Nifti loading times

rprueckl · March 4, 2020, 12:28pm

Thanks, I found the issue. Here some references:

github.com/InsightSoftwareConsortium/ITK

Extermely slow loading of image files due to GDCMImageIO::CanReadFile

opened 01:56AM - 09 Jan 19 UTC

closed 10:12PM - 14 Jan 19 UTC

lassoan

type:Performance area:IO

### Description Some images take extremely long time to load because GDCMImag…eIO::CanReadFile takes several minutes. ### Steps to Reproduce Download this image: https://1drv.ms/u/s!Arm_AFxB9yqHtrg3be4uEYghv0JPSw Using just ITK: 1. Load image file linked above using itk::ImageFileReader Using 3D Slicer: 1. Drag and drop the image file linked above to the application window 2. Select "Volume" in Description column 3. Click OK ### Expected behavior The file is loaded within a few seconds. ### Actual behavior The file is loaded in about 5 minutes. ### Reproducibility 100% with the file linked above. ### Versions 4.13 ### Environment Windows10, VS2015 ### Additional Information Originally reported by a Slicer user here: https://discourse.slicer.org/t/gipl-files-freezes-slicer/5312/3

github.com/InsightSoftwareConsortium/ITK

PERF: GDCM & DCMTK CanRead fails very slowly for non-DICOM files.

committed 10:11PM - 14 Jan 19 UTC

hjmjohnson

+195 -12

NOTE: DCMTK and GDCM demonstrate the same behavior with certain non-DICOM …files that have byte patterns similar to DICOM Some images take extremely long time to load because DCMTKImageIO::CanReadFile & GDCMImageIO::CanReadFile takes several minutes to fail. This is due to DCMTK's and GDCM's default behavior of trying to read non-compliant dicom files that do not have the required DICM header. Add more extensive testing about the structure of the file to determine if it looks like a dicom file. Previous testing only looked to see if the files without preables had values of 2 or 8 as the first byles of the file, but that resulted in many false positives. This implementation looks at all the SOP Instances that start with 2 or 8 to ensure that the proper dicom structure is found. This resolves #388.

Topic		Replies	Views
Slicer could not load NIfTI 2 Support	2	107	November 9, 2023
Long delay after disk activity stops when loading very large data Support	13	443	December 16, 2021
Loading nifti images into slicer in real time Support	6	344	October 14, 2021
Issue loading .nii files onto 3D slicer Support segmentation , nifti , file-import	7	4149	February 27, 2019
Unable to load multi-volume (4D) Nifti data Support	2	657	October 30, 2017

Nifti loading times

Related Topics