Thanks! Worked for most of it expect the 3dAllineate function and setting the DYLD paths, anything I need to change explicitly in the bash_profile perhaps?
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : FAILURE
dyld: Library not loaded: /usr/local/lib/libgomp.1.dylib
Referenced from: /Users/Richard/abin/3dAllineate
Reason: image not found
3dRSFC : success
SurfMesh : success
and these are still empty:
PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH =
DYLD_FALLBACK_LIBRARY_PATH =