Exception in GeneratePartialLungLabelMap: Number of objects greater than maximum of output pixel type about chestimagingplatform HOT 3 CLOSED

-James Ross From: jmschabdach <[email protected]<mailto:[email protected]>> Reply-To: acil-bwh/ChestImagingPlatform <[email protected]<mailto:[email protected]>> Date: Sunday, February 19, 2017 at 6:53 PM To: acil-bwh/ChestImagingPlatform <[email protected]<mailto:[email protected]>> Cc: Subscribed <[email protected]<mailto:[email protected]>> Subject: [acil-bwh/ChestImagingPlatform] Exception in GeneratePartialLungLabelMap: Number of objects greater than maximum of output pixel type (#17) I'm trying to extract a partial lung label map for each of ~1600 lung CT images using GeneratePartialLungLabelMap. The utility runs without a problem for all but about 20 subjects. For those 20 subjects, I get the following error: $ GeneratePartialLungLabelMap --ict K0026/K0026_original_3D.nrrd -o K0026/K0026_partialLungLabelMap.nrrd Clipping low CT image values... Clipping upper CT image values... Executing partial lung filter... Exception caught segmenting lungs: itk::ExceptionObject (0x2ccd880) Location: "unknown" File: /pylon1/ms4s88p/batmangh/gitSandbox/ChestImagingPlatform/build/ITKv4/Modules/Core/Common/src/itkMultiThreader.cxx Line: 420 Description: itk::ERROR: MultiThreader(0x2ab9040): Exception occurred during SingleMethodExecute /pylon1/ms4s88p/batmangh/gitSandbox/ChestImagingPlatform/build/ITKv4/Modules/Segmentation/ConnectedComponents/include/itkConnectedComponentImageFilter.hxx:347: itk::ERROR: ConnectedComponentImageFilter(0x2abd880): Number of objects greater than maximum of output pixel type I've tried extracting the simple lung masks using GenerateSimpleLungMask and supplementing with them, but I get the same error. Generating the simple lung masks: GenerateSimpleLungMask -i K0026/K0026_original_3D.nrrd -o K0026/K0026_simpleLungMask.nrrd Generating the lung label map using the simple lung mask: GeneratePartialLungLabelMap --ict K0026/K0026_original_3D.nrrd --hm K0026/K0026_simpleLungMask.nrrd -o K0026/K0026_partialLungLabelMap.nrrd I'm using the develop branch, and one of the images I'm having problems with can be found [here].(https://www.dropbox.com/s/xbrupfheng6sw2m/K0026_original_3D.nrrd?dl=0). Any help you can offer would be greatly appreciated. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#17>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AD2glD-6oLAI8tSXTIe9vd40krc6NQHPks5reNXdgaJpZM4MFpKb>. The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.