Filenames management

[pdedumast]

• Remove custom pre/post fix in filenames from pre-/post-processing modules.
• Generate consistent output filenames:

• SRR T2w: sub-XX_ses-XX(_acq-XX)_desc-SR_id-{sr-id}_T2w.nii.gz
• SRR mask: sub-XX_ses-XX(_acq-XX)_desc-SR_id-{sr-id}_mask.nii.gz
• SRR report: sub-XX_ses-XX(_acq-XX)_desc-SR_id-{sr-id}.html
• if --all-outputs:
  • LR preprocessed T2w: sub-XX_ses-XX(_acq-XX)_run-XX_desc-preproc_id-{sr-id}_T2w.nii.gz
  • LR preprocessed mask: sub-XX_ses-XX(_acq-XX)_run-XX_desc-preproc_id-{sr-id}_mask.nii.gz

Note, intermediate files, e.g. png images to be included into the report must follow the nomenclature , s.t. sub-XX_ses-XX(_acq-XX)_desc-SR_id-{sr-id}.png.