Hello folks,
I am trying -localGI on Mac, with working Matlab2007.
1. I think that the getmatlab script is not designed to work on Mac out of the box, since it is not by default in the $PATH, so it could be caught by "which". So I uncommented the three lines and set it hard.
2. That was easy, but now I am stacked with execution, as it seems that the script stops after few minutes, after completing the first matlab function "make_outer_surface(...)". The outputs are there, in the $SUBJECT/surf/tmp.... directory. Here is the output from
recon-all -s $SUBJECT -localGI
set MLF = /tmp/mos"_$$_".m set MLF = /tmp/mos_10410_.m set arg1 = ${tmpdir}/${input}.filled.mgz set arg1 = tmp-mris_compute_lgi/lh.pial.filled.mgz set arg2 = ${closespheresize} set arg2 = 15 set arg3 = ${tmpdir}/${input}-outer set arg3 = tmp-mris_compute_lgi/lh.pial-outer rm -f ${arg3} rm -f tmp-mris_compute_lgi/lh.pial-outer echo "make_outer_surface('${arg1}',${arg2},'${arg3}')" > $MLF echo make_outer_surface('tmp-mris_compute_lgi/lh.pial.filled.mgz',15,'tmp-mris_compute_lgi/lh.pial-outer') echo "=================" echo ================= ================= echo "`cat $MLF`" echo `cat /tmp/mos_10410_.m` cat /tmp/mos_10410_.m make_outer_surface('tmp-mris_compute_lgi/lh.pial.filled.mgz',15,'tmp-mris_compute_lgi/lh.pial-outer') echo "=================" echo ================= ================= if ( $RunIt ) then if ( 1 ) then cat $MLF | ${MATLAB} -display iconic -nojvm -nosplash cat /tmp/mos_10410_.m /Applications/Matlab74/bin/matlab -display iconic -nojvm -nosplash Warning: Unable to open display iconic, MATLAB is starting without a display. You will not be able to display graphics on the screen.
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reading filled volume...
closing volume... morphological closing done. writing outer surface...
After this, the processor goes down and stays like that, nothing is happening.
Thanks for help,
Martin