cmp.pipelines.common module

Definition of common parent classes for pipelines.

class cmp.pipelines.common.Pipeline(project_info)

Bases: traits.has_traits.HasTraits

Parent class that extends HasTraits and represents a processing pipeline.

It is extended by the various pipeline classes.

See also

cmp.pipelines.anatomical.anatomical.AnatomicalPipeline, cmp.pipelines.diffusion.diffusion.DiffusionPipeline, cmp.pipelines.functional.fMRI.fMRIPipeline

anat_flow = None

check_config()

Old method that was checking custom settings (obsolete).

check_stages_execution()

Check stage execution.

clear_stages_outputs()

Clear processing stage outputs.

create_stage_flow(stage_name)

Create the sub-workflow of a processing stage.

Parameters

stage_name –

fill_stages_outputs()

Update processing stage output list for visual inspection.

launch_process()

Launch the processing.

number_of_cores = 1

subject = 'sub-01'

class cmp.pipelines.common.ProcessThread(group=None, target=None, name=None, args=(), kwargs=None, *, daemon=None)

Bases: threading.Thread

Class use to represent the pipeline process as a threading.Thread.

pipeline <Instance>

Any Pipeline instance

pipeline = <traits.trait_types.Instance object>

run()

Execute the pipeline.

class cmp.pipelines.common.ProgressThread(group=None, target=None, name=None, args=(), kwargs=None, *, daemon=None)

Bases: threading.Thread

Class use to monitor stage execution in a threading.Thread.

Information is display in the ProgressWindow (Not used anymore by CMP3)

pw = <traits.trait_types.Instance object>

run()

Monitors stage execution a workflow.

stage_names = []

stages = {}

class cmp.pipelines.common.ProgressWindow

Bases: traits.has_traits.HasTraits

Progress window of stage execution

(Not used anymore by CMP3)