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Contents
require 'helper_spec'
require 'rpipe'
describe "Integration Processing for Johnson.Merit220" do
before(:all) do
@driver_file = File.join(File.dirname(__FILE__), '..', 'drivers', 'mrt00000.yml')
@driver = YAML.load_file(@driver_file)
@driver['rawdir'] = File.join($MRI_DATA, 'johnson.merit220.visit1', 'mrt00000', 'dicoms')
@driver['origdir'] = Dir.mktmpdir('orig_')
@driver['procdir'] = Dir.mktmpdir('proc_')
@driver['statsdir'] = Dir.mktmpdir('stats_')
@driver['jobs'][2]['responses']['directory'] = File.join($MRI_DATA, 'responses')
@valid_responses_options = @driver['jobs'][2]['responses']
@pipe = RPipe.new(@driver)
@job = @pipe.stats_jobs.first
@completed_orig_directory = File.join($MRI_DATA, 'integration', 'mrt00000_orig')
@completed_proc_directory = File.join($MRI_DATA, 'integration', 'mrt00000_proc')
@completed_stats_directory = File.join($MRI_DATA, 'integration', 'mrt00000_stats')
end
it "should reconstruct raw data" do
pipe = RPipe.new(@driver)
p = pipe.recon_jobs.first
p.perform
@origdir = @driver['origdir'] if Dir.compare_directories(@driver['origdir'], @completed_orig_directory)
end
it "should preprocess raw data" do
@driver['origdir'] = @origdir || Pathname.new(@completed_orig_directory).recursive_local_copy
pipe = RPipe.new(@driver)
p = pipe.preproc_jobs.first
p.perform
@procdir = @driver['procdir'] if Dir.compare_directories(@driver['procdir'], @completed_proc_directory)
end
it "should run stats on processed data" do
@driver['procdir'] = @procdir || @completed_proc_directory
pipe = RPipe.new(@driver)
s = pipe.stats_jobs.first
s.perform
@statsdir = @driver['statsdir'] if Dir.compare_directories(@driver['statsdir'], @completed_stats_directory)
end
end
Version data entries
10 entries across 10 versions & 1 rubygems