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