questions > help with conversion of Siemens Vida Fit 3T data
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Nov 30, 2022  04:11 AM | Ben Moloney
help with conversion of Siemens Vida Fit 3T data
I am having a problem when converting dicom to nii. I have very new to this and have little training to understand the problem.
Dicom data is exported from our 3T Vida-Fit scanner in Enhanced dicom format.

When converting my diffusion MRI data I get the following:

"Slice timing appears corrputed (range 0..7947.5 TR=8.6ms)"

What does this mean? Is it bad?

Some diffusion files also do not have bvec or bval outputs . is that related?

Let me know if I must provide more information to help you assess :)
Nov 30, 2022  11:11 AM | Chris Rorden
RE: help with conversion of Siemens Vida Fit 3T data
I suggest you review previous Github issues
  https://github.com/rordenlab/dcm2niix/issues
for example
  https://github.com/rordenlab/dcm2niix/issues/429
if these do not resolve your issue, create a new Github issue - the new issue template guides you through details that will improve troubleshooting. With Siemens enahnced DICOMs it is critical to know your software (XA10 was buggy and underspecified, while XA30 is much more complete) as well as the mode that data was exported as described here
  https://github.com/rordenlab/dcm2niix/issues/236
These reflect limitations in the files created by Siemens, though recent releases of dcm2niix includes kludges to mitigate these.
Jan 16, 2023  11:01 PM | Ben Moloney
RE: help with conversion of Siemens Vida Fit 3T data
Hi Chris,

I have just returned from a break - thanks for your response and your help on the github issue for out vida fit scanner running XA50 softare.
You were correct the lack of bvec/bvals was due to the images being derived images.
I had a look at my ehanced dicom files using "dicombrowser' and info e.g. DOB, name, ID were present, which would indicate to me that these files weren't anonymised when exported?? (correct me if I am wrong)
But I am continuing to recieve the "Slice timing appears corrupted (Range 0.. 10565 TR-3700ms)" error.
Please let me know your thoughts

Best wishes,
Ben
Jan 17, 2023  01:01 PM | Chris Rorden
RE: help with conversion of Siemens Vida Fit 3T data
I think you mean "XA30" as that is the latest stable release. Siemens changed their DICOMs radically, with XA10, with more modifications with XA20 and XA30. You may want to try the development branch and see if this fixes your issue

You can get the latest compiled version of the development branch from appveyor:
  https://ci.appveyor.com/project/neurolab...
click on your operating system (win, lune, mac) and then choose 'Artifacts' for a compiled version.

If you have a Mac or Linux computer, you can build it yourself:

git clone --branch development https://github.com/rordenlab/dcm2niix.gi...
cd dcm2niix/console
make

You will want to be vigilant with XA30 - it introduces new features and we are rushing to catch up. You will want to heed the warning from dcm2niix to export as enhanced rather than classic DICOMs to get the full meta data. 

The SNUG Discuss - (Siemens Neuro User Group) is an excellent resource to hear about the opportunities and challenges associated with XA30.
Jan 17, 2023  11:01 PM | Chris Rorden
RE: help with conversion of Siemens Vida Fit 3T data
I stand corrected, the is a XA50 (and XA51).
  https://github.com/CMRR-C2P/MB/discussions/288
I just do not understand Siemens marketing names.