module Workflow attr_accessor :example_dir def example_dir @example_dir ||= self.libdir.examples end def examples return {} unless self.libdir.examples.exists? examples = {} example_dir.glob("*/*").each do |example_dir| example = File.basename(example_dir) task_name = File.basename(File.dirname(example_dir)) examples[task_name] ||= [] examples[task_name] << example end IndiferentHash.setup examples examples end def example(task_name, example) task_info(task_name.to_sym)[:input_types].collect do |input,type| next unless example_dir[task_name][example][input].exists? [input, type, example_dir[task_name][example][input].find] end.compact end def self.load_inputs(dir, input_names, input_types) inputs = {} if File.exists?(dir) && ! File.directory?(dir) Log.debug "Loading inputs from #{dir}, not a directory trying as tar.gz" tarfile = dir digest = CMD.cmd("md5sum '#{tarfile}'").read.split(" ").first tmpdir = Rbbt.tmp.input_bundle[digest].find Misc.untar(tarfile, tmpdir) unless File.exists? tmpdir files = tmpdir.glob("*") if files.length == 1 && File.directory?(files.first) tmpdir = files.first end load_inputs(tmpdir, input_names, input_types) else dir = Path.setup(dir.dup) input_names.each do |input| file = dir[input].find file = dir.glob(input.to_s + ".*").reject{|f| f =~ /\.md5$/}.first if file.nil? or not file.exists? Log.debug "Trying #{ input }: #{file}" next unless file and file.exists? case input_types[input] when :file Log.debug "Pointing #{ input } to #{file}" if file =~ /\.read$/ inputs[input.to_sym] = Open.read(file) else inputs[input.to_sym] = Open.realpath(file) end when :text Log.debug "Reading #{ input } from #{file}" inputs[input.to_sym] = Open.read(file) when :array Log.debug "Reading array #{ input } from #{file}" inputs[input.to_sym] = Open.read(file).split("\n") when :tsv Log.debug "Opening tsv #{ input } from #{file}" inputs[input.to_sym] = TSV.open(file) when :boolean inputs[input.to_sym] = (file.read.strip == 'true') else Log.debug "Loading #{ input } from #{file}" inputs[input.to_sym] = file.read.strip end end IndiferentHash.setup(inputs) end end def example_inputs(task_name, example) inputs = {} IndiferentHash.setup(inputs) example(task_name, example).each do |input,type,file| case type when :tsv, :array, :text Log.debug "Pointing #{ input } to #{file}" inputs[input.to_sym] = file when :boolean inputs[input.to_sym] = (file.read.strip == 'true') else Log.debug "Loading #{ input } from #{file}" inputs[input.to_sym] = file.read.strip end end inputs end def example_step(task_name, example, new_inputs = {}) inputs = example_inputs(task_name, example) if new_inputs and new_inputs.any? IndiferentHash.setup(new_inputs) inputs = inputs.merge(new_inputs) end self.job(task_name, example, inputs) end end