Hi Chris,

Thanks for your reply. 

Per your suggestion, I used the most recent release but still got the same cropped image.  

I checked the JSON file, and I did not find any mention of zip2. 

1- Here is what appears in the MRIcroGL window when I convert just this acquisition:

C:\Users\username\AppData\Local\Temp\Rar$EXa4768.24269\MRIcroGL\Resources\dcm2niix.exe -f "%p_%i" -p y -z y -o "C:\Users\username\Desktop\mricrongl" "C:\Users\username\Desktop\mricrongl\raw\DICOM_MRI_STUDY-019\20240311\15520000"

Chris Rorden's dcm2niiX version v1.0.20241208  (JP2:OpenJPEG) (JP-LS:CharLS) MSC1942  (64-bit Windows)

Found 482 DICOM file(s)

Convert 482 DICOM as C:\Users\username\Desktop\mricrongl\ses-01_task_run-02_bold_MRI_STUDY_019a (80x80x26x482)

Conversion required 13.343000 seconds..

2- Below is what I get in the window; if I try to convert several acquisitions simultaneously, I get error messages, including one about slices not being stacked.  But I think this happens because the localizer is included in the folder. 

C:\Users\username\AppData\Local\Temp\Rar$EXa4768.31863\MRIcroGL\Resources\dcm2niix.exe -f "%p_%i" -p y -z y -o "C:\Users\username\Desktop\mricrongl" "C:\Users\username\Desktop\mricrongl\raw\DICOM_MRI_STUDY-019\20240311"

Chris Rorden's dcm2niiX version v1.0.20241208  (JP2:OpenJPEG) (JP-LS:CharLS) MSC1942  (64-bit Windows)

Found 1670 DICOM file(s)

Convert 482 DICOM as C:\Users\username\Desktop\mricrongl\ses-01_task_run-02_bold_MRI_STUDY_019 (80x80x26x482)

Slices not stacked: orientation varies (vNav or localizer?) [0 1 0 0 0 -1] != [1 0 0 0 0 -1]

Warning: Issue797: Check slice timing range 0..10.2969, TA= 10.2969, TR=3.98 ms)

Warning: Siemens MoCo? Bogus slice timing (range -1..-1, TR=3.98 seconds)

Warning: Weird CSA 'ProtocolSliceNumber' (System/Miscellaneous/ImageNumbering reversed): VALIDATE SLICETIMING AND BVECS

Convert 3 DICOM as C:\Users\username\Desktop\mricrongl\trufi_localizer_3-plane_MRI_STUDY_019_i00001 (256x256x3x1)

Warning: Issue797: Check slice timing range 0..10.3125, TA= 10.3125, TR=3.98 ms)

Warning: Siemens MoCo? Bogus slice timing (range -1..-1, TR=3.98 seconds)

Warning: Weird CSA 'ProtocolSliceNumber' (System/Miscellaneous/ImageNumbering reversed): VALIDATE SLICETIMING AND BVECS

Convert 3 DICOM as C:\Users\username\Desktop\mricrongl\trufi_localizer_3-plane_MRI_STUDY_019_i00004 (256x256x3x1)

Warning: Issue797: Check slice timing range 0..10.3125, TA= 10.3125, TR=3.98 ms)

Warning: Siemens MoCo? Bogus slice timing (range -1..-1, TR=3.98 seconds)

Convert 3 DICOM as C:\Users\username\Desktop\mricrongl\trufi_localizer_3-plane_MRI_STUDY_019_i00007 (256x256x3x1)

Convert 192 DICOM as C:\Users\username\Desktop\mricrongl\t1mprage_sag_MRI_STUDY_019 (256x256x192x1)

Convert 471 DICOM as C:\Users\username\Desktop\mricrongl\ses-01_task_run-01_bold_MRI_STUDY_019 (80x80x26x471)

Convert 325 DICOM as C:\Users\username\Desktop\mricrongl\REST_MB4_MRI_STUDY_019 (112x112x72x325)

Slices not stacked: dimensions vary across slices

Convert 190 DICOM as C:\Users\username\Desktop\mricrongl\t1mprage_sag_MRI_STUDY_019a (256x256x190x1)

Convert 1 DICOM as C:\Users\username\Desktop\mricrongl\t1mprage_sag_MRI_STUDY_019b (484x484x1x1)

Conversion required 77.504997 seconds.

In both cases, the image of the run_01(02)_bold appears cropped.

Thanks for your help.