/usr/local/freesurfer/stable4/bin/mri_glmfit-sim
--no-sim mc-z.neg4 --glmdir lh.gender_age.glmdir.dng
$Id: mri_glmfit-sim,v 1.1.2.12 2009/01/17 21:16:10 greve Exp $
Sat Jan 17 18:15:24 EST 2009
Linux crash 2.6.18-92.1.10.el5 #1 SMP Tue Aug 5 07:42:41 EDT 2008 x86_64 x86_64 x86_64 GNU/Linux
greve
setenv SUBJECTS_DIR /homes/4/greve/subjects
FREESURFER_HOME /usr/local/freesurfer/stable4
DoPoll = 0
DoPBSubmit = 0
DoBackground = 0
DiagCluster = 0
gd2mtx = dods
fwhm = 14.110432
mri_surfcluster --in lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/sig.mgh --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j001-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j002-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j003-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j004-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j005-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j006-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j007-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j008-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j009-lh-Avg-thickness-age-Cor.csd --csd lh.gender_age.glmdir.dng/csd/mc-z.neg4.j010-lh-Avg-thickness-age-Cor.csd --mask lh.gender_age.glmdir.dng/mask.mgh --cwsig lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh --vwsig lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.voxel.mgh --sum lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.summary --ocn lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.ocn.mgh --oannot lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.ocn.annot
csd->threshsign = -1
thsign = neg, id = -1
version $Id: mri_surfcluster.c,v 1.39.2.3 2009/01/15 01:06:01 greve Exp $
hemi           = lh
srcid          = lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/sig.mgh 
srcsubjid      = fsaverage
srcsurf        = white
srcframe       = 0
thsign         = neg
thmin          = 4
thmax          = -1
fdr            = -1
minarea        = 0
xfmfile        = talairach.xfm
nth         = -1
ocnid    = lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.ocn.mgh MGH
sumfile  = lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.summary
subjectsdir    = /homes/4/greve/subjects
FixMNI = 1
Found 149955 vertices in mask
Found 149955 vertices in mask
Found 149955 points in clabel.
------------- XFM matrix (RAS2RAS) ---------------
/homes/4/greve/subjects/fsaverage/mri/transforms/talairach.xfm
 1.000   0.000   0.000   0.000;
 0.000   1.000   0.000   0.000;
 0.000   0.000   1.000   0.000;
 0.000   0.000   0.000   1.000;
----------------------------------------------------
Reading source surface /homes/4/greve/subjects/fsaverage/surf/lh.white
Done reading source surface
Computing metric properties
Loading source values
number of voxels in search space = 149955
Done loading source values (nvtxs = 163842)
overall max = 5.48597 at vertex 84216
overall min = -12.7661 at vertex 10349
surface nvertices 163842
surface area 65417.097656
surface area 65416.648438
Computing voxel-wise significance
CSDpvalMaxSigMap(): found 77306/163842 above 0
Adjusting threshold for 1-tailed test.
If the input is not a -log10(p) volume, re-run with --no-adjust.
Searching for Clusters ...
thmin=4.000000 (3.698970), thmax=-1.000000 (-1), thsignid=-1, minarea=0.000000
Found 38 clusters
Max cluster size 4044.786133
INFO: fixing MNI talairach coordinates
Saving cluster numbers to lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.ocn.mgh
Saving cluster pval lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh
Constructing output annotation
Writing annotation lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.ocn.annot
writing colortable into annotation file...
mri_convert lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh --frame 0
mri_convert lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh --frame 0 
$Id: mri_convert.c,v 1.146.2.3 2008/08/11 22:18:58 nicks Exp $
reading from lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
keeping frame 0
writing to lh.gender_age.glmdir.dng/lh-Avg-thickness-age-Cor/mc-z.neg4.sig.cluster.mgh...