Hi freesurfer programmers,
 I have a specific question reagrding the output of mri_label2vol.
 The image is correctly converted, however the analyze header file has an orientation value set to -1.
This is invalid as analyze orient fields can only be 0-5, and my next scripts rely on the orient string to perform transformations.
See -  http://eeg.sourceforge.net/mri_orientation_notes.html
 
Should I manually edit the orient field in the header? or does -1 field = analyze 4?
Thanks, Mario Ortega

Here is my specific command line output.
running the command: mri_label2vol --seg aparc+aseg.mgz --temp rawavg.mgz --o aseg-in-rawavg.
img --regheader aparc+aseg.mgz

/mnt/data/freesurfer
Number of labels: 0
Annot File:      (null)
Template Volume: rawavg.mgz
Outut Volume: aseg-in-rawavg.img
Registration File: (null)
Fill Threshold: 0
Label Vox Vol:  1
ProjType:       (null)
ProjTypeId:     0
ProjStart:      0
ProjStop:       0
ProjDelta:      0.1
Subject:  (null)
Hemi:     (null)
UseNewASeg2Vol:  1
DoLabelStatVol  0
$Id: mri_label2vol.c,v 1.25.2.4 2009/07/08 16:28:40 greve Exp $
Template RAS-to-Vox: --------
-1.000   0.000   0.000   128.000;
-0.000  -0.000  -1.000   128.000;
-0.000   1.000  -0.000   88.000;
 0.000   0.000   0.000   1.000;
Template Voxel Volume: 1
nHits Thresh: 0
Computing registration based on header
RegMat: --------
 0.019   0.998  -0.052   0.000;
-0.999   0.021   0.035   0.000;
 0.036   0.052   0.998   0.000;
 0.000   0.000   0.000   1.000;
Label RAS-to-Vox: --------
-0.019  -0.998   0.052   128.000;
-0.036  -0.052  -0.998   128.000;
-0.999   0.021   0.035   88.000;
 0.000   0.000   0.000   1.000;
ASeg2Vol: Building LUT
ASeg2Vol: Sorting
ASeg2Vol: Mapping
ASeg2Vol: Reverse Map
nmisses = 342870 (46013 filled)
ASeg2Vol: done
Analyze Output Matrix
-0.019  -0.036  -0.999   98.696;
-0.998  -0.052   0.021   164.924;
 0.052  -0.998   0.035   115.862;
 0.000   0.000   0.000   1.000;
--------------------
INFO: set hdr.hist.orient to -1
/mnt/data/freesurfer
Number of labels: 0
Annot File:      (null)
Template Volume: rawavg.mgz
Outut Volume: aseg-in-rawavg.img
Registration File: (null)
Fill Threshold: 0
Label Vox Vol:  1
ProjType:       (null)
ProjTypeId:     0
ProjStart:      0
ProjStop:       0
ProjDelta:      0.1
Subject:  (null)
Hemi:     (null)
UseNewASeg2Vol:  1
DoLabelStatVol  0