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#<=> Logfile
#add_to_path MatlabQueue
#bold_reps Preprocessing
#bold_reps StatsJobGenerator
#bold_reps Stats
#build PreprocJobGenerator
#build ReconJobGenerator
#build StatsJobGenerator
#build WorkflowGenerator
#build_physionoise_run_spec DefaultRecon
#build_retroicor_cmd DefaultRecon
#build_scan_hash ReconJobGenerator
#check_instance_vars JobStep
#check_permissions DefaultPreproc
#collision_policy JobStep
#combine_vectors Logfile
#commands MatlabQueue
#condition_vectors Logfile
#conditions Stats
#conditions Logfile
#config WorkflowGenerator
#config_requires JobGenerator
#config_step_method WorkflowGenerator
#configure_directories WorkflowGenerator
#create! Top Level Namespace
#create_onsets_files DefaultStats
#create_or_link_onsets_files JohnsonTbiLongitudinalSnodStats
#create_or_link_onsets_files JohnsonMerit220Visit1Stats
#create_physiosnoise_regressors DefaultRecon
#csv_filename Logfile
#customize_template_job DefaultStats
#customize_templates DefaultPreproc
#deal_with_motion DefaultPreproc
#default_spmdir JobStep
#dot_camelize String
#flash Top Level Namespace
#format FlashFormatter
#generate_physiospec DefaultRecon
#guess_study_procedure_from WorkflowGenerator
#hello ReconWithHello
#in_seconds Float
#include_custom_methods JobStep
#initialize RPipe
#initialize WorkflowGenerator
#initialize ReconJobGenerator
#initialize Stats
#initialize StatsJobGenerator
#initialize Preprocessing
#initialize Reconstruction
#initialize PreprocJobGenerator
#initialize JobStep
#initialize DefaultRecon::RawSequence
#initialize MatlabQueue
#initialize Logfile
#initialize JobGenerator
#initialize DefaultRecon::PfileRawSequence
item_analysis Logfile
#job_requires JobStep
#jobs RPipe
#libdir JobStep
#link_files_from_proc_directory DefaultStats
#link_files_into_proc DefaultPreproc
#link_onsets_files DefaultStats
#load_spec Top Level Namespace
#logfiles StatsJobGenerator
#method_missing MatlabQueue
#ml_command MatlabQueue
#motion_threshold Preprocessing
#onsetsfiles Stats
#origdir JobStep
#parse_directory_format WorkflowGenerator
#parse_options Top Level Namespace
#parse_subid WorkflowGenerator
#paths MatlabQueue
#prepare_and_convert_sequence DefaultRecon::DicomRawSequence
#preproc_jobs RPipe
#preproc_visit DefaultPreproc
#preproc_visit JohnsonTbiLongitudinalSnodPreproc
#preproc_visit JohnsonMerit220Visit1Preproc
#previous_step JobGenerator
#procdir JobStep
#rawdir JobStep
#read_driver_file RPipe
#recon_jobs RPipe
#recon_visit DefaultRecon
#reconstruct_scan DefaultRecon
#reconstruct_sequence DefaultRecon::PfileRawSequence
#regressorsfiles StatsJobGenerator
#regressorsfiles Stats
#response_pair_attributes Logfile
#response_pairs_table Logfile
#responses Stats
#responses StatsJobGenerator
#run Top Level Namespace
#run! Top Level Namespace
#run! MatlabQueue
#run_first_level_stats JohnsonMerit220Visit1Stats
#run_first_level_stats JohnsonTbiLongitudinalSnodStats
#run_first_level_stats DefaultStats
#run_pipe Top Level Namespace
#run_retroicor DefaultRecon
#run_spm_jobs DefaultPreproc
#run_stats_spm_job JohnsonTbiLongitudinalSnodStats
#run_stats_spm_job DefaultStats
#run_stats_spm_job JohnsonMerit220Visit1Stats
#run_with_logging Top Level Namespace
#ruport_summary Logfile
#scans Reconstruction
#setup_conditions JohnsonTbiLongitudinalSnodStats
#setup_conditions JohnsonMerit220Visit1Stats
#setup_directory JobStep
#setup_logger DefaultLogger
#setup_onsets JohnsonMerit220Visit1Stats
#setup_onsets JohnsonTbiLongitudinalSnodStats
#setup_options Top Level Namespace
#setup_runner_logger Top Level Namespace
#slice_time_correct DefaultRecon
#spec WorkflowGenerator
#spec JobGenerator
#spec_validates JobGenerator
#spmdir JobStep
#stats_jobs RPipe
#statsdir Stats
#statsdir JobStep
#step JobStep
#strip_leading_volumes DefaultRecon
#subid JobStep
#success MatlabQueue
#summarize! Top Level Namespace
summarize_directory Logfile
#summary_attributes Logfile
#textfile Logfile
#textfile_data Logfile
#to_csv Logfile
#to_s MatlabQueue
#tspec Preprocessing
#tspec Stats
#valid? StatsJobGenerator
#validate_existence_of JobStep
#vectors Logfile
#volume_skip Reconstruction
#workflow_spec RPipe
#write_csv Logfile
#write_driver_hash Top Level Namespace
#write_file Top Level Namespace
#write_mat Logfile
write_summary Logfile