release-v0.1.2-beta

Fixed

Many small bugs - refer to commits for details...

Added

• Single echo VFA approach:
  Implemented with a default minimum number of echoes for R2* calculation of 4.
  The number of echoes used is logged and a general warning informs the user about data interpretation when R2* map derived from only a few echoes.

• Metadata & processing parameters:
  Bunch of modifications to improve the readability and completeness of the metadata, for each output image as well as for the processing parameters.

• UNICORT-generated R1 and B1 to calculate PD and MT maps:
  This option has not been thoroughly tested.
  Made available under "ADVANCED USERS ONLY": the option to use the R1-UNICORT-derived B1 map for B1 transmit bias correction in PD and MT maps can only be enabled by an advanced user implementing customized defaults.

• Example files: For defaults customization and toolbox configuration examples.

• New option to disable the coregistration steps:
  Coregistration shouldn't be disabled but it can be convenient in specific cases (simulated data, phantom data).
  Option made available under "ADVANCED USERS ONLY", i.e. can only be modified by an advanced user implementing customized defaults.
  When enabled (defaults), all input images to hmri_create_MTProt.m (transmit and receive fields, T1w and MTw images) are coregistered to the PDw average (or TE=0 fit) image (see hmri_create_MTProt.m).

Changed

• Options for RF sensitivity bias field correction:
  The available options are now None, Unified Segmentation(default), Single and Per contrast.
  Beware that the previously implemented Noneoption corresponds to the current Unified Segmentation!!!
  Batch files saved with the previous version are not fully compatible with the current version and must be adapted.