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help > Getting warnings when converting multi echo bold data (cmrr) to nifti
May 31, 2021 02:05 AM | Remy Cohan
Getting warnings when converting multi echo bold data (cmrr) to nifti
Hello MricroGL users,
While I was converting my multi echo bold data to nifti I receive the following warnings:
Found 600 DICOM file(s)
Slices not stacked: echo varies (TE 14, 46.16; echo 1, 3). Use 'merge 2D slices' option to force stacking
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e1 (64x64x43x200)
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e3 (64x64x43x200)
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e2 (64x64x43x200)
Conversion required 12.313125 seconds (5.550481 for core code).
Do I need to be worried about the outputs? It looks like MricroGL does convert my bold data into 3 separate echos plus the BIDS sidecars (json) and place them into the chosen folder snd I do not see any issues. But "adjusting for negative mosaicrefacq times" warning got me worried bit??
In advanced setting I only chose 1)ignore derived and 2D images 2)precise Philips scalling
Has anybody had the same issue or successfully converted multi echo data with mricrogl before? I would appreciate any pearls of wisdom or reassurance.
Thank you,
Remy
While I was converting my multi echo bold data to nifti I receive the following warnings:
Found 600 DICOM file(s)
Slices not stacked: echo varies (TE 14, 46.16; echo 1, 3). Use 'merge 2D slices' option to force stacking
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e1 (64x64x43x200)
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e3 (64x64x43x200)
Warning: Adjusting for negative MosaicRefAcqTimes (issue 271).
UINT16->INT16 Future release will change default. github.com/rordenlab/dcm2niix/issues/338
Convert 200 DICOM as /Volumes/rsfMRI_RC/RS_Data/sub-027/sub-027_session2/func/sub-027_ses-2_rest_bold_e2 (64x64x43x200)
Conversion required 12.313125 seconds (5.550481 for core code).
Do I need to be worried about the outputs? It looks like MricroGL does convert my bold data into 3 separate echos plus the BIDS sidecars (json) and place them into the chosen folder snd I do not see any issues. But "adjusting for negative mosaicrefacq times" warning got me worried bit??
In advanced setting I only chose 1)ignore derived and 2D images 2)precise Philips scalling
Has anybody had the same issue or successfully converted multi echo data with mricrogl before? I would appreciate any pearls of wisdom or reassurance.
Thank you,
Remy
Threaded View
Title | Author | Date |
---|---|---|
Remy Cohan | May 31, 2021 | |
Chris Rorden | May 31, 2021 | |
Remy Cohan | Jun 23, 2021 | |
Chris Rorden | Jun 28, 2021 | |
Remy Cohan | Jun 28, 2021 | |
Chris Rorden | Jun 28, 2021 | |
Remy Cohan | Jun 28, 2021 | |
Remy Cohan | Jun 28, 2021 | |