Various changes
Various changes

- Fix processing of BIDS datasets where only a single NIfTI EPI file is provided in the fmap/ directory. Note that it will still be necessary for the phase encoding of this volume to differ from that of the DWI, otherwise susceptibility field estimation is not possible (and the dwipreproc command will fail).
- Utilise the -align_seepi option in dwipreproc. In addition to improving spatial alignment of the estimated inhomogeneity field in the presence of inter-protocol motion, it is also necessary in order for dwipreproc to be able to correctly process datasets such as that described in the point above.
- New choice for --parcellation option: 'none'. This will effectively use the MRtrix3_connectome script as a pre-processing pipeline, but not actually generate a connectome. A whole-brain tractogram (and derivatives thereof) will only be generated when no parcellation is nominated if the --streamlines option is also used.
- Add '_parc-XXXXX' string to names of any files that are somehow derived from a particular brain parcellation.
- In group-level analysis, ensure that there is only one connectome file for each subject. Furthermore, ensure that the parcellation used in the generation of each subject connectome is identical; if this is not the case, refrain from generating the group average connectome.

BIDS-Apps/MRtrix3_connectome