NEW: option to specify the name of the output folder containing the template
NEW: option to specify the name of the output folder containing the template

Former-commit-id: 6eeacd3262b7b661d54d9be744a52b545c8a1350
Former-commit-id: 3fc87c0263ad060d16b09846132e17869acafef7
3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox,3324fr/spinalcordtoolbox