Morphologist 2013, parallel version

A parallel version of the standard Morphologist pipeline

Description

This version of the Morphologist pipeline basically does the same thing, but steps are organized in a way which allows a better parallelization: each hemisphere is processed independently, and independent tasks (such as meshing or sulcal graphs extraction) can be done in parallel on multiple CPU machines.

It is especially useful for single subject processing, taking advantage of 2-6 cores or CPUs during some processing steps for the same subject, where the regular Morphologist does not take advantage of more than 2 cores, only during certain steps, and waits in unnecessary junction points.

The downside is a less lisible pipeline structure, making it a bit more complex to inspect results, so the regular pipeline has not been completely replaced by this new one.

Parameters

mri: Raw T1 MRI ( input )

imported_mri: Raw T1 MRI ( output )

mri_corrected: T1 MRI Bias Corrected ( output )

perform_normalization: Boolean ( input )

Normalised: Choice ( optional, input )

Anterior_Commissure: Point3D ( optional, input )

Posterior_Commissure: Point3D ( optional, input )

Interhemispheric_Point: Point3D ( optional, input )

Left_Hemisphere_Point: Point3D ( optional, input )

sulci_graphs_version: Choice ( input )

perform_sulci_recognition: Boolean ( input )

sulci_recognition_method: Choice ( input )

Technical information

Toolbox : Morphologist

User level : 0

Identifier : morphologist_parallel

File name : brainvisa/toolboxes/morphologist/processes/segmentationpipeline/morphologist_parallel.py

Supported file formats :

mri :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

imported_mri :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

mri_corrected :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image