BUG: fixed issue #136, #125
BUG: set_orientation@sct_utils: needed absolute path
REF: minor
REF: cleaning
OPT: list labels if users use flag -h
OPT: batch_processing.sh: added download link to sct_example_data
BUG: sct_utils|check_file_exist: removed cases. WARNING: can create problems with dependencies.
BUG: unfixed problem with sct_process_segmentation (output file has two times same extension).
REF: changed variable name fname for file
REF: changed variable name fname for file
BUG: fixed issue related to commit #a13bc35f2559d697185777e63d1d615bd3bdae22
REF: updated batch_processing.sh
REF: forgot debug mode
OPT: generate_output_file: MAJOR CHANGE TO ARGUMENTS
REF: added dynamic range for fslview command
REF: updated dynamic range for fslview command
REF: minor changes
REF: minor changes
BUG: nii.gz --> nii conversion was not done in tmp folder
REF: added option -m ortho,ortho to fslview