Index

_

__call__() (capsul.process.process.FileCopyProcess method) _copy_input_files() (capsul.process.process.FileCopyProcess method) _get_process_arguments() (capsul.process.process.FileCopyProcess method) _links (capsul.pipeline.topological_sort.Graph attribute) _nipype_class (capsul.process.process.NipypeProcess attribute) _nipype_interface (capsul.process.process.NipypeProcess attribute)

_nipype_interface_name (capsul.process.process.NipypeProcess attribute) _nipype_module (capsul.process.process.NipypeProcess attribute) _nodes (capsul.pipeline.topological_sort.Graph attribute) _outputs (capsul.pipeline.pipeline_nodes.Switch attribute) _switch_values (capsul.pipeline.pipeline_nodes.Switch attribute) _update_input_traits() (capsul.process.process.FileCopyProcess method)

A

activated (capsul.pipeline.pipeline_nodes.Node attribute) (capsul.pipeline.pipeline_nodes.Plug attribute) add_custom_node() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_iterative_process() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_link() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) (capsul.pipeline.topological_sort.Graph method), [1] add_link_from() (capsul.pipeline.topological_sort.GraphNode method), [1] add_link_to() (capsul.pipeline.topological_sort.GraphNode method), [1] add_node() (capsul.pipeline.topological_sort.Graph method), [1] add_optional_output_switch() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_pipeline_step() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_process() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_processes_selection() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_subpipeline_link() (capsul.pipeline.pipeline_construction.PipelineConstructor method)

add_switch() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) add_trait() (capsul.pipeline.pipeline.Pipeline method) (capsul.process.process.Process method) (capsul.study_config.study_config.StudyConfig method) add_tree_nodes() (in module capsul.qt_apps.utils.fill_treectrl) all_nodes() (capsul.pipeline.pipeline.Pipeline method) allowed_extensions() (capsul.attributes.completion_engine.PathCompletionEngine method) (capsul.attributes.fom_completion_engine.FomPathCompletionEngine method) allowed_formats() (capsul.attributes.completion_engine.PathCompletionEngine method) (capsul.attributes.fom_completion_engine.FomPathCompletionEngine method) Application (class in capsul.qt_apps.utils.application) attributes_changed() (capsul.attributes.completion_engine.ProcessCompletionEngine method) attributes_to_path() (capsul.attributes.completion_engine.PathCompletionEngine method) (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] (capsul.attributes.fom_completion_engine.FomPathCompletionEngine method) AttributesConfig (class in capsul.study_config.config_modules.attributes_config) AttributesFactory (class in capsul.attributes.attributes_factory) AttributesSchema (class in capsul.attributes.attributes_schema) auto_configuration() (in module capsul.subprocess.spm) autoexport_nodes_parameters() (capsul.pipeline.pipeline.Pipeline method)

B

BrainVISAConfig (class in capsul.study_config.config_modules.brainvisa_config)

BuiltinProcessCompletionEngineFactory (class in capsul.attributes.completion_engine_factory)

C

cache() (capsul.study_config.memory.Memory method), [1] call() (in module capsul.subprocess.spm) call_process_method() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method) capsul.attributes module capsul.attributes.attributes_factory module capsul.attributes.attributes_schema module capsul.attributes.completion_engine module capsul.attributes.completion_engine_factory module capsul.attributes.completion_engine_iteration module capsul.attributes.fom_completion_engine module capsul.engine.database module capsul.in_context module capsul.in_context.fsl module capsul.in_context.spm module capsul.info module capsul.pipeline module capsul.pipeline.custom_nodes module capsul.pipeline.custom_nodes.cv_node module capsul.pipeline.custom_nodes.loo_node module capsul.pipeline.custom_nodes.map_node module capsul.pipeline.custom_nodes.reduce_node module capsul.pipeline.custom_nodes.strcat_node module capsul.pipeline.custom_nodes.strconv module capsul.pipeline.pipeline module capsul.pipeline.pipeline_construction module capsul.pipeline.pipeline_nodes module capsul.pipeline.pipeline_tools module capsul.pipeline.pipeline_workflow module capsul.pipeline.process_iteration module capsul.pipeline.python_export module capsul.pipeline.topological_sort module capsul.pipeline.xml module capsul.plugins module capsul.process module capsul.process.nipype_process module capsul.process.process module capsul.process.xml module capsul.qt_apps module capsul.qt_apps.utils module capsul.qt_apps.utils.application module capsul.qt_apps.utils.fill_treectrl module

capsul.qt_apps.utils.window module capsul.qt_gui module capsul.sphinxext module capsul.sphinxext.layoutdocgen module capsul.sphinxext.load_pilots module capsul.sphinxext.usecasesdocgen module capsul.study_config module capsul.study_config.config_modules module capsul.study_config.config_modules.attributes_config module capsul.study_config.config_modules.brainvisa_config module capsul.study_config.config_modules.smartcaching_config module capsul.study_config.config_modules.somaworkflow_config module capsul.study_config.config_utils module capsul.study_config.memory module capsul.study_config.process_instance module capsul.study_config.run module capsul.study_config.study_config module capsul.subprocess module capsul.subprocess.spm module capsul.utils module capsul.utils.finder module capsul.utils.version_utils module CapsulResultDecoder (class in capsul.study_config.memory) CapsulResultEncoder (class in capsul.study_config.memory) change_iterative_plug() (capsul.pipeline.process_iteration.ProcessIteration method) check_call() (in module capsul.subprocess.spm) check_configuration_values() (in module capsul.subprocess.spm) check_output() (in module capsul.subprocess.spm) check_path() (capsul.engine.database.DatabaseEngine method) check_requirements() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) (capsul.process.process.Process method) check_spm_configuration() (in module capsul.subprocess.spm) cleanup() (capsul.pipeline.pipeline_nodes.Node method) clear() (capsul.study_config.memory.Memory method), [1] compare_to_state() (capsul.pipeline.pipeline.Pipeline method) complement_doc() (capsul.process.process.ProcessMeta static method) complete_iteration_step() (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method) complete_parameters() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method) connect() (capsul.pipeline.pipeline_nodes.Node method), [1] connect_resource() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method), [1] connections() (capsul.pipeline.pipeline_nodes.Switch method) ConstructedPipeline (class in capsul.pipeline.pipeline_construction) copied_files (capsul.process.process.FileCopyProcess attribute) copied_inputs (capsul.process.process.FileCopyProcess attribute) copy() (capsul.attributes.attributes_schema.ProcessAttributes method) copy_to_single() (capsul.attributes.attributes_schema.ProcessAttributes method) count_items() (capsul.pipeline.pipeline.Pipeline method) create_attributes_with_fom() (capsul.attributes.fom_completion_engine.FomProcessCompletionEngine method), [1] create_output_directories (capsul.study_config.study_config.StudyConfig attribute) create_output_directories() (in module capsul.pipeline.pipeline_tools) create_xml_pipeline() (in module capsul.pipeline.xml) create_xml_process() (in module capsul.process.xml) CrossValidationFoldNode (class in capsul.pipeline.custom_nodes.cv_node)

D

DatabaseEngine (class in capsul.engine.database) default() (capsul.study_config.memory.CapsulResultEncoder method) default_study_config() (in module capsul.study_config.study_config) define_groups_as_steps() (capsul.pipeline.pipeline.Pipeline method) define_pipeline_steps() (capsul.pipeline.pipeline.Pipeline method) disable_runtime_steps_with_existing_outputs() (in module capsul.pipeline.pipeline_tools)

disabled_pipeline_steps_nodes() (capsul.pipeline.pipeline.Pipeline method) disconnect() (capsul.pipeline.pipeline_nodes.Node method) disconnect_resource() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method), [1] dot_graph_from_pipeline() (in module capsul.pipeline.pipeline_tools) dot_graph_from_workflow() (in module capsul.pipeline.pipeline_tools) dump_pipeline_state_as_dict() (in module capsul.pipeline.pipeline_tools)

E

EditableAttributes (class in capsul.attributes.attributes_schema) EmittingStream (class in capsul.qt_apps.utils.application) enable_all_pipeline_steps() (capsul.pipeline.pipeline.Pipeline method) enabled (capsul.pipeline.pipeline_nodes.Node attribute) (capsul.pipeline.pipeline_nodes.Plug attribute)

environment() (in module capsul.study_config.config_utils) export_parameter() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.PipelineConstructor method)

F

file_fingerprint() (in module capsul.study_config.memory) FileCopyProcess (class in capsul.process.process) fill_treectrl() (in module capsul.qt_apps.utils.fill_treectrl) find_empty_parameters() (capsul.pipeline.pipeline.Pipeline method) find_node() (capsul.pipeline.topological_sort.Graph method), [1] (in module capsul.pipeline.pipeline_tools) find_plug_connection_destinations() (in module capsul.pipeline.pipeline_tools) find_plug_connection_sources() (in module capsul.pipeline.pipeline_tools) find_processes() (in module capsul.utils.finder) find_spm() (in module capsul.subprocess.spm)

FomPathCompletionEngine (class in capsul.attributes.fom_completion_engine) FomProcessCompletionEngine (class in capsul.attributes.fom_completion_engine) FomProcessCompletionEngineIteration (class in capsul.attributes.fom_completion_engine) fsl_call() (in module capsul.in_context.fsl) fsl_check_call() (in module capsul.in_context.fsl) fsl_check_output() (in module capsul.in_context.fsl) fsl_command_with_environment() (in module capsul.in_context.fsl) fsl_env() (in module capsul.in_context.fsl) FslPopen (class in capsul.in_context.fsl) full_name (capsul.pipeline.pipeline_nodes.Node attribute)

G

generate_index_entry() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) generate_logging (capsul.study_config.study_config.StudyConfig attribute) generate_usecases_doc() (capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method) get_attribute_values() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] (capsul.attributes.completion_engine.SwitchCompletionEngine method) (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method) (capsul.attributes.fom_completion_engine.FomProcessCompletionEngine method) get_commandline() (capsul.process.process.Process method) get_completion_engine() (capsul.attributes.completion_engine.ProcessCompletionEngine method) (capsul.attributes.completion_engine.ProcessCompletionEngine static method) (capsul.attributes.completion_engine.ProcessCompletionEngineFactory method) (capsul.attributes.completion_engine_factory.BuiltinProcessCompletionEngineFactory method) get_configuration_dict() (capsul.study_config.study_config.StudyConfig method) get_connections_through() (capsul.pipeline.custom_nodes.strconv.StrConvNode method) (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.PipelineNode method) (capsul.pipeline.pipeline_nodes.Switch method) get_help() (capsul.process.process.Process method) get_induced_iterative_parameters() (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method) get_input_help() (capsul.process.process.Process method) get_input_spec() (capsul.process.process.Process method) get_inputs() (capsul.process.process.Process method) get_iterated_attributes() (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method) (capsul.attributes.fom_completion_engine.FomProcessCompletionEngineIteration method) get_iteration_pipeline() (capsul.study_config.study_config.StudyConfig method) get_log() (capsul.process.process.Process method) get_missing_mandatory_parameters() (capsul.pipeline.pipeline_nodes.Node method) (capsul.process.process.Process method) get_nipype_interfaces_versions() (in module capsul.utils.version_utils) get_node_class() (in module capsul.study_config.process_instance)

get_node_instance() (in module capsul.study_config.process_instance) get_output_directories() (in module capsul.pipeline.pipeline_tools) get_output_help() (capsul.process.process.Process method) get_output_spec() (capsul.process.process.Process method) get_outputs() (capsul.process.process.Process method) get_parameter() (capsul.process.process.Process method) get_parameters_attributes() (capsul.attributes.attributes_schema.ProcessAttributes method) get_path_completion_engine() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] (capsul.attributes.fom_completion_engine.FomProcessCompletionEngine method) get_pipeline_step_nodes() (capsul.pipeline.pipeline.Pipeline method) get_plug_value() (capsul.pipeline.pipeline_nodes.Node method), [1] (capsul.pipeline.pipeline_nodes.ProcessNode method), [1] get_process_instance() (capsul.study_config.study_config.StudyConfig method) (in module capsul.study_config.process_instance) get_process_signature() (in module capsul.study_config.memory) get_processes_selection_groups() (capsul.pipeline.pipeline.Pipeline method) get_processes_selection_nodes() (capsul.pipeline.pipeline.Pipeline method) get_processes_selections() (capsul.pipeline.pipeline.Pipeline method) get_resource_id() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method), [1] get_study_config() (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) (capsul.process.process.Process method) get_tool_version() (in module capsul.utils.version_utils) get_trait() (capsul.pipeline.pipeline_nodes.Node method), [1] (capsul.pipeline.pipeline_nodes.ProcessNode method), [1] (capsul.study_config.study_config.StudyConfig method), [1] get_trait_value() (capsul.study_config.study_config.StudyConfig method), [1] get_workflow_controller() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method), [1] getsource() (capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method) Graph (class in capsul.pipeline.topological_sort) GraphNode (class in capsul.pipeline.topological_sort)

H

has_attribute() (in module capsul.study_config.memory) has_default_value (capsul.pipeline.pipeline_nodes.Plug attribute)

help() (capsul.process.process.NipypeProcess class method) (capsul.process.process.Process class method)

I

id (capsul.process.process.Process attribute) initialize_callbacks() (capsul.study_config.config_modules.attributes_config.AttributesConfig method) (capsul.study_config.config_modules.brainvisa_config.BrainVISAConfig method) (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method) (capsul.study_config.study_config.StudyConfigModule method) initialize_module() (capsul.study_config.config_modules.attributes_config.AttributesConfig method) (capsul.study_config.config_modules.brainvisa_config.BrainVISAConfig method) (capsul.study_config.study_config.StudyConfigModule method) initialize_modules() (capsul.study_config.study_config.StudyConfig method) input_directory (capsul.study_config.study_config.StudyConfig attribute) install_auto_completion() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1]

install_links_debug_handler() (capsul.pipeline.pipeline.Pipeline method) install_switch_observer() (capsul.attributes.completion_engine.SwitchCompletionEngine method) InteractiveProcess (class in capsul.process.process) is_job() (capsul.pipeline.custom_nodes.strconv.StrConvNode method) (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) (capsul.pipeline.pipeline_nodes.Switch method) is_node_enabled() (in module capsul.pipeline.pipeline_tools) is_parameter_protected() (capsul.pipeline.pipeline_nodes.ProcessNode method) is_pipeline_node() (in module capsul.study_config.process_instance) is_process() (in module capsul.study_config.process_instance)

J

json_value() (capsul.engine.database.DatabaseEngine method)

L

LayoutHelperWriter (class in capsul.sphinxext.layoutdocgen) LeaveOneOutNode (class in capsul.pipeline.custom_nodes.loo_node) links_from (capsul.pipeline.pipeline_nodes.Plug attribute) (capsul.pipeline.topological_sort.GraphNode attribute) links_from_degree (capsul.pipeline.topological_sort.GraphNode attribute) links_to (capsul.pipeline.pipeline_nodes.Plug attribute) (capsul.pipeline.topological_sort.GraphNode attribute)

links_to_degree (capsul.pipeline.topological_sort.GraphNode attribute) load_module() (capsul.study_config.study_config.StudyConfig method) load_pilots() (in module capsul.sphinxext.load_pilots) load_pipeline_parameters() (in module capsul.pipeline.pipeline_tools) log_file (capsul.process.process.Process attribute)

M

make_commandline_argument() (capsul.process.process.Process method) MapNode (class in capsul.pipeline.custom_nodes.map_node) MemorizedProcess (class in capsul.study_config.memory) Memory (class in capsul.study_config.memory) meta (capsul.pipeline.topological_sort.GraphNode attribute) module capsul.attributes capsul.attributes.attributes_factory capsul.attributes.attributes_schema capsul.attributes.completion_engine capsul.attributes.completion_engine_factory capsul.attributes.completion_engine_iteration capsul.attributes.fom_completion_engine capsul.engine.database capsul.in_context capsul.in_context.fsl capsul.in_context.spm capsul.info capsul.pipeline capsul.pipeline.custom_nodes capsul.pipeline.custom_nodes.cv_node capsul.pipeline.custom_nodes.loo_node capsul.pipeline.custom_nodes.map_node capsul.pipeline.custom_nodes.reduce_node capsul.pipeline.custom_nodes.strcat_node capsul.pipeline.custom_nodes.strconv capsul.pipeline.pipeline capsul.pipeline.pipeline_construction capsul.pipeline.pipeline_nodes capsul.pipeline.pipeline_tools capsul.pipeline.pipeline_workflow capsul.pipeline.process_iteration capsul.pipeline.python_export capsul.pipeline.topological_sort capsul.pipeline.xml capsul.plugins capsul.process capsul.process.nipype_process capsul.process.process capsul.process.xml capsul.qt_apps capsul.qt_apps.utils capsul.qt_apps.utils.application capsul.qt_apps.utils.fill_treectrl capsul.qt_apps.utils.window capsul.qt_gui capsul.sphinxext capsul.sphinxext.layoutdocgen capsul.sphinxext.load_pilots capsul.sphinxext.usecasesdocgen capsul.study_config capsul.study_config.config_modules capsul.study_config.config_modules.attributes_config capsul.study_config.config_modules.brainvisa_config capsul.study_config.config_modules.smartcaching_config capsul.study_config.config_modules.somaworkflow_config capsul.study_config.config_utils capsul.study_config.memory capsul.study_config.process_instance capsul.study_config.run capsul.study_config.study_config capsul.subprocess capsul.subprocess.spm capsul.utils capsul.utils.finder capsul.utils.version_utils

MyQUiLoader (class in capsul.qt_apps.utils.window)

N

name (capsul.pipeline.pipeline_nodes.Node attribute) (capsul.pipeline.topological_sort.GraphNode attribute) (capsul.process.process.Process attribute) (capsul.study_config.study_config.StudyConfigModule property) named_directories() (capsul.engine.database.DatabaseEngine method) named_directory() (capsul.engine.database.DatabaseEngine method)

nipype_factory() (in module capsul.process.nipype_process) NipypeProcess (class in capsul.process.process) Node (class in capsul.pipeline.pipeline_nodes) nodes (capsul.pipeline.pipeline.Pipeline attribute) nodes_selection_changed() (capsul.attributes.completion_engine.ProcessCompletionEngine method) nodes_with_existing_outputs() (in module capsul.pipeline.pipeline_tools) nodes_with_missing_inputs() (in module capsul.pipeline.pipeline_tools)

O

open_values_attributes() (capsul.attributes.fom_completion_engine.FomPathCompletionEngine method) optional (capsul.pipeline.pipeline_nodes.Plug attribute)

OptionalOutputSwitch (class in capsul.pipeline.pipeline_nodes) output (capsul.pipeline.pipeline_nodes.Plug attribute) output_directory (capsul.study_config.study_config.StudyConfig attribute)

P

params_to_command() (capsul.process.process.Process method) parse_link() (capsul.pipeline.pipeline.Pipeline method) parse_parameter() (capsul.pipeline.pipeline.Pipeline method) path_attributes() (capsul.attributes.fom_completion_engine.FomProcessCompletionEngine method) path_metadata() (capsul.engine.database.DatabaseEngine method) path_translations (capsul.study_config.config_modules.somaworkflow_config.ResourceController attribute) PathCompletionEngine (class in capsul.attributes.completion_engine) PathCompletionEngineFactory (class in capsul.attributes.completion_engine) Pipeline (class in capsul.pipeline.pipeline) pipeline_definition() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_construction.ConstructedPipeline method) pipeline_link_color() (in module capsul.pipeline.pipeline_tools) pipeline_node_colors() (in module capsul.pipeline.pipeline_tools) pipeline_state() (capsul.pipeline.pipeline.Pipeline method) PipelineConstructor (class in capsul.pipeline.pipeline_construction)

PipelineNode (class in capsul.pipeline.pipeline_nodes) Plug (class in capsul.pipeline.pipeline_nodes) Popen (class in capsul.subprocess.spm) process (capsul.pipeline.pipeline_nodes.ProcessNode attribute) Process (class in capsul.process.process) process_output_directory (capsul.study_config.study_config.StudyConfig attribute) ProcessAttributes (class in capsul.attributes.attributes_schema) ProcessCompletionEngine (class in capsul.attributes.completion_engine) ProcessCompletionEngineFactory (class in capsul.attributes.completion_engine) ProcessCompletionEngineIteration (class in capsul.attributes.completion_engine_iteration) ProcessIteration (class in capsul.pipeline.process_iteration) ProcessMeta (class in capsul.process.process) ProcessNode (class in capsul.pipeline.pipeline_nodes) ProcessResult (class in capsul.process.process) propagate_metadata() (capsul.pipeline.pipeline.Pipeline method) protect_parameter() (capsul.pipeline.pipeline_nodes.ProcessNode method)

Q

queue (capsul.study_config.config_modules.somaworkflow_config.ResourceController attribute)

R

read_configuration() (capsul.study_config.study_config.StudyConfig method) ReduceNode (class in capsul.pipeline.custom_nodes.reduce_node) remove_attributes() (capsul.attributes.completion_engine.ProcessCompletionEngine method) remove_auto_completion() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] remove_callback_from_plug() (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) remove_link() (capsul.pipeline.pipeline.Pipeline method) remove_link_from() (capsul.pipeline.topological_sort.GraphNode method), [1] remove_link_to() (capsul.pipeline.topological_sort.GraphNode method), [1] remove_node() (capsul.pipeline.pipeline.Pipeline method) remove_pipeline_step() (capsul.pipeline.pipeline.Pipeline method) remove_switch_observer() (capsul.attributes.completion_engine.SwitchCompletionEngine method) remove_switch_observers() (capsul.attributes.completion_engine.ProcessCompletionEngine method)

remove_trait() (capsul.pipeline.pipeline.Pipeline method) rename_node() (capsul.pipeline.pipeline.Pipeline method) reorder_traits() (capsul.pipeline.pipeline.Pipeline method) requirements() (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) (capsul.process.process.NipypeProcess method) (capsul.process.process.Process method) reset_process_counter() (capsul.study_config.study_config.StudyConfig method), [1] ResourceController (class in capsul.study_config.config_modules.somaworkflow_config) rst2html() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) run() (capsul.process.process.Process method) (capsul.study_config.study_config.StudyConfig method), [1] run_from_commandline() (capsul.process.process.Process static method) run_process() (in module capsul.study_config.run)

S

save_configuration() (capsul.study_config.study_config.StudyConfig method) save_dot_graph() (in module capsul.pipeline.pipeline_tools) save_dot_image() (in module capsul.pipeline.pipeline_tools) save_log() (capsul.process.process.Process method) save_pipeline() (in module capsul.pipeline.pipeline_tools) save_pipeline_parameters() (in module capsul.pipeline.pipeline_tools) save_py_pipeline() (in module capsul.pipeline.python_export) save_xml_pipeline() (in module capsul.pipeline.xml) search_in_menu() (in module capsul.qt_apps.utils.fill_treectrl) set_attribute() (in module capsul.attributes.attributes_schema) set_callback_on_plug() (capsul.pipeline.pipeline_nodes.Node method), [1] (capsul.pipeline.pipeline_nodes.ProcessNode method), [1] set_computing_resource_password() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method), [1] set_documentation() (capsul.pipeline.pipeline_construction.PipelineConstructor method) set_json_value() (capsul.engine.database.DatabaseEngine method) set_named_directory() (capsul.engine.database.DatabaseEngine method) set_node_enabled() (capsul.pipeline.pipeline_construction.PipelineConstructor method) set_node_position() (capsul.pipeline.pipeline_construction.PipelineConstructor method) set_output_directory() (capsul.process.process.NipypeProcess method) set_parameter() (capsul.process.process.Process method) set_parameter_attributes() (capsul.attributes.attributes_schema.ProcessAttributes method) set_parameters() (capsul.attributes.completion_engine.ProcessCompletionEngine method), [1] set_path_metadata() (capsul.engine.database.DatabaseEngine method) set_pipeline_state_from_dict() (in module capsul.pipeline.pipeline_tools) set_plug_value() (capsul.pipeline.pipeline_nodes.Node method), [1] (capsul.pipeline.pipeline_nodes.ProcessNode method), [1]

set_scene_scale_factor() (capsul.pipeline.pipeline_construction.PipelineConstructor method) set_study_config() (capsul.pipeline.pipeline.Pipeline method) (capsul.pipeline.pipeline_nodes.Node method) (capsul.pipeline.pipeline_nodes.ProcessNode method) (capsul.pipeline.process_iteration.ProcessIteration method) (capsul.process.process.Process method) set_study_configuration() (capsul.study_config.study_config.StudyConfig method), [1] set_trait_value() (capsul.study_config.study_config.StudyConfig method), [1] set_usedefault() (capsul.process.process.NipypeProcess method) SmartCachingConfig (class in capsul.study_config.config_modules.smartcaching_config) somaworkflow_computing_resource (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) somaworkflow_computing_resources_config (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) somaworkflow_config_file (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) somaworkflow_keep_failed_workflows (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) somaworkflow_keep_succeeded_workflows (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) SomaWorkflowConfig (class in capsul.study_config.config_modules.somaworkflow_config) spm_call() (in module capsul.in_context.spm) spm_check_call() (in module capsul.in_context.spm) spm_check_output() (in module capsul.in_context.spm) SPMPopen (class in capsul.in_context.spm) StrCatNode (class in capsul.pipeline.custom_nodes.strcat_node) StrConvNode (class in capsul.pipeline.custom_nodes.strconv) string_to_value() (in module capsul.process.xml) StudyConfig (class in capsul.study_config.study_config) StudyConfigModule (class in capsul.study_config.study_config) Switch (class in capsul.pipeline.pipeline_nodes) SwitchCompletionEngine (class in capsul.attributes.completion_engine)

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TempFile (class in capsul.pipeline.pipeline_workflow) title_for() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) topological_sort() (capsul.pipeline.topological_sort.Graph method), [1]

trait_from_xml() (in module capsul.process.xml) transfer_paths (capsul.study_config.config_modules.somaworkflow_config.ResourceController attribute) tuple_json_encoder() (in module capsul.study_config.memory)

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uninstall_links_debug_handler() (capsul.pipeline.pipeline.Pipeline method) UnMemorizedProcess (class in capsul.study_config.memory) update_nodes_and_plugs_activation() (capsul.pipeline.pipeline.Pipeline method)

update_study_configuration() (capsul.study_config.study_config.StudyConfig method), [1] use_soma_workflow (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig attribute) UseCasesHelperWriter (class in capsul.sphinxext.usecasesdocgen)

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where_is_plug_value_from() (in module capsul.pipeline.pipeline_tools) workflow_from_pipeline() (in module capsul.pipeline.pipeline_workflow) workflow_graph() (capsul.pipeline.pipeline.Pipeline method) workflow_list (capsul.pipeline.pipeline.Pipeline attribute) workflow_ordered_nodes() (capsul.pipeline.pipeline.Pipeline method) workflow_repr (capsul.pipeline.pipeline.Pipeline attribute) workflow_run() (in module capsul.pipeline.pipeline_workflow)

write_fake_pipeline() (in module capsul.pipeline.pipeline_tools) write_fake_process() (in module capsul.pipeline.pipeline_tools) write_index() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) (capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method) write_installation() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) write_layout() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method) write_usecases_docs() (capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method)

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xml_process() (in module capsul.process.xml)

XMLProcess (class in capsul.process.xml)