difit.workflows.bin package

Submodules

difit.workflows.bin.config module

Common configuration for all models

class difit.workflows.bin.config.Input

Bases: difit.workflows.bin.config._ArgsConfig

bval = None

bvec = None

dwi = None

classmethod init()

Set input data files for lists of dwi, bval, bvec and mask

input = None

mask = None

class difit.workflows.bin.config.Moptions

Bases: difit.workflows.bin.config._ArgsConfig

Setting models options from user requests

dki_b0_images = None

dki_b_values = None

dti_b0_images = None

dti_b_values = None

models = None

class difit.workflows.bin.config.Nipype

Bases: difit.workflows.bin.config._ArgsConfig

Nipype Settings

crashfile_format = 'txt'

format for crashfiles

get_linked_libs = False

classmethod get_plugin()

dictionary input for nipype workflow run

classmethod init()

Setting Nipype Configurations

memory_gb = None

nprocs = 2

omp_threads = None

plugin = 'MultiProc'

Execution plugin for Nipype

plugin_args = {'maxtaskperchild': 1, 'raise_insufficient': False}

resource_monitor = False

stop_on_first_crash = True

class difit.workflows.bin.config.Output

Bases: difit.workflows.bin.config._ArgsConfig

classmethod init()

log_dir = None

logdir = None

outdir = None

output_dir = None

work_dir = None

workdir = None

difit.workflows.bin.config.loader(argsDict)

Read user inputs from a flat dictionary.

difit.workflows.bin.config.read_saved_config(filename, skip=None)

Read and load settings from a saved conig file

difit.workflows.bin.config.save_config(filename)

Save config file

difit.workflows.bin.config.scoupsettings(flat=False)

Collecting settings as a dictionary

difit.workflows.bin.config.totoml()

Convert settings to toml format

Module contents