Cartilage building

Follow these steps to build cartilage:

1. cp .iv files into subject directory
2. cp collected_results directory into sucject directory
3. cp <bone_tag>_coord.dat files from bioeng
4. run matlab -nojvm -nosplash -r "addpath('/map/gfx0/users/USER/project/wrist/pipeline'); genGlobalRt('/map/gfx0/"datapath"/collected_results/','outRT_*L.txt','/map/gfx0/"datapath"/','%s15L_anim.RT','log-genGlobalRt.txt',1); exit;"
5. edit joints_linux and joints_one_linux as in “trail_contact_areas.txt”
6. run cleanup_sepPoses.m & cleanup.m
7. run run_cart_script & run_cart_script_app