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IDProjectCategoryView StatusDate SubmittedLast Update
0002851Slicer4Core: CLI infrastructurepublic2013-01-04 12:382017-06-07 23:27
Reportermatsuij Assigned To 
PrioritynormalSeverityfeatureReproducibilityalways
Status closedResolutionunable to reproduce 
Product VersionSlicer 4.2.2-1 
Target VersionFixed in Version 
Summary0002851: DTI and baseline not produced when given mask
Description

I'm using the latest Darwin stable 4.2.2 release from 12/8/2012.

The following command line does not produce a tensor image or baseline image:
Slicer-4.2.2-1-macosx-amd64/Slicer.app/Contents/cli-modules/DWIToDTIEstimation --shiftNeg --enumeration WLS --mask brain_mask.nii.gz DWI.nrrd outputDTI.nrrd b0.nrrd

Instead, the following error message appears:
Abort trap: 6

However, tensor and baseline images are successfully produced when the same above parameters (shiftNeg on, WLS, estimate tensors under a mask) are used in the Slicer GUI DWIToDTIEstimation module. Also,the following command line successfully produces a tensor image and a baseline image:
Slicer-4.2.2-1-macosx-amd64/Slicer.app/Contents/cli-modules/DWIToDTIEstimation --shiftNeg --enumeration WLS -DWI.nrrd outputDTI.nrrd b0.nrrd

For some reason, the DWIToDTIEstimation command line module malfunctions when a mask gets involved.

Thank you.

TagsNo tags attached.

Relationships

related to 0002913 assignedinorton DWIToDTIEstimation GUI and CLI module precision issue 

Activities

inorton

inorton

2016-02-22 10:11

developer   ~0013820

Please re-open with test data if still applicable.

Related Changesets

Slicer: 2145-support-for-installing-extension-from-file 3e967378

2013-01-17 14:14:12

naucoin

Details Diff 		BUG: fix a crash caused by an overlay file with unassigned labels.

When loading some FreeSurfer scalar overlay files, the reader
returns a warning that some labels were unassigned. This was being
treated as an error, but a valid node was being returned from the
Models logic instead of NULL, causing a crash in the IO file.
Fixed that issue then changed the response to that warning
to return valid nodes and color tables and that seemed to
fix the issue.

Issue 0002851



git-svn-id: http://svn.slicer.org/Slicer4/trunk@21608 3bd1e089-480b-0410-8dfb-8563597acbee
mod - Libs/MRML/Core/vtkMRMLFreeSurferModelOverlayStorageNode.cxx Diff File
mod - Modules/Loadable/Models/Logic/vtkSlicerModelsLogic.cxx Diff File

Issue History

Date Modified Username Field Change
2013-01-04 12:38 matsuij New Issue
2013-01-04 12:38 matsuij Status new => assigned
2013-01-04 12:38 matsuij Assigned To => millerjv
2013-02-01 08:53 demian Relationship added related to 0002913
2016-02-22 10:11 inorton Note Added: 0013820
2016-02-22 10:11 inorton Status assigned => closed
2016-02-22 10:11 inorton Assigned To millerjv =>
2016-02-22 10:11 inorton Resolution open => unable to reproduce
2017-06-07 23:27 Changeset attached => Slicer 2145-support-for-installing-extension-from-file 3e967378