Hello Freesurfer,
I am trying to concat my surface pet file using mris_preproc but I get
this error with no output folder or files " mris_preproc --fsgd Pet.fsgd
--target fsaverage --hemi lh --is
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --is
C6_01_003_140908/lh.mgx.ctxgm.C601003140908.fsaverage.sm00.nii.gz --o
all.lh.mgx.ctxgm.fsaverage.sm00.nii.gz
nsubjects = 2
INFO: output detected as nifti, turning on reshaping
tmpdir is ./tmp.mris_preproc.20623
/net/synapse/nt/mozzoude/Analysis
Log file is all.lh.mgx.ctxgm.fsaverage.sm00.mris_preproc.log
Fri Apr 7 10:03:48 UTC 2017
setenv SUBJECTS_DIR /net/synapse/nt/mozzoude/Analysis
cd /net/synapse/nt/mozzoude/Analysis
/opt/freesurfer-6.0.0/freesurfer/bin/mris_preproc --fsgd Pet.fsgd --target
fsaverage --hemi lh --is
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --is
C6_01_003_140908/lh.mgx.ctxgm.C601003140908.fsaverage.sm00.nii.gz --o
all.lh.mgx.ctxgm.fsaverage.sm00.nii.gz
Linux neuron2.sri.utoronto.ca 4.4.0-22-generic #39-Ubuntu SMP Thu May 5
16:53:32 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
$Id: mris_preproc,v 1.76.2.1 2016/08/12 17:55:45 zkaufman Exp $
freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
tmpdir is ./tmp.mris_preproc.20623
Src lh sphere.reg
Trg lh sphere.reg
---------------------------------------------------
#@# 1/2 C6_01_001_140813 Fri Apr 7 10:03:48 UTC 2017 --------------
-----------------------
mri_surf2surf --srcsubject C6_01_001_140813 --srchemi lh --srcsurfreg
sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg
--tval ./tmp.mris_preproc.20623/C6_01_001_140813.1.mgh --sval
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --reshape
--cortex
ERROR: dimension inconsistency in source data
Number of surface vertices = 125993
Number of value vertices = 163842
Source registration surface changed to sphere.reg
Target registration surface changed to sphere.reg
$Id: mri_surf2surf.c,v 1.103 2015/11/05 22:07:33 greve Exp $
setenv SUBJECTS_DIR /net/synapse/nt/mozzoude/Analysis
cd /net/synapse/nt/mozzoude/Analysis
mri_surf2surf --srcsubject C6_01_001_140813 --srchemi lh --srcsurfreg
sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg
--tval ./tmp.mris_preproc.20623/C6_01_001_140813.1.mgh --sval
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --reshape
--cortex
sysname Linux
hostname neuron2.sri.utoronto.ca
machine x86_64
user mozzoude
srcsubject = C6_01_001_140813
srcval =
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz
srctype =
trgsubject = fsaverage
trgval = ./tmp.mris_preproc.20623/C6_01_001_140813.1.mgh
trgtype =
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
srchemi = lh
trghemi = lh
frame = 0
fwhm-in = 0
fwhm-out = 0
label-src = lh.cortex.label
label-trg = lh.cortex.label
OKToRevFaceOrder = 1
UseDualHemi = 0
Reading source surface reg
/net/synapse/nt/mozzoude/Analysis/C6_01_001_140813/surf/lh.sphere.reg
Loading source data"
Below are the scripts i ran prior to mris_preproc and the mris_preproc
command line:
1) mri_vol2surf --mov C6_01_001_140813.gtmpvc.output/mgx.ctxgm.nii.gz --reg
C6_01_001_140813.gtmpvc.output/aux/bbpet2anat.lta --hemi lh --projfrac 0.5
--o lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --cortex --trgsubject
fsaverage
2) mri_vol2surf --mov C6_01_003_140908.gtmpvc.output/mgx.ctxgm.nii.gz --reg
C6_01_003_140908.gtmpvc.output/aux/bbpet2anat.lta --hemi lh --projfrac 0.5
--o lh.mgx.ctxgm.C601003140908.fsaverage.sm00.nii.gz --cortex --trgsubject
fsaverage
3) mris_preproc --fsgd Pet.fsgd --target fsaverage --hemi lh --is
C6_01_001_140813/lh.mgx.ctxgm.C601001140813.fsaverage.sm00.nii.gz --is
C6_01_003_140908/lh.mgx.ctxgm.C601003140908.fsaverage.sm00.nii.gz --o
all.lh.mgx.ctxgm.fsaverage.sm00.nii.gz
Thanks.
Best,
Paul
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