Julia, Make sure you use these forms, with no trailing "s" on caret_command:
caret_command -help-full caret_command -deformation-map-apply Donna On 03/29/2010 10:50 AM, Julia Bender wrote: > Hi John, > > everything worked well with the script you sent me, thanks! I have another > question: Has the caret_command "-surface-deformation-apply" also been > replaced? I'm trying to run an older script that's calling this line, but > I get "command not found" when I run it now. I also could'nt find it when > I looked up all arguments under 'caret_commands -help' > > thanks a lot! > > Julia > > >> Hi Julie, >> >> "caret_map_fmri" is a program that was eliminated several years ago. Make >> sure you have the latest version of Caret, 5.613. >> >> In place of "caret_map_fmri" use "caret_command -volume-map-to-surface". >> >> Try: >> >> caret_command -volume-map-to-surface \ >> /mrt/Visac/01Visac/Anatomy/seg/Human.01Visac.R.Fiducial.65366.coord \ >> /mrt/Visac/01Visac/Anatomy/seg/Human.01Visac.R.CLOSED.65366.topo \ >> "" \ <== This is the name of an input metric file to >> which data is appended. An empty name (two double quotes) means create >> a new metric file. >> Rtest.metric \ >> METRIC_ENCLOSING_VOXEL \ >> cCue_EndoLeft.hdr >> >> >> John Harwell >> >> >> On Mar 26, 2010, at 9:28 AM, Julia Bender wrote: >> >> >>> Hi, >>> >>> I'm having trouble using caret_map_fmri. I'm running: >>> >>> caret_map_fmri -m Rtest.metric -s >>> /mrt/Visac/01Visac/Anatomy/seg/Human.01Visac.R.spec >>> /mrt/Visac/01Visac/Anatomy/seg/Human.01Visac.R.CLOSED.65366.topo >>> /mrt/Visac/01Visac/Anatomy/seg/Human.01Visac.R.Fiducial.65366.coord -v >>> cCue_EndoLeft.hdr >>> >>> I get: >>> Unrecognized preferences data type >>> BINARY:BINARY:BINARY:BINARY:BINARY:BINARY:BINARY >>> ERROR: Error cCue_EndoLeft.hdr: No such file or directory >>> >>> I'm running the command in the directory where my statistical maps (e.g. >>> cCue_EndoLeft.hdr) for this subject are and I have full permission on >>> all >>> files. >>> >>> I'm using caret (current release) on a linux machine (openSUSE >>> 11.2).Does >>> anyone have an idea what could be wrong? >>> >>> >>> Thanks a lot! >>> >>> Julia >>> >>> >>> >>> Dipl. Psych. Julia Bender >>> Humboldt Universität zu Berlin >>> Mathematisch - Naturwissenschaftliche Fakultät II >>> Institut für Psychologie, Abt. Klinische Psychologie >>> Unter den Linden 6 >>> D-10099 Berlin >>> >>> >>> >>> Dipl. Psych. Julia Bender >>> Humboldt Universität zu Berlin >>> Mathematisch - Naturwissenschaftliche Fakultät II >>> Institut für Psychologie, Abt. Klinische Psychologie >>> Unter den Linden 6 >>> D-10099 Berlin >>> >>> _______________________________________________ >>> caret-users mailing list >>> [email protected] >>> http://brainvis.wustl.edu/mailman/listinfo/caret-users >>> _______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
