Hi Doug,
Yes indeed there is such a file (converted from mgz for DTIStudio). Thanks for your explanation.
Don
Date: Tue, 19 Oct 2010 11:40:47 -0400 From: greve@nmr.mgh.harvard.edu To: dhaglerjr@hotmail.com CC: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_vol2surf error
Hi Don, is there a file called DTI5_corr_resDTI_DT_minb1000_FA.dat? If so, it thinks that that file is a file created by selxavg and it tries to load it in. Doubtless it is not a selxavg file, and so that is failing in an unpredictable way. This file is not used anymore, so I'll have mri_vol2surf stop trying to load it. For now, just name your .dat files differently than your other files.
doug
Don Hagler wrote:
Using version 4.5.0, I get this error message with mri_vol2surf: INFO: Source volume detected as selxavg format number of frames is incorrect (0,1)
This error does not happen with version 3.0.5, and it only happens for input volumes with particular file names.
This fails: mri_vol2surf \ --src /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTcalc/DTI5_corr_resDTI_DT_minb1000_FA.mgz \ --src_type mgh \ --srcreg /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/rh-tmpreg.dat \ --hemi lh \ --surf white \ --out /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/DTI5_corr_resDTI_DT_minb1000_FA_pdist-1.0-lh.mgh \ --out_type mgh \ --trgsubject FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1 \ --projdist -1.000 \ --noreshape
But this works: mri_vol2surf \ --src /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTcalc/DTI5_corr_resDTI_DT_minb1000_FA2.mgz \ --src_type mgh \ --srcreg /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/rh-tmpreg.dat \ --hemi lh \ --surf white \ --out /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/DTI5_corr_resDTI_DT_minb1000_FA_pdist-1.0-lh.mgh \ --out_type mgh \ --trgsubject FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1 \ --projdist -1.000 \ --noreshape
In the second case, the input file is a direct copy of the input file for the first case. It also works if the input file is copied to another location.
The complete messages when it fails: srcvol = /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTcalc/DTI5_corr_resDTI_DT_minb1000_FA.mgz srctype = mgh srcreg = /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/rh-tmpreg.dat srcregold = 0 srcwarp unspecified surf = white hemi = lh trgsubject = FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1 surfreg = sphere.reg ProjDist = -1 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume INFO: Source volume detected as selxavg format number of frames is incorrect (0,1)
Complete messages when it succeeds (second case): srcvol = /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTcalc/DTI5_corr_resDTI_DT_minb1000_FA2.mgz srctype = mgh srcreg = /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/rh-tmpreg.dat srcregold = 0 srcwarp unspecified surf = white hemi = lh trgsubject = FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1 surfreg = sphere.reg ProjDist = -1 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Reading surface /space/md4/5/halgdev/epiproj/FSRECONS/FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1/surf/lh.white Done reading source surface Reading thickness /space/md4/5/halgdev/epiproj/FSRECONS/FREESURFERRECON_EPDTI_epd34_101002_20101002.185011_1/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface 1 -1 -1 -1 Done mapping volume to surface Number of source voxels hit = 28720 Writing to /space/md8/10/data/epiproj/EPDTI/Containers/MRIPROCESSED_EPDTI_epd34_101002_20101002.185011_1/DTanalysis/DTI5_corr_resDTI_DT_minb1000_FA_pdist-1.0-lh.mgh Dim: 145736 1 1
FYI:
FREESURFER_HOME: /usr/pubsw/packages/freesurfer/RH4-x86_64-R450
Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.5.0
RedHat release: CentOS release 5.5 (Final)
Kernel info: Linux 2.6.18-194.8.1.el5 x86_64
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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