require 'test/unit'
require File.dirname(__FILE__) + '/load_lib_path'
require File.dirname(__FILE__) + '/load_bin_path'


class ProphProtSummaryTest < Test::Unit::TestCase

  NODELETE = false

  def initialize(arg)
    super(arg)
    @tfiles = File.dirname(__FILE__) + '/tfiles/'
    @tf_proph = @tfiles + "opd1/000_020-prot.xml"
    @tf_summary = @tfiles + "opd1/000_020-prot.summary.html"
    @tf_bioworks_small = @tfiles + 'bioworks_small.xml'
    @tf_proph_cat_inv =  @tfiles + 'opd1/opd1_cat_inv_small-prot.xml'
    @cmd = "ruby -I#{LOAD_LIB_PATH} -S protein_summary.rb "
  end

  def Xtest_usage
    assert_match(/usage:/, `#{@cmd}`)
  end

  def Xtest_proph_basic
    #puts @cmd
    print `#{@cmd} -g 5.0 #{@tf_proph}`
    assert(File.exist?(@tf_summary), "file #{@tf_summary} exists")
    string = IO.read(@tf_summary)
    assert_match(/gi\|16132176\|ref\|NP_418775\.1\|/, string)
    assert_match(/16132176/, string)
    File.unlink(@tf_summary) unless NODELETE
  end

  def Xtest_bioworks_basic
    print `#{@cmd} #{@tf_bioworks_small}`
    # @TODO: need to freeze the output here
  end

  def Xtest_bioworks_with_fpr
    print `#{@cmd} -f #{@tf_bioworks_small} #{@tf_bioworks_small} --fpr`
  end

  def test_proph_with_fpr
    #puts @cmd
    print `#{@cmd} #{@tf_proph_cat_inv} -f INV_ --fpr`
  end

end