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_
__call__() (capsul.process.process.FileCopyProcess method)
__init__() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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
activate_configuration() (in module capsul.engine)
activate_configurations() (in module capsul.engine.module.fsl)
(in module capsul.engine.module.python)
(in module capsul.engine.module.spm)
activate_module() (in module capsul.engine)
activated (capsul.pipeline.pipeline_nodes.Node attribute)
(capsul.pipeline.pipeline_nodes.Plug attribute)
ActivationInspector (class in capsul.qt_gui.widgets.activation_inspector)
ActivationInspectorApp (class in capsul.qt_gui.widgets.activation_inspector)
add_controls_to_ui() (capsul.qt_apps.main_window.CapsulMainWindow method)
(capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
add_custom_node() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
add_embedded_subpipeline() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
add_iterative_process() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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]
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
add_optional_output_switch() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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)
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
add_processes_selection() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
add_switch() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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)
allowed_formats() (capsul.attributes.completion_engine.PathCompletionEngine method)
Application (class in capsul.qt_apps.utils.application)
AttributedProcessWidget (class in capsul.qt_gui.widgets.attributed_process_widget)
attributes_changed() (capsul.attributes.completion_engine.ProcessCompletionEngine method)
attributes_to_path() (capsul.attributes.completion_engine.PathCompletionEngine method)
(capsul.attributes.completion_engine.ProcessCompletionEngine method)
,
[1]
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.fsl)
(in module capsul.subprocess.spm)
auto_dot_node_positions() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
autoexport_nodes_parameters() (capsul.pipeline.pipeline.Pipeline method)
B
BoardWidget (class in capsul.qt_gui.board_widget)
BrainVISAConfig (class in capsul.study_config.config_modules.brainvisa_config)
browse_node() (capsul.qt_gui.board_widget.BoardWidget method)
BuiltinProcessCompletionEngineFactory (class in capsul.attributes.completion_engine_factory)
C
cache() (capsul.study_config.memory.Memory method)
,
[1]
call() (in module capsul.subprocess.fsl)
(in module capsul.subprocess.spm)
call_process_method() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
capsul.api (module)
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 (module)
capsul.engine.database (module)
capsul.engine.database_json (module)
capsul.engine.database_populse (module)
capsul.engine.module (module)
capsul.engine.module.attributes (module)
capsul.engine.module.axon (module)
capsul.engine.module.fom (module)
capsul.engine.module.fsl (module)
capsul.engine.module.matlab (module)
capsul.engine.module.python (module)
capsul.engine.module.spm (module)
capsul.engine.run (module)
capsul.engine.settings (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.runprocess (module)
capsul.process.xml (module)
capsul.qt_apps (module)
capsul.qt_apps.main_window (module)
capsul.qt_apps.pipeline_viewer_app (module)
capsul.qt_apps.utils (module)
capsul.qt_apps.utils.application (module)
capsul.qt_apps.utils.fill_treectrl (module)
capsul.qt_apps.utils.find_pipelines (module)
capsul.qt_apps.utils.window (module)
capsul.qt_gui (module)
capsul.qt_gui.board_widget (module)
capsul.qt_gui.widgets (module)
capsul.qt_gui.widgets.activation_inspector (module)
capsul.qt_gui.widgets.attributed_process_widget (module)
capsul.qt_gui.widgets.links_debugger (module)
capsul.qt_gui.widgets.pipeline_developper_view (module)
capsul.qt_gui.widgets.pipeline_file_warning_widget (module)
capsul.qt_gui.widgets.pipeline_user_view (module)
capsul.qt_gui.widgets.viewer_widget (module)
capsul.sphinxext (module)
capsul.sphinxext.layoutdocgen (module)
capsul.sphinxext.load_pilots (module)
capsul.sphinxext.pipelinedocgen (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.fom_config (module)
capsul.study_config.config_modules.freesurfer_config (module)
capsul.study_config.config_modules.fsl_config (module)
capsul.study_config.config_modules.matlab_config (module)
capsul.study_config.config_modules.nipype_config (module)
capsul.study_config.config_modules.smartcaching_config (module)
capsul.study_config.config_modules.somaworkflow_config (module)
capsul.study_config.config_modules.spm_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.fsl (module)
capsul.subprocess.spm (module)
capsul.utils (module)
capsul.utils.finder (module)
capsul.utils.version_utils (module)
capsul_engine() (in module capsul.engine)
CapsulEngine (class in capsul.engine)
CapsulLinkDebuggerView (class in capsul.qt_gui.widgets.links_debugger)
CapsulMainWindow (class in capsul.qt_apps.main_window)
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.fsl)
(in module capsul.subprocess.spm)
check_configuration_values() (in module capsul.subprocess.fsl)
(in module capsul.subprocess.spm)
check_configurations() (in module capsul.engine.module.axon)
(in module capsul.engine.module.fsl)
(in module capsul.engine.module.matlab)
check_files() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
check_fsl_configuration() (in module capsul.subprocess.fsl)
check_output() (in module capsul.subprocess.fsl)
(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)
clear() (capsul.study_config.memory.Memory method)
,
[1]
collection_name() (capsul.engine.settings.SettingsSession static method)
colored_parameters (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
compare_to_state() (capsul.pipeline.pipeline.Pipeline method)
complement_doc() (capsul.process.process.ProcessMeta static method)
complete_configurations() (in module capsul.engine.module.axon)
(in module capsul.engine.module.fsl)
complete_iteration_step() (capsul.attributes.completion_engine_iteration.ProcessCompletionEngineIteration method)
complete_parameters() (capsul.attributes.completion_engine.ProcessCompletionEngine method)
,
[1]
config() (capsul.engine.settings.SettingsSession method)
configs() (capsul.engine.settings.SettingsSession method)
connect() (capsul.engine.CapsulEngine method)
(capsul.pipeline.pipeline_nodes.Node method)
,
[1]
connect_resource() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method)
,
[1]
connected_to() (capsul.engine.CapsulEngine method)
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_board_tree() (capsul.qt_gui.board_widget.BoardWidget method)
create_output_directories (capsul.study_config.study_config.StudyConfig attribute)
create_output_directories() (in module capsul.pipeline.pipeline_tools)
create_output_widget() (capsul.qt_gui.board_widget.BoardWidget method)
create_viewer_tree() (capsul.qt_gui.board_widget.BoardWidget method)
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
database_factory() (in module capsul.engine)
DatabaseEngine (class in capsul.engine.database)
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)
detailed_information() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
disable_done_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
disable_following_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
disable_preceding_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
disable_runtime_steps_with_existing_outputs() (in module capsul.pipeline.pipeline_tools)
disabled_pipeline_steps_nodes() (capsul.pipeline.pipeline.Pipeline method)
disconnect() (capsul.engine.CapsulEngine method)
(capsul.pipeline.pipeline_nodes.Node method)
disconnect_resource() (capsul.study_config.config_modules.somaworkflow_config.SomaWorkflowConfig method)
,
[1]
dispose() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
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
edit_sub_pipeline (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
EditableAttributes (class in capsul.attributes.attributes_schema)
edition_enabled() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
edition_widget() (in module capsul.engine.module.attributes)
(in module capsul.engine.module.axon)
(in module capsul.engine.module.fom)
(in module capsul.engine.module.fsl)
(in module capsul.engine.module.matlab)
(in module capsul.engine.module.python)
(in module capsul.engine.module.spm)
EmbeddedSubPipelineItem (class in capsul.qt_gui.widgets.pipeline_developper_view)
EmittingStream (class in capsul.qt_apps.utils.application)
enable_all_pipeline_steps() (capsul.pipeline.pipeline.Pipeline method)
enable_all_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
enable_following_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
enable_preceding_steps() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
enable_step() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
enabled (capsul.pipeline.pipeline_nodes.Node attribute)
(capsul.pipeline.pipeline_nodes.Plug attribute)
enableNode() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
ensure_module_fields() (capsul.engine.settings.SettingsSession method)
ensure_pipeline() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
environment() (in module capsul.study_config.config_utils)
executions() (capsul.engine.CapsulEngine method)
export_parameter() (capsul.pipeline.pipeline.Pipeline method)
(capsul.pipeline.pipeline_construction.PipelineConstructor method)
export_to_db_scans (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
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_next() (capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
find_node() (capsul.pipeline.topological_sort.Graph method)
,
[1]
(in module capsul.pipeline.pipeline_tools)
find_pipeline_and_process() (in module capsul.qt_apps.utils.find_pipelines)
find_pipelines_from_description() (in module capsul.qt_apps.utils.find_pipelines)
find_plug_connection_destinations() (in module capsul.pipeline.pipeline_tools)
find_plug_connection_sources() (in module capsul.pipeline.pipeline_tools)
find_previous() (capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
find_processes() (in module capsul.utils.finder)
find_spm() (in module capsul.subprocess.spm)
FomConfig (class in capsul.study_config.config_modules.fom_config)
FomProcessCompletionEngine (class in capsul.attributes.fom_completion_engine)
FreeSurferConfig (class in capsul.study_config.config_modules.freesurfer_config)
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)
(in module capsul.subprocess.fsl)
fsl_env() (in module capsul.in_context.fsl)
FSLConfig (class in capsul.study_config.config_modules.fsl_config)
FslPopen (class in capsul.in_context.fsl)
full_name (capsul.pipeline.pipeline_nodes.Node attribute)
G
generate_api_doc() (capsul.sphinxext.pipelinedocgen.PipelineHelpWriter method)
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_all_environments() (capsul.engine.settings.Settings method)
(capsul.engine.settings.SettingsSession method)
get_attribute_values() (capsul.attributes.completion_engine.ProcessCompletionEngine method)
,
[1]
(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.pipeline_nodes.Node 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)
get_iteration_pipeline() (capsul.engine.CapsulEngine method)
(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.engine.CapsulEngine method)
(capsul.study_config.study_config.StudyConfig method)
(in module capsul.study_config.process_instance)
get_process_signature() (in module capsul.study_config.memory)
get_process_with_params() (in module capsul.process.runprocess)
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_short_name() (capsul.sphinxext.pipelinedocgen.PipelineHelpWriter method)
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
HandleItem (class in capsul.qt_gui.widgets.pipeline_developper_view)
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)
import_configs() (capsul.engine.CapsulEngine method)
(capsul.engine.settings.Settings method)
init_window() (capsul.qt_apps.pipeline_viewer_app.PipelineViewerApp method)
(capsul.qt_gui.widgets.activation_inspector.ActivationInspectorApp method)
initialize_callbacks() (capsul.study_config.config_modules.nipype_config.NipypeConfig 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.config_modules.freesurfer_config.FreeSurferConfig method)
(capsul.study_config.config_modules.fsl_config.FSLConfig method)
(capsul.study_config.config_modules.matlab_config.MatlabConfig method)
(capsul.study_config.config_modules.nipype_config.NipypeConfig 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)
interrupt() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
is_job() (capsul.pipeline.pipeline_nodes.Node method)
is_logical_view() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
is_node_enabled() (in module capsul.pipeline.pipeline_tools)
is_pipeline_node() (in module capsul.study_config.process_instance)
is_process() (in module capsul.study_config.process_instance)
is_restricted_edition_mode() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
J
json_value() (capsul.engine.database.DatabaseEngine method)
JSONDBEngine (class in capsul.engine.database_json)
L
LayoutHelperWriter (class in capsul.sphinxext.layoutdocgen)
LeaveOneOutNode (class in capsul.pipeline.custom_nodes.loo_node)
link_right_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
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)
lists2dict() (in module capsul.qt_apps.utils.find_pipelines)
load_module() (capsul.engine.CapsulEngine method)
(capsul.study_config.study_config.StudyConfig method)
load_modules() (capsul.engine.CapsulEngine method)
load_pilots() (in module capsul.sphinxext.load_pilots)
load_pipeline_parameters() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
(in module capsul.pipeline.pipeline_tools)
log_file (capsul.process.process.Process attribute)
M
main() (in module capsul.process.runprocess)
make_commandline_argument() (capsul.process.process.Process method)
MapNode (class in capsul.pipeline.custom_nodes.map_node)
MatlabConfig (class in capsul.study_config.config_modules.matlab_config)
MemorizedProcess (class in capsul.study_config.memory)
Memory (class in capsul.study_config.memory)
meta (capsul.pipeline.topological_sort.GraphNode attribute)
module_name() (capsul.engine.settings.Settings static method)
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 attribute)
named_directories() (capsul.engine.database.DatabaseEngine method)
named_directory() (capsul.engine.database.DatabaseEngine method)
new_config() (capsul.engine.settings.SettingsSession method)
nipype_factory() (in module capsul.process.nipype_process)
NipypeConfig (class in capsul.study_config.config_modules.nipype_config)
NipypeProcess (class in capsul.process.process)
Node (class in capsul.pipeline.pipeline_nodes)
node_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
node_clicked_ctrl (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
node_right_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
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
on_btn_load_json() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
on_btn_save_json() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
on_input_filename_changed() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
on_show_completion() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
on_use_fom_change() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
onBrowseClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onChangeViewClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onCloseTabClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onCreateViewerClicked() (capsul.qt_gui.widgets.viewer_widget.ViewerWidget method)
onCurrentTabChanged() (capsul.qt_apps.main_window.CapsulMainWindow method)
onHelpClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onLoadClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onLoadSubPipelineClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
(capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
onOpenProcessController() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
onParametersClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onQualityControlClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onRunClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onRunStatus() (capsul.qt_apps.main_window.CapsulMainWindow method)
onSearchClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onStudyConfigClicked() (capsul.qt_apps.main_window.CapsulMainWindow method)
onTreeSelectionChanged() (capsul.qt_apps.main_window.CapsulMainWindow method)
open_background_menu() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
open_filter (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
open_node_menu() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
openProcessController() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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)
PipelineDevelopperView (class in capsul.qt_gui.widgets.pipeline_developper_view)
PipelineDevelopperView.ProcessNameEdit (class in capsul.qt_gui.widgets.pipeline_developper_view)
PipelineFileWarningWidget (class in capsul.qt_gui.widgets.pipeline_file_warning_widget)
PipelineHelpWriter (class in capsul.sphinxext.pipelinedocgen)
PipelineNode (class in capsul.pipeline.pipeline_nodes)
PipelineUserView (class in capsul.qt_gui.widgets.pipeline_user_view)
PipelineViewerApp (class in capsul.qt_apps.pipeline_viewer_app)
Plug (class in capsul.pipeline.pipeline_nodes)
plug_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
plug_right_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
Popen (class in capsul.subprocess.fsl)
(class in capsul.subprocess.spm)
process (capsul.pipeline.pipeline_nodes.ProcessNode attribute)
Process (class in capsul.process.process)
process_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
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)
ProcessParamError
ProcessResult (class in capsul.process.process)
Q
queue (capsul.study_config.config_modules.somaworkflow_config.ResourceController attribute)
R
raise_for_status() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
read_configuration() (capsul.study_config.study_config.StudyConfig method)
ReduceNode (class in capsul.pipeline.custom_nodes.reduce_node)
refresh_activation_from_record() (capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
release_pipeline() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
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_config() (capsul.engine.settings.SettingsSession 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)
requirements() (capsul.pipeline.pipeline_nodes.Node method)
(capsul.pipeline.pipeline_nodes.ProcessNode method)
(capsul.process.process.Process method)
reset_initial_nodes_positions() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
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)
run_process_with_distribution() (in module capsul.process.runprocess)
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_dot_image_ui() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
save_log() (capsul.process.process.Process method)
save_pipeline() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
(in module capsul.pipeline.pipeline_tools)
save_pipeline_parameters() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
(in module capsul.pipeline.pipeline_tools)
save_py_pipeline() (in module capsul.pipeline.python_export)
save_xml_pipeline() (in module capsul.pipeline.xml)
scene (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
search_in_menu() (in module capsul.qt_apps.utils.fill_treectrl)
select_configurations() (capsul.engine.settings.Settings method)
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_enable_edition() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
set_filter_pattern() (capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
set_json_value() (capsul.engine.database.DatabaseEngine method)
set_logical_view() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
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() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
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_process_param_from_str() (in module capsul.process.runprocess)
set_restricted_edition_mode() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
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.process.process.Process method)
set_study_configuration() (capsul.study_config.study_config.StudyConfig method)
,
[1]
set_switch_value() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
set_trait_value() (capsul.study_config.study_config.StudyConfig method)
,
[1]
set_use_fom() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
set_usedefault() (capsul.process.process.NipypeProcess method)
Settings (class in capsul.engine.settings)
SettingsSession (class in capsul.engine.settings)
show() (capsul.qt_apps.main_window.CapsulMainWindow method)
(capsul.qt_gui.widgets.activation_inspector.ActivationInspector method)
(capsul.qt_gui.widgets.links_debugger.CapsulLinkDebuggerView method)
show_completion() (capsul.qt_gui.widgets.attributed_process_widget.AttributedProcessWidget method)
show_optional_inputs() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
show_optional_outputs() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView 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)
SPMConfig (class in capsul.study_config.config_modules.spm_config)
SPMPopen (class in capsul.in_context.spm)
start() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
status() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
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)
subpipeline_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
,
[1]
Switch (class in capsul.pipeline.pipeline_nodes)
switch_clicked (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView attribute)
SwitchCompletionEngine (class in capsul.attributes.completion_engine)
T
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)
U
uninstall_links_debug_handler() (capsul.pipeline.pipeline.Pipeline method)
UnMemorizedProcess (class in capsul.study_config.memory)
update_fom() (in module capsul.engine.module.fom)
update_nodes_and_plugs_activation() (capsul.pipeline.pipeline.Pipeline method)
update_pipeline_activation() (capsul.qt_gui.widgets.activation_inspector.ActivationInspector 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)
V
ViewerWidget (class in capsul.qt_gui.widgets.viewer_widget)
W
wait() (capsul.engine.CapsulEngine method)
(in module capsul.engine.run)
where_is_plug_value_from() (in module capsul.pipeline.pipeline_tools)
window() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
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)
WorkflowExecutionError
write_api_docs() (capsul.sphinxext.pipelinedocgen.PipelineHelpWriter method)
write_index() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method)
(capsul.sphinxext.pipelinedocgen.PipelineHelpWriter method)
(capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method)
write_installation() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method)
write_layout() (capsul.sphinxext.layoutdocgen.LayoutHelperWriter method)
write_main_index() (capsul.sphinxext.pipelinedocgen.PipelineHelpWriter method)
write_usecases_docs() (capsul.sphinxext.usecasesdocgen.UseCasesHelperWriter method)
X
xml_process() (in module capsul.process.xml)
XMLProcess (class in capsul.process.xml)
Z
zoom_in() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
zoom_out() (capsul.qt_gui.widgets.pipeline_developper_view.PipelineDevelopperView method)
,
[1]
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