3 Jul
2018
3 Jul
'18
12:31 p.m.
Sorry for the delay. I've put a new version here https://gate.nmr.mgh.harvard.edu/safelinks/greve/mkcontrast2 copy it to $FREESURFER_HOME/fsfast/bin
On 07/03/2018 12:13 PM, Patrycja Naumczyk wrote:
Hi all,
I'll repost - does FSv6 no longer support octave for FS-Fast processing?
Would appreciate clarification on this :) Patrycja
2018-06-29 21:41 GMT+02:00 Patrycja Naumczyk <patrycja.naumczyk@gmail.com mailto:patrycja.naumczyk@gmail.com>:
Hi all, I just switched from FS 5.3 to 6.0 on Gentoo Linux. Previously Freesurfer worked fine under octave setup (as specified here: https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2012-January/022135.html <https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2012-January/022135.html>), but after the update, when I tried testing a MATLAB related function I get an error: mkcontrast-sess -analysis PASAT.sm5.lh -contrast test -a 1 -c 0 INFO: Found 2 Non-Null Conditions INFO: Found 3 Delays Condition Weights: 1.00000000000000000000 0 mkcontrast2 -config PASAT.sm5.lh/test.config -anadir PASAT.sm5.lh -wcond 1.00000000000000000000 0 -sumconds -o PASAT.sm5.lh/test.mat -wdelay 1 0 0 -octave $Id: mkcontrast2,v 1.3 2016/03/11 23:46:48 greve Exp $ cmtxfile PASAT.sm5.lh/test.mat nconds 2, wcond 1.00000000000000000000 0 ndelays 3, wdelay 1 0 0 ndelays 3, wpsa sumconds 1 sumdelays 0 nircorr 0 TER 0.050000 rdelta rtau ERROR: cannot find matlab. Is it in your path? ERROR running mkcontrast mkcontrast2 -config PASAT.sm5.lh/test.config -anadir PASAT.sm5.lh -wcond 1.00000000000000000000 0 -sumconds -o PASAT.sm5.lh/test.mat -wdelay 1 0 0 -octave Fri Jun 29 21:21:16 CEST 2018 It seems that the environment variable (FS_USE_OCTAVE) is recognized correctly (the function runs with "-octave" flag), but somehow is omitted during execution? What can I do about it? I checked that v.5.3 used mkcontrast, whereas v.6.0 uses mkcontrast2 which does not seem to support octave? Is it possible to force calling mkcontrast instead of mkcontrast2? Best regards, Patrycja
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer