The source project of this merge request has been removed.
[WIP] Clean up extension handling
This fixes the incompatibility with FSL version 6.0.1, as fslreorient2std now lacks a -m option - but introduces an error in the process.
It also fixes the attempted suffix-generality of current master; in particular the imtest was called, but with wrong name ($$1 instead of $1) and with an error message that referenced undefined variable $IN. The location of the imtest check is also moved higher, and the existence test and readability test are now removed as they are redundant.
Edited by Tom Nichols