rpipe 0.1.1 → 0.1.2
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- data/Gemfile +4 -0
- data/VERSION +1 -1
- data/bin/create_driver.rb +21 -6
- data/lib/custom_methods/JohnsonMerit220Visit1Stats.m +1 -1
- data/lib/generators/recon_job_generator.rb +4 -4
- data/rpipe.gemspec +133 -129
- metadata +75 -32
- data/.gitignore +0 -23
data/Gemfile
ADDED
data/VERSION
CHANGED
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@@ -1 +1 @@
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1
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-
0.1.
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1
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+
0.1.2
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data/bin/create_driver.rb
CHANGED
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@@ -21,17 +21,28 @@ def create!
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if cli_options[:dry_run]
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pp workflow.build
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else
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-
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+
begin
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+
puts write_driver_hash workflow.build, :cli_options => cli_options
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+
rescue IOError => e
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+
puts e
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+
end
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end
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end
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-
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-
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-
def write_file(workflow_spec, filename = nil)
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-
filename ||= workflow_spec['subid'] + '.yaml'
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+
def write_driver_hash (workflow_spec, driver_options = {:filename => nil})
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filename = driver_options[:filename] ||= workflow_spec['subid'] + '.yaml'
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if File.exist? filename and ! driver_options[:cli_options][:force]
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raise IOError, "Driver #{filename} already exists; use -f option to force overwrite."
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else
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write_file(workflow_spec, filename)
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+
end
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+
end
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+
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+
def write_file(workflow_spec, filename)
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File.open(filename, 'w') { |f| f.puts workflow_spec.to_yaml }
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raise IOError, "Couldn't write #{filename}}" unless File.exist?(filename)
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+
"Wrote file #{filename}..."
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end
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def load_spec(spec_file)
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@@ -54,12 +65,16 @@ def parse_options
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54
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end
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opts.on('-r', '--responses_dir RESPONSES_DIR', "Directory containing Button-press Response Logfiles") do |responses_dir|
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57
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-
options[:config][:responses_dir.to_s] = responses_dir
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+
options[:config][:responses_dir.to_s] = File.expand_path(responses_dir)
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end
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opts.on('-d', '--dry-run', "Display Driver without executing it.") do
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options[:dry_run] = true
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end
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+
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+
opts.on('-f', '--force', "Overwrite drivers if they exist.") do
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options[:force] = true
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+
end
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opts.on_tail('-h', '--help', "Show this message") { puts(parser); exit }
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opts.on_tail("Example: #{File.basename(__FILE__)} mrt00001")
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@@ -60,7 +60,7 @@ for crun = 1:nrun
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inputs{offset + 3, crun} = { strcat(statsdir, conditions{index} ) }; % fMRI model specification: Multiple Conditions File - cfg_entry
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inputs{offset + 4, crun} = { strcat(statsdir, regressors{index} ) }; % fMRI model specification: Multiple Regressors File - cfg_entry
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inputs{offset + 5, crun} = 'Omnibus F'; % fMRI model specification: Omnibus Title - cfg_entry
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-
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+
inputs{offset + 6, crun} = fcontrast_vector; % fMRI model specification: Omnibus Contrast - cfg_entry
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inputs{offset + 7, crun} = 'PV > NV'; % fMRI model specification: T Contrast 1 Title - cfg_entry
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inputs{offset + 8, crun} = tcontrast_1_vector; % fMRI model specification: T Contrast 1 Vector - cfg_entry
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inputs{offset + 9, crun} = 'NV > PV'; % fMRI model specification: T Contrast 2 Title - cfg_entry
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@@ -56,10 +56,10 @@ class ReconJobGenerator < JobGenerator
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scan['dir'] = dataset.relative_dataset_path
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scan['type'] = 'func'
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-
scan['z_slices'] = raw_image_file.num_slices
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-
scan['bold_reps'] = raw_image_file.bold_reps
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-
scan['volumes_to_skip'] = @config['volumes_to_skip']
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-
scan['rep_time'] = raw_image_file.rep_time.in_seconds
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+
scan['z_slices'] = raw_image_file.num_slices.to_i
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scan['bold_reps'] = raw_image_file.bold_reps.to_i
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scan['volumes_to_skip'] = @config['volumes_to_skip'].to_i
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scan['rep_time'] = raw_image_file.rep_time.to_f.in_seconds
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scan['label'] = dataset.series_description.escape_filename
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# scan['task'] = '?'
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# scan['physio_files'] = "#TODO"
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data/rpipe.gemspec
CHANGED
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@@ -1,165 +1,167 @@
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1
1
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# Generated by jeweler
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2
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# DO NOT EDIT THIS FILE DIRECTLY
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-
# Instead, edit Jeweler::Tasks in Rakefile, and run
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+
# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
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# -*- encoding: utf-8 -*-
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Gem::Specification.new do |s|
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s.name = %q{rpipe}
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-
s.version = "0.1.
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+
s.version = "0.1.2"
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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s.authors = ["Kristopher Kosmatka", "Erik Kastman"]
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-
s.date = %q{
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+
s.date = %q{2011-03-07}
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s.description = %q{Neuroimaging preprocessing the Ruby way}
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s.email = %q{kjkosmatka@gmail.com}
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-
s.executables = ["swallow_batch_run.rb", "
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+
s.executables = ["swallow_batch_run.rb", "rpipe", "create_driver.rb"]
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s.extra_rdoc_files = [
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"LICENSE",
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-
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-
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"README",
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"README.rdoc"
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]
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s.files = [
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".document",
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"Gemfile",
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"LICENSE",
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"README",
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"README.rdoc",
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"Rakefile",
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"VERSION",
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"bin/create_driver.rb",
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+
"bin/rpipe",
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+
"bin/swallow_batch_run.rb",
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"lib/core_additions.rb",
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+
"lib/custom_methods/JohnsonMerit220Visit1Preproc.m",
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+
"lib/custom_methods/JohnsonMerit220Visit1Preproc.rb",
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"lib/custom_methods/JohnsonMerit220Visit1Preproc_job.m",
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"lib/custom_methods/JohnsonMerit220Visit1Stats.m",
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+
"lib/custom_methods/JohnsonMerit220Visit1Stats.rb",
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"lib/custom_methods/JohnsonMerit220Visit1Stats_job.m",
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"lib/custom_methods/JohnsonTbiLongitudinalSnodPreproc.m",
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+
"lib/custom_methods/JohnsonTbiLongitudinalSnodPreproc.rb",
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+
"lib/custom_methods/JohnsonTbiLongitudinalSnodPreproc_job.m",
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"lib/custom_methods/JohnsonTbiLongitudinalSnodStats.m",
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+
"lib/custom_methods/JohnsonTbiLongitudinalSnodStats.rb",
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+
"lib/custom_methods/JohnsonTbiLongitudinalSnodStats_job.m",
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+
"lib/custom_methods/ReconWithHello.rb",
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+
"lib/default_logger.rb",
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47
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+
"lib/default_methods/default_preproc.rb",
|
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48
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+
"lib/default_methods/default_recon.rb",
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49
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+
"lib/default_methods/default_stats.rb",
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50
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+
"lib/default_methods/recon/physionoise_helper.rb",
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+
"lib/default_methods/recon/raw_sequence.rb",
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52
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+
"lib/generators/job_generator.rb",
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53
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+
"lib/generators/preproc_job_generator.rb",
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54
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+
"lib/generators/recon_job_generator.rb",
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55
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+
"lib/generators/stats_job_generator.rb",
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56
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+
"lib/generators/workflow_generator.rb",
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57
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+
"lib/global_additions.rb",
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58
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+
"lib/logfile.rb",
|
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59
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+
"lib/matlab_helpers/CreateFunctionalVolumeStruct.m",
|
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60
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+
"lib/matlab_helpers/import_csv.m",
|
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61
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+
"lib/matlab_helpers/matlab_queue.rb",
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62
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+
"lib/matlab_helpers/prepare_onsets.m",
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63
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+
"lib/rpipe.rb",
|
|
64
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+
"rpipe.gemspec",
|
|
65
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+
"spec/generators/preproc_job_generator_spec.rb",
|
|
66
|
+
"spec/generators/recon_job_generator_spec.rb",
|
|
67
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+
"spec/generators/stats_job_generator_spec.rb",
|
|
68
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+
"spec/generators/workflow_generator_spec.rb",
|
|
69
|
+
"spec/helper_spec.rb",
|
|
70
|
+
"spec/integration/johnson.merit220.visit1_spec.rb",
|
|
71
|
+
"spec/integration/johnson.tbi.longitudinal.snod_spec.rb",
|
|
72
|
+
"spec/logfile_spec.rb",
|
|
73
|
+
"spec/matlab_queue_spec.rb",
|
|
74
|
+
"spec/merit220_stats_spec.rb",
|
|
75
|
+
"spec/physio_spec.rb",
|
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76
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+
"test/drivers/merit220_workflow_sample.yml",
|
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77
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+
"test/drivers/mrt00000.yml",
|
|
78
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+
"test/drivers/mrt00015.yml",
|
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79
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+
"test/drivers/mrt00015_hello.yml",
|
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80
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+
"test/drivers/mrt00015_withphys.yml",
|
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81
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+
"test/drivers/tbi000.yml",
|
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+
"test/drivers/tbi000_separatevisits.yml",
|
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83
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+
"test/drivers/tmp.yml",
|
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84
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+
"test/fixtures/faces3_recognitionA.mat",
|
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85
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+
"test/fixtures/faces3_recognitionA.txt",
|
|
86
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+
"test/fixtures/faces3_recognitionA_equal.csv",
|
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87
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+
"test/fixtures/faces3_recognitionA_unequal.csv",
|
|
88
|
+
"test/fixtures/faces3_recognitionB_incmisses.txt",
|
|
89
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CPd3R_40.txt",
|
|
90
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CPd3_40.txt",
|
|
91
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CPttl_40.txt",
|
|
92
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CRTd3R_40.txt",
|
|
93
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CRTd3_40.txt",
|
|
94
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_CRTttl_40.txt",
|
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_CRTd3R_40.txt",
|
|
96
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_CRTd3_40.txt",
|
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_CRTttl_40.txt",
|
|
98
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_RRT_40.txt",
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_RVT_40.txt",
|
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_card_spline_40.txt",
|
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_HalfTR_resp_spline_40.txt",
|
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_RRT_40.txt",
|
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103
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_RVT_40.txt",
|
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104
|
+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_CRTd3R_40.txt",
|
|
105
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_CRTd3_40.txt",
|
|
106
|
+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_CRTttl_40.txt",
|
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107
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_RRT_40.txt",
|
|
108
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_RVT_40.txt",
|
|
109
|
+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_card_spline_40.txt",
|
|
110
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_TR_resp_spline_40.txt",
|
|
111
|
+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_card_spline_40.txt",
|
|
112
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_resp_spline_40.txt",
|
|
113
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+
"test/fixtures/physionoise_regressors/EPI__fMRI_Task1_resp_spline_downsampled_40.txt",
|
|
114
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+
"test/fixtures/ruport_summary.yml",
|
|
115
|
+
"test/fixtures/valid_scans.yaml",
|
|
116
|
+
"test/helper.rb",
|
|
117
|
+
"test/test_dynamic_method_inclusion.rb",
|
|
118
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+
"test/test_includes.rb",
|
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119
|
+
"test/test_integrative_johnson.merit220.visit1.rb",
|
|
120
|
+
"test/test_preproc.rb",
|
|
121
|
+
"test/test_recon.rb",
|
|
122
|
+
"test/test_rpipe.rb",
|
|
123
|
+
"vendor/output_catcher.rb",
|
|
124
|
+
"vendor/trollop.rb"
|
|
125
125
|
]
|
|
126
126
|
s.homepage = %q{http://github.com/brainmap/rpipe}
|
|
127
|
-
s.rdoc_options = ["--charset=UTF-8"]
|
|
128
127
|
s.require_paths = ["lib"]
|
|
129
|
-
s.rubygems_version = %q{1.
|
|
128
|
+
s.rubygems_version = %q{1.4.2}
|
|
130
129
|
s.summary = %q{Neuroimaging preprocessing the Ruby way}
|
|
131
130
|
s.test_files = [
|
|
132
131
|
"spec/generators/preproc_job_generator_spec.rb",
|
|
133
|
-
|
|
134
|
-
|
|
135
|
-
|
|
136
|
-
|
|
137
|
-
|
|
138
|
-
|
|
139
|
-
|
|
140
|
-
|
|
141
|
-
|
|
142
|
-
|
|
143
|
-
|
|
144
|
-
|
|
145
|
-
|
|
146
|
-
|
|
147
|
-
|
|
148
|
-
|
|
149
|
-
|
|
132
|
+
"spec/generators/recon_job_generator_spec.rb",
|
|
133
|
+
"spec/generators/stats_job_generator_spec.rb",
|
|
134
|
+
"spec/generators/workflow_generator_spec.rb",
|
|
135
|
+
"spec/helper_spec.rb",
|
|
136
|
+
"spec/integration/johnson.merit220.visit1_spec.rb",
|
|
137
|
+
"spec/integration/johnson.tbi.longitudinal.snod_spec.rb",
|
|
138
|
+
"spec/logfile_spec.rb",
|
|
139
|
+
"spec/matlab_queue_spec.rb",
|
|
140
|
+
"spec/merit220_stats_spec.rb",
|
|
141
|
+
"spec/physio_spec.rb",
|
|
142
|
+
"test/helper.rb",
|
|
143
|
+
"test/test_dynamic_method_inclusion.rb",
|
|
144
|
+
"test/test_includes.rb",
|
|
145
|
+
"test/test_integrative_johnson.merit220.visit1.rb",
|
|
146
|
+
"test/test_preproc.rb",
|
|
147
|
+
"test/test_recon.rb",
|
|
148
|
+
"test/test_rpipe.rb"
|
|
150
149
|
]
|
|
151
150
|
|
|
152
151
|
if s.respond_to? :specification_version then
|
|
153
|
-
current_version = Gem::Specification::CURRENT_SPECIFICATION_VERSION
|
|
154
152
|
s.specification_version = 3
|
|
155
153
|
|
|
156
|
-
if Gem::Version.new(Gem::
|
|
154
|
+
if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
|
|
155
|
+
s.add_runtime_dependency(%q<rpipe>, [">= 0"])
|
|
156
|
+
s.add_development_dependency(%q<shoulda>, [">= 0"])
|
|
157
157
|
s.add_development_dependency(%q<thoughtbot-shoulda>, [">= 0"])
|
|
158
158
|
s.add_runtime_dependency(%q<metamri>, [">= 0"])
|
|
159
159
|
s.add_runtime_dependency(%q<log4r>, [">= 0"])
|
|
160
160
|
s.add_runtime_dependency(%q<POpen4>, [">= 0"])
|
|
161
161
|
s.add_runtime_dependency(%q<ruport>, [">= 0"])
|
|
162
162
|
else
|
|
163
|
+
s.add_dependency(%q<rpipe>, [">= 0"])
|
|
164
|
+
s.add_dependency(%q<shoulda>, [">= 0"])
|
|
163
165
|
s.add_dependency(%q<thoughtbot-shoulda>, [">= 0"])
|
|
164
166
|
s.add_dependency(%q<metamri>, [">= 0"])
|
|
165
167
|
s.add_dependency(%q<log4r>, [">= 0"])
|
|
@@ -167,6 +169,8 @@ Gem::Specification.new do |s|
|
|
|
167
169
|
s.add_dependency(%q<ruport>, [">= 0"])
|
|
168
170
|
end
|
|
169
171
|
else
|
|
172
|
+
s.add_dependency(%q<rpipe>, [">= 0"])
|
|
173
|
+
s.add_dependency(%q<shoulda>, [">= 0"])
|
|
170
174
|
s.add_dependency(%q<thoughtbot-shoulda>, [">= 0"])
|
|
171
175
|
s.add_dependency(%q<metamri>, [">= 0"])
|
|
172
176
|
s.add_dependency(%q<log4r>, [">= 0"])
|
metadata
CHANGED
|
@@ -1,12 +1,13 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: rpipe
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
|
|
4
|
+
hash: 31
|
|
5
|
+
prerelease:
|
|
5
6
|
segments:
|
|
6
7
|
- 0
|
|
7
8
|
- 1
|
|
8
|
-
-
|
|
9
|
-
version: 0.1.
|
|
9
|
+
- 2
|
|
10
|
+
version: 0.1.2
|
|
10
11
|
platform: ruby
|
|
11
12
|
authors:
|
|
12
13
|
- Kristopher Kosmatka
|
|
@@ -15,75 +16,113 @@ autorequire:
|
|
|
15
16
|
bindir: bin
|
|
16
17
|
cert_chain: []
|
|
17
18
|
|
|
18
|
-
date:
|
|
19
|
+
date: 2011-03-07 00:00:00 -06:00
|
|
19
20
|
default_executable:
|
|
20
21
|
dependencies:
|
|
21
22
|
- !ruby/object:Gem::Dependency
|
|
22
|
-
name: thoughtbot-shoulda
|
|
23
23
|
prerelease: false
|
|
24
|
-
|
|
24
|
+
name: rpipe
|
|
25
|
+
type: :runtime
|
|
26
|
+
version_requirements: &id001 !ruby/object:Gem::Requirement
|
|
27
|
+
none: false
|
|
25
28
|
requirements:
|
|
26
29
|
- - ">="
|
|
27
30
|
- !ruby/object:Gem::Version
|
|
31
|
+
hash: 3
|
|
28
32
|
segments:
|
|
29
33
|
- 0
|
|
30
34
|
version: "0"
|
|
31
|
-
|
|
32
|
-
version_requirements: *id001
|
|
35
|
+
requirement: *id001
|
|
33
36
|
- !ruby/object:Gem::Dependency
|
|
34
|
-
name: metamri
|
|
35
37
|
prerelease: false
|
|
36
|
-
|
|
38
|
+
name: shoulda
|
|
39
|
+
type: :development
|
|
40
|
+
version_requirements: &id002 !ruby/object:Gem::Requirement
|
|
41
|
+
none: false
|
|
37
42
|
requirements:
|
|
38
43
|
- - ">="
|
|
39
44
|
- !ruby/object:Gem::Version
|
|
45
|
+
hash: 3
|
|
40
46
|
segments:
|
|
41
47
|
- 0
|
|
42
48
|
version: "0"
|
|
43
|
-
|
|
44
|
-
version_requirements: *id002
|
|
49
|
+
requirement: *id002
|
|
45
50
|
- !ruby/object:Gem::Dependency
|
|
46
|
-
name: log4r
|
|
47
51
|
prerelease: false
|
|
48
|
-
|
|
52
|
+
name: thoughtbot-shoulda
|
|
53
|
+
type: :development
|
|
54
|
+
version_requirements: &id003 !ruby/object:Gem::Requirement
|
|
55
|
+
none: false
|
|
49
56
|
requirements:
|
|
50
57
|
- - ">="
|
|
51
58
|
- !ruby/object:Gem::Version
|
|
59
|
+
hash: 3
|
|
52
60
|
segments:
|
|
53
61
|
- 0
|
|
54
62
|
version: "0"
|
|
55
|
-
|
|
56
|
-
version_requirements: *id003
|
|
63
|
+
requirement: *id003
|
|
57
64
|
- !ruby/object:Gem::Dependency
|
|
58
|
-
name: POpen4
|
|
59
65
|
prerelease: false
|
|
60
|
-
|
|
66
|
+
name: metamri
|
|
67
|
+
type: :runtime
|
|
68
|
+
version_requirements: &id004 !ruby/object:Gem::Requirement
|
|
69
|
+
none: false
|
|
61
70
|
requirements:
|
|
62
71
|
- - ">="
|
|
63
72
|
- !ruby/object:Gem::Version
|
|
73
|
+
hash: 3
|
|
64
74
|
segments:
|
|
65
75
|
- 0
|
|
66
76
|
version: "0"
|
|
77
|
+
requirement: *id004
|
|
78
|
+
- !ruby/object:Gem::Dependency
|
|
79
|
+
prerelease: false
|
|
80
|
+
name: log4r
|
|
67
81
|
type: :runtime
|
|
68
|
-
version_requirements:
|
|
82
|
+
version_requirements: &id005 !ruby/object:Gem::Requirement
|
|
83
|
+
none: false
|
|
84
|
+
requirements:
|
|
85
|
+
- - ">="
|
|
86
|
+
- !ruby/object:Gem::Version
|
|
87
|
+
hash: 3
|
|
88
|
+
segments:
|
|
89
|
+
- 0
|
|
90
|
+
version: "0"
|
|
91
|
+
requirement: *id005
|
|
69
92
|
- !ruby/object:Gem::Dependency
|
|
70
|
-
name: ruport
|
|
71
93
|
prerelease: false
|
|
72
|
-
|
|
94
|
+
name: POpen4
|
|
95
|
+
type: :runtime
|
|
96
|
+
version_requirements: &id006 !ruby/object:Gem::Requirement
|
|
97
|
+
none: false
|
|
73
98
|
requirements:
|
|
74
99
|
- - ">="
|
|
75
100
|
- !ruby/object:Gem::Version
|
|
101
|
+
hash: 3
|
|
76
102
|
segments:
|
|
77
103
|
- 0
|
|
78
104
|
version: "0"
|
|
105
|
+
requirement: *id006
|
|
106
|
+
- !ruby/object:Gem::Dependency
|
|
107
|
+
prerelease: false
|
|
108
|
+
name: ruport
|
|
79
109
|
type: :runtime
|
|
80
|
-
version_requirements:
|
|
110
|
+
version_requirements: &id007 !ruby/object:Gem::Requirement
|
|
111
|
+
none: false
|
|
112
|
+
requirements:
|
|
113
|
+
- - ">="
|
|
114
|
+
- !ruby/object:Gem::Version
|
|
115
|
+
hash: 3
|
|
116
|
+
segments:
|
|
117
|
+
- 0
|
|
118
|
+
version: "0"
|
|
119
|
+
requirement: *id007
|
|
81
120
|
description: Neuroimaging preprocessing the Ruby way
|
|
82
121
|
email: kjkosmatka@gmail.com
|
|
83
122
|
executables:
|
|
84
123
|
- swallow_batch_run.rb
|
|
85
|
-
- create_driver.rb
|
|
86
124
|
- rpipe
|
|
125
|
+
- create_driver.rb
|
|
87
126
|
extensions: []
|
|
88
127
|
|
|
89
128
|
extra_rdoc_files:
|
|
@@ -92,7 +131,7 @@ extra_rdoc_files:
|
|
|
92
131
|
- README.rdoc
|
|
93
132
|
files:
|
|
94
133
|
- .document
|
|
95
|
-
-
|
|
134
|
+
- Gemfile
|
|
96
135
|
- LICENSE
|
|
97
136
|
- README
|
|
98
137
|
- README.rdoc
|
|
@@ -199,43 +238,47 @@ homepage: http://github.com/brainmap/rpipe
|
|
|
199
238
|
licenses: []
|
|
200
239
|
|
|
201
240
|
post_install_message:
|
|
202
|
-
rdoc_options:
|
|
203
|
-
|
|
241
|
+
rdoc_options: []
|
|
242
|
+
|
|
204
243
|
require_paths:
|
|
205
244
|
- lib
|
|
206
245
|
required_ruby_version: !ruby/object:Gem::Requirement
|
|
246
|
+
none: false
|
|
207
247
|
requirements:
|
|
208
248
|
- - ">="
|
|
209
249
|
- !ruby/object:Gem::Version
|
|
250
|
+
hash: 3
|
|
210
251
|
segments:
|
|
211
252
|
- 0
|
|
212
253
|
version: "0"
|
|
213
254
|
required_rubygems_version: !ruby/object:Gem::Requirement
|
|
255
|
+
none: false
|
|
214
256
|
requirements:
|
|
215
257
|
- - ">="
|
|
216
258
|
- !ruby/object:Gem::Version
|
|
259
|
+
hash: 3
|
|
217
260
|
segments:
|
|
218
261
|
- 0
|
|
219
262
|
version: "0"
|
|
220
263
|
requirements: []
|
|
221
264
|
|
|
222
265
|
rubyforge_project:
|
|
223
|
-
rubygems_version: 1.
|
|
266
|
+
rubygems_version: 1.4.2
|
|
224
267
|
signing_key:
|
|
225
268
|
specification_version: 3
|
|
226
269
|
summary: Neuroimaging preprocessing the Ruby way
|
|
227
270
|
test_files:
|
|
228
271
|
- spec/generators/preproc_job_generator_spec.rb
|
|
229
|
-
- spec/generators/stats_job_generator_spec.rb
|
|
230
272
|
- spec/generators/recon_job_generator_spec.rb
|
|
273
|
+
- spec/generators/stats_job_generator_spec.rb
|
|
231
274
|
- spec/generators/workflow_generator_spec.rb
|
|
232
|
-
- spec/
|
|
233
|
-
- spec/logfile_spec.rb
|
|
234
|
-
- spec/physio_spec.rb
|
|
275
|
+
- spec/helper_spec.rb
|
|
235
276
|
- spec/integration/johnson.merit220.visit1_spec.rb
|
|
236
277
|
- spec/integration/johnson.tbi.longitudinal.snod_spec.rb
|
|
278
|
+
- spec/logfile_spec.rb
|
|
279
|
+
- spec/matlab_queue_spec.rb
|
|
237
280
|
- spec/merit220_stats_spec.rb
|
|
238
|
-
- spec/
|
|
281
|
+
- spec/physio_spec.rb
|
|
239
282
|
- test/helper.rb
|
|
240
283
|
- test/test_dynamic_method_inclusion.rb
|
|
241
284
|
- test/test_includes.rb
|