other
extensions to disappear. To see the issue, first install an extension that
will disappear like Web Developer (link below). Web Developer adds a toolbar
all across the top of the browser.

Then enable this extension by moving the '[email protected]' file
into your Firefox profile directory (be sure to add the full path to this
directory into the file first). For example:

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*.rbc

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# Demonstrates how to add a domain type to YAML.  Note
# that the namespace and year have to be as written...
# "tap.rubyforge.org,2009" doesn't work, for instance.

require 'yaml'
YAML::add_domain_type( "tap.yaml.org,2002", "object" ) do |type, val|
  "loaded: #{type} (#{val})"
end

puts YAML.load("!tap/object foo")

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#! /usr/bin/env ruby

require 'rubygems'
require 'tap/task'

# Sample::task a sample task
#
# This is a sample of a task used as an executable. This is a sample of a
# task used as an executable. This is a sample of a task used as an
# executable.

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data
results
config

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require 'ms/in_silico/digester'
require 'ms/fasta/archive'
require 'molecules'
require 'tap'

# PeptideMasses::task
#
#   % rap peptide_masses <fasta_file>
#
class PeptideMasses < Tap::Task

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# This illustrates the danger of accessing the constant name
# of a child class during inheritance (ex by to_s).  The
# constant name will not be set at the time of inheritance
# if the class was is using Class.new.

class A
  class << self
    attr_accessor :const_name

    def inherited(child)