Class: ValidationTest

Inherits:

Object

• Object
• ValidationTest

show all

Defined in:

lib/genevalidator/validation_test.rb

Overview

Instance Attribute Summary (collapse)

• - (Object) cli_name

  Returns the value of attribute cli_name.

• - (Object) description

  Returns the value of attribute description.

• - (Object) header

  Returns the value of attribute header.

• - (Object) hits

  Returns the value of attribute hits.

• - (Object) prediction

  Returns the value of attribute prediction.

• - (Object) running_time

  Returns the value of attribute running_time.

• - (Object) short_header

  Returns the value of attribute short_header.

• - (Object) type

  Returns the value of attribute type.

• - (Object) validation_report

  Returns the value of attribute validation_report.

Instance Method Summary (collapse)

• - (ValidationTest) initialize(type, prediction, hits = nil, *argv) constructor

  Initilizes the object Params: type: type of the predicted sequence (:nucleotide or :protein) prediction: a Sequence object representing the blast query hits: a vector of Sequence objects (usually representig the blast hits) argv: aditional arguments if needed.

• - (Object) run

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# File 'lib/genevalidator/validation_test.rb', line 23

def initialize(type, prediction, hits = nil, *argv)
  @type = type
  @prediction = prediction
  @hits = hits
  @short_header = "NewVal"
  @header = "New Validation"
  @running_time = 0
  @cli_name = "all"
  @description = "No description available."
  @validation_report = ValidationReport.new("Not enough evidence")
end

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# File 'lib/genevalidator/validation_test.rb', line 11

def cli_name
  @cli_name
end

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# File 'lib/genevalidator/validation_test.rb', line 12

def description
  @description
end

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# File 'lib/genevalidator/validation_test.rb', line 10

def header
  @header
end

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# File 'lib/genevalidator/validation_test.rb', line 8

def hits
  @hits
end

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# File 'lib/genevalidator/validation_test.rb', line 7

def prediction
  @prediction
end

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# File 'lib/genevalidator/validation_test.rb', line 14

def running_time
  @running_time
end

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# File 'lib/genevalidator/validation_test.rb', line 9

def short_header
  @short_header
end

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# File 'lib/genevalidator/validation_test.rb', line 6

def type
  @type
end

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# File 'lib/genevalidator/validation_test.rb', line 13

def validation_report
  @validation_report
end

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# File 'lib/genevalidator/validation_test.rb', line 35

def run
 raise 'run method should be implemented by all classes that extend ValidationTest'
end