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Dear Freesurfer experts,
I'm trying to run a simulation (--> mri_glmfit-sim) with cached LGI
data (fwhm10), but get an error due to the estimated fwhm kernel. The
folder corresponding to the fwhm value (-->37) does not exist, I guess
because it's a pretty unusual value...?
DoSim = 0
UseCache = 1
DoPoll = 0
DoPBSubmit = 0
DoBackground = 0
DiagCluster = 0
gd2mtx = dods
fwhm = 36.855100
ERROR: cannot find
/apps/prod/x86_64/freesurfer-6.0.1/average/mult-comp-cor/fsaverage/lh/cortex/fwhm37/abs/th20/mc-z.csd
I've seen mails describing similar issues in the archive and from your
explanation I more or less understand that you cannot define this
value as it is estimated in the process...? However, I did not see if
there is a solution to this problem. What could I do about it now?
I attached the logfiles and would be very grateful for your help,
thanks a lot and stay healthy,
Doro
cd /data/Psychiatrie/Meike_Hettwer/CTFreesurfer/WMC2_new_n4
/apps/prod/x86_64/freesurfer-6.0.1/bin/mri_glmfit-sim
--glmdir lh.resilience.lgi.glmdir --cache 2.0 abs --cwp 0.05 --2spaces
$Id: mri_glmfit-sim,v 1.60.2.4 2016/11/17 18:01:28 zkaufman Exp $
Mon Apr 6 09:42:17 CEST 2020
Linux beo-01 4.9.75-ql-generic-10.0-8 #1 SMP Mon Jan 8 17:13:03 UTC 2018 x86_64
GNU/Linux
mhettwer
setenv SUBJECTS_DIR /data/Psychiatrie/Meike_Hettwer/CTFreesurfer/WMC2_new_n4
FREESURFER_HOME /apps/prod/x86_64/freesurfer-6.0.1
Original mri_glmfit command line:
cmdline mri_glmfit.bin --y lh.resilience.lgi.10.mgh --fsgd
resilience_z_icv.fsgd --C resilience.mtx --surf fsaverage lh --cortex --glmdir
lh.resilience.lgi.glmdir --eres-save
DoSim = 0
UseCache = 1
DoPoll = 0
DoPBSubmit = 0
DoBackground = 0
DiagCluster = 0
gd2mtx = dods
fwhm = 36.855100
ERROR: cannot find
/apps/prod/x86_64/freesurfer-6.0.1/average/mult-comp-cor/fsaverage/lh/cortex/fwhm37/abs/th20/mc-z.csd
$Id: mri_glmfit.c,v 1.241.2.4 2016/12/08 22:02:40 zkaufman Exp $
cwd /data/Psychiatrie/Meike_Hettwer/CTFreesurfer/WMC2_new_n4
cmdline mri_glmfit.bin --y lh.resilience.lgi.10.mgh --fsgd
resilience_z_icv.fsgd --C resilience.mtx --surf fsaverage lh --cortex --glmdir
lh.resilience.lgi.glmdir --eres-save
sysname Linux
hostname beo-01
machine x86_64
user mhettwer
FixVertexAreaFlag = 1
UseMaskWithSmoothing 1
OneSampleGroupMean 0
y
/data/Psychiatrie/Meike_Hettwer/CTFreesurfer/WMC2_new_n4/lh.resilience.lgi.10.mgh
logyflag 0
usedti 0
FSGD resilience_z_icv.fsgd
labelmask
/data/Psychiatrie/Meike_Hettwer/CTFreesurfer/WMC2_new_n4/fsaverage/label/lh.cortex.label
maskinv 0
glmdir lh.resilience.lgi.glmdir
IllCondOK 0
ReScaleX 1
DoFFx 0
ResidualFWHM 36.855100
SearchSpace 73642.374029
anattype surface
36.855100
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