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Change in file naming and file exclusions (v1.0.20181030) #243

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neurolabusc opened this issue Oct 30, 2018 · 0 comments
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Change in file naming and file exclusions (v1.0.20181030) #243

neurolabusc opened this issue Oct 30, 2018 · 0 comments

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@neurolabusc
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I believe these changes will not be controversial. However, I am happy for any comments. Perhaps @mharms @captainnova will want to comment. These changes are in response to a MRIcroGL issue.

New dcm2niix behavior.

  • _MoCo is appended to the ProtocolName if Image Type (0008,0008) includes the term 'MOCO'. This helps disambiguate Siemens fMRI runs where both motion corrected and raw data is stored for a single session (though note that Siemens already saves these as different series).
  • Siemens erroneously saves FA, TRACE and FA images with Image Type (0008,0008) as ORIGINAL rather than DERIVED. dcm2niix will now flag these scans as being derived, and they will be ignored if dcm2niix is run with the -i y option. Better derived DWI scans can be created offline once the raw data has been de-Gibbs, de-noised, and undistorted. This is consistent with the intention of -i y: ignore derived, localizer and 2D images.
neurolabusc added a commit that referenced this issue Oct 30, 2018
@neurolabusc
change MoCo naming and derived detection (#243)
dd7c7f6
@neurolabusc neurolabusc mentioned this issue Oct 30, 2018
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yarikoptic added a commit to neurodebian/dcm2niix that referenced this issue Dec 3, 2018
@yarikoptic
Merge tag 'v1.0.20181114' into debian
1653ef2 
* tag 'v1.0.20181114': (70 commits)
  New stable release: update documentation (v1.0.20181114)
  Avoid using GDCM's internal OpenJPEG library.
  Discriminate trace from raw GE DWI scans (rordenlab#245)
  Restore Philips enhanced (rordenlab@3c31d18)
  Clean up readme, interpolation errors less verbose, add date-of-birth to BIDS (requires '-ba n')
  Not all GE DWI with b>0 bvec=0 are trace (rordenlab#245)
  calculate Zmm for enhanced DICOM w/o 0018,0088 (rordenlab#241)
  Kludge for Siemens MoCo slice timing interfered with CMRR fix (CMRR-C2P/MB#29)
  Bruker enhanced 4D data (rordenlab#241)
  XA10A tag substitutes (rordenlab#240)
  Huffman tables repeated for RGB planes for jpg_0XC3 (rordenlab#244)
  change MoCo naming and derived detection (rordenlab#243)
  Update dcm_qa_nih submodule.
  Update dcm_qa_nih submodule.
  Update dcm_qa submodule.
  experimental dcm4che enhanced support (rordenlab#241)
  Vida partial Fourier update (rordenlab#240)
  XA10A Vida dwell time (rordenlab#240)
  More XA10A Vida header info (rordenlab#240)
  UIH bvecs (rordenlab#225 (comment))
  ...
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