HI all, I have another problem with mri_glmfit-sim. It looks for something that is not available in my FS (see below the error message) How can I solve this problem? thank you! Angela
mri_glmfit-sim --glmdir qdec/Untitled --cwpvalthresh .05 --cache 1.3 abs --2spaces cmdline mri_glmfit --y /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/y.mgh --fsgd /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/qdec.fsgd dods --glmdir /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled --surf fsaverage lh --label /Users/angelafavaro/Desktop/risonanze/studyfree/fsaverage/label/lh.aparc.label --C /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/contrasts/lh-Avg-Intercept-pial_lgi.mat --C /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/contrasts/lh-Diff-1-3-Intercept-pial_lgi.mat SURFACE: fsaverage lh log file is qdec/Untitled/cache.mri_glmfit-sim.log cd /Users/angelafavaro/Desktop/risonanze/studyfree /Applications/freesurfer/bin/mri_glmfit-sim --glmdir qdec/Untitled --cwpvalthresh .05 --cache 1.3 abs --2spaces $Id: mri_glmfit-sim,v 1.36.2.5 2012/10/01 22:31:37 greve Exp $ Mon Sep 1 12:00:58 CEST 2014 Darwin MacBook-Pro-di-Angela-Favaro.local 10.8.0 Darwin Kernel Version 10.8.0: Tue Jun 7 16:32:41 PDT 2011; root:xnu-1504.15.3~1/RELEASE_X86_64 x86_64 angelafavaro setenv SUBJECTS_DIR /Users/angelafavaro/Desktop/risonanze/studyfree FREESURFER_HOME /Applications/freesurfer Original mri_glmfit command line: cmdline mri_glmfit --y /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/y.mgh --fsgd /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/qdec.fsgd dods --glmdir /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled --surf fsaverage lh --label /Users/angelafavaro/Desktop/risonanze/studyfree/fsaverage/label/lh.aparc.label --C /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/contrasts/lh-Avg-Intercept-pial_lgi.mat --C /Users/angelafavaro/Desktop/risonanze/studyfree/qdec/Untitled/contrasts/lh-Diff-1-3-Intercept-pial_lgi.mat DoSim = 0 UseCache = 1 DoPoll = 0 DoPBSubmit = 0 DoBackground = 0 DiagCluster = 0 gd2mtx = dods fwhm = 37.845465 ERROR: cannot find /Applications/freesurfer/average/mult-comp-cor/fsaverage/lh/cortex/fwhm38/abs/th13/mc-z.csd > > I think this has something to do with the unix LOCALE because it is > interpreting the "2.0" as "2,0" using the comma "," instead of the "." > I actually don't know how to fix this. If you run > > echo $LANG > > does it return > > en_US.UTF-8 > > if not, as a test, try > setenv LANG en_US.UTF-8 > > Then run mri_glmfit-sim > > doug > > On 8/24/14 1:00 PM, angela.fav...@unipd.it wrote: >> Hi Doug, >> already done! >> >> mri_glmfit-sim --glmdir glm.lh.lh-rh.thickness.sm10 --cwpvalthresh .5 >> --cache 2.0 abs >> >> printf: 2.0: not completely converted >> ERROR: thresh = 2,0, must be 1.3, 2.0, 2.3, 3.0, 3.3, 4.0 >> >> what does it mean? >> I am using a MacOSX 10.6.8 >> thank you for your help >> >> Angela >> >> >>> Try using --cache 2.0 abs >>> >>> On 8/24/14 9:41 AM, angela.fav...@unipd.it wrote: >>>> Hi all, >>>> I am having a problem with mri_glmfit-sim: >>>> >>>> my command was: >>>> mri_glmfit-sim --glmdir glm.lh.lh-rh.thickness.sm10 --cwpvalthresh .5 >>>> --cache 2 abs >>>> >>>> and this is the only output: >>>> >>>> ERROR: thresh = 2,0, must be 1.3, 2.0, 2.3, 3.0, 3.3, 4.0 >>>> >>>> I am not able to understand which is the source of this error. Can >>>> somebody help me? >>>> >>>> thank you >>>> >>>> Angela >>>> >>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> The information in this e-mail is intended only for the person to whom >>> it >>> is >>> addressed. If you believe this e-mail was sent to you in error and the >>> e-mail >>> contains patient information, please contact the Partners Compliance >>> HelpLine at >>> http://www.partners.org/complianceline . If the e-mail was sent to you >>> in >>> error >>> but does not contain patient information, please contact the sender and >>> properly >>> dispose of the e-mail. >>> >>> >>> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
