View Issue Details

Jump to NotesJump to History
IDProjectCategoryView StatusDate SubmittedLast Update
0002525Slicer4Module EMSegmentpublic2012-09-15 09:042012-12-08 09:43
Reporterkikinis Assigned Topohl  
PrioritynormalSeveritycrashReproducibilityhave not tried
Status closedResolutionfixed 
PlatformMacOSOS XOS Version10.8.1
Product VersionSlicer 4.1.1 
Target VersionSlicer 4.2.0Fixed in VersionSlicer 4.2.0 
Summary0002525: EM segmenter full brain parcellation simple has stopped working.
Description

I used sample data mri head. This used to work.

TagsNo tags attached.

Activities

2012-09-15 09:06

 

Screen Shot 2012-09-15 at 1.02.20 PM.png (387,020 bytes)

2012-09-15 09:07

 

Screen Shot 2012-09-15 at 1.07.19 PM.png (161,547 bytes)
pohl

pohl

2012-09-16 13:45

developer   ~0006101

I could not reproduce error with the trunk compiled under Ubuntu - will now test Mac system
pohl

pohl

2012-09-16 16:00

developer   ~0006103

I am not able to reproduce it on my MAC. I downloaded the binary build and everything worked out fine
pohl

pohl

2012-09-16 16:00

developer   ~0006104

could not reproduce it

pohl

pohl

2012-09-16 17:19

developer   ~0006106

was able to reproduce it with nightly build on mac in simple mode only - advanced mode works fine :

TCLAuto: ========== EMSegmentGaussCurveCalculation ===============
TCLAuto: Warning: CutOffProbability was specified to be above 95.0% of the voxels in the ROI ! However even just refining computation to voxels with probability 1 results in lower CutOffProbability or not enough samples were taken (min: 10 count: 4185702) ! Set CutOffProbability to 44.10 %
TCLAuto: =========================================================
TCLAuto: Check for Class AIR
TCLAuto: Atlas : atlas_air(Aligned)
TCLAuto: Scans : MRHead_pos(Aligned)_N4corrected
TCLAuto: LogGauss : 1
TCLAuto: CutOffProb : 74 (Absolut) -- 44.10 % (Percent)
TCLAuto: MaxProbVal : 74
TCLAuto: Samples : 4185702
TCLAuto: GreyExtrima: (0, 202)
TCLAuto: Mean : 0.973
TCLAuto: Covariance : 0.803

::::LOGMEAN Float:0.972806
ERROR: In /Users/kitware/Dashboards/Nightly/Slicer-build-64bits-QT4.7.4-PythonQt-With-Tcl-CLI-Release-nightly/EMSegment/vtkEMSegmentMRMLManager.cxx, line 3759
vtkEMSegmentMRMLManager (0x133c6e850): Attempt to check null or blank mrml id in map

ERROR: In /Users/kitware/Dashboards/Nightly/Slicer-build-64bits-QT4.7.4-PythonQt-With-Tcl-CLI-Release-nightly/EMSegment/vtkEMSegmentMRMLManager.cxx, line 1934
vtkEMSegmentMRMLManager (0x133c6e850): Volume MRML ID was not in map! atlasVolumeName = vtkMRMLEMSTreeNode4 mrmlID =

Warning: In /Users/kitware/Dashboards/Nightly/Slicer-build-64bits-QT4.7.4-PythonQt-With-Tcl-CLI-Release-nightly/EMSegment/vtkEMSegmentLogic.cxx, line 3033
vtkEMSegmentLogic (0x133c6edd0): Nothing to update for 1010 as atlas is not defined

TCLAuto: Minimum: 0.0
pohl

pohl

2012-09-16 18:37

developer   ~0006107

also reproducible on other OS - just needs to be in simple mode
pohl

pohl

2012-09-26 11:51

developer   ~0006232

it now works again on Ubuntu trunk - I have not done any explicit bug fix but maybe other commits fixed the problem

kikinis

kikinis

2012-10-22 04:53

developer   ~0006668

mac nightly 10-20: Confirmed that it works.

Issue History

Date Modified Username Field Change
2012-09-15 09:04 kikinis New Issue
2012-09-15 09:04 kikinis Status new => assigned
2012-09-15 09:04 kikinis Assigned To => pohl
2012-09-15 09:06 kikinis File Added: Screen Shot 2012-09-15 at 1.02.20 PM.png
2012-09-15 09:07 kikinis File Added: Screen Shot 2012-09-15 at 1.07.19 PM.png
2012-09-16 13:45 pohl Note Added: 0006101
2012-09-16 16:00 pohl Note Added: 0006103
2012-09-16 16:00 pohl Note Added: 0006104
2012-09-16 16:00 pohl Status assigned => feedback
2012-09-16 17:19 pohl Note Added: 0006106
2012-09-16 17:19 pohl Status feedback => acknowledged
2012-09-16 18:37 pohl Note Added: 0006107
2012-09-26 11:51 pohl Note Added: 0006232
2012-09-26 11:51 pohl Status acknowledged => feedback
2012-10-22 04:53 kikinis Note Added: 0006668
2012-10-22 04:54 kikinis Status feedback => closed
2012-10-22 04:54 kikinis Resolution open => fixed
2012-12-08 09:43 jcfr Fixed in Version => Slicer 4.2.0
2012-12-08 09:43 jcfr Target Version => Slicer 4.2.0