Dear all,

As a preface, I am totally new to DTI.

While trying to convert DTI datas from DICOM format to NIFTI niix format with MRIcron I received some error messages:
Warning: 0008,0008=MOSAIC but number of slices not specified:
Warning: Slice timing appears corrupted (range 27000..27000, TR=9000 ms)
Warning: This diffusion series does not have a B0 (reference) volume

It finally generated bval, bvec and nii files.So if my conversion succssfully, or if there any problem of my original datasets?

I attach my json file:

"Modality": "MR",
"MagneticFieldStrength": 3,
"ImagingFrequency": 123.251,
"Manufacturer": "Siemens",
"ManufacturersModelName": "Prisma"

thanks in advance for your help.

This question is underspecified. Please provide the full JSON for a proper response. I will go out on a limb here and say that one of these answers is correct:
 1. This Prisma was upgraded to XA30 enhanced DICOM, and you are using a version of dcm2niix that pre-dates XA30. If this is the case, you can resolve this by upgrading dcm2niix
  https://github.com/rordenlab/dcm2niix/releases
 2. This is a dataset from a VE11 Prisma where an anonymization tool corrupted or removed key DICOM tags like the CSA header. If this is the case, check the provenance of your data and convert a copy prior to conversion.
 3. You only get this error for derived data, not the raw data. Your MRI console only needs to save raw data, not the derived data as you can derive better derived data after offline processing.

The JSON header will disambiguate these options:



"SoftwareVersions": "syngo MR E11",
"ImageType": ["ORIGINAL", "PRIMARY", "M", "ND", "MOSAIC"],
...
"ConversionSoftware": "dcm2niix",
"ConversionSoftwareVersion": "v1.0.20220720"

Thanks for your answers, they help me a lot! However, im not sure whether my data is raw, so should i check it with the institution which provide me the dataset? or I can do it by myself?

I attach my json file here:
"Modality": "MR",
"MagneticFieldStrength": 3,
"ImagingFrequency": 123.251,
"Manufacturer": "Siemens",
"ManufacturersModelName": "Prisma",
"SoftwareVersions": "syngo_MR_E11",
"MRAcquisitionType": "2D"
"ScanningSequence": "EP",
"SequenceVariant": "SK_SP",
"ScanOptions": "PFP_FS",
"ImageType": ["ORIGINAL", "PRIMARY", "DIFFUSION", "NONE", "ND", "NORM", "MOSAIC"],
"ConversionSoftware": "dcm2niix",
"ConversionSoftwareVersion": "v1.0.20200331"

Your DICOM images have had the CSA headers removed. This means you lack details on the number of slices, slice timing and diffusion gradient direction. If you want to analyze your diffusion data, you will need to recover a set of your DICOMs before these crucial tags were stripped off.
https://nipy.org/nibabel/dicom/siemens_c...
This is a limitation of your images, not dcm2niix. Since your data comes from a Siemens instrument, you can work with your center's research collaboration manager.

I would always suggest updating to the latest stable release (v1.0.20220720): the DICOM and BIDS standards are evolving rapidly

https://github.com/rordenlab/dcm2niix/re...

Thanks!!
Your answers really help a lot!!
Wish you have a happy day~