Hello, Bruce,

Yes, I have space and permission and write the aseg.auto_noCCseg.label_intensities.txt.
I found the the aseg.auto_noCCseg.label_intensities.txt in the /mri folder, and pasted below

Thanks!
Guang

1 Left_Cerebral_Exterior 1.00 0.0  0
2 Left_Cerebral_White_Matter 1.00 0.0 108
3 Left_Cerebral_Cortex 1.00 0.0 76
4 Left_Lateral_Ventricle 0.98 0.0 24
5 Left_Inf_Lat_Vent 1.00 0.0 41
7 Left_Cerebellum_White_Matter 1.00 0.0 96
8 Left_Cerebellum_Cortex 1.00 0.0 73
9 Left_Thalamus 0.99 0.0  0
10 Left_Thalamus_Proper 1.00 0.0 98
11 Left_Caudate 1.00 0.0 79
12 Left_Putamen 1.00 0.0 87
13 Left_Pallidum 1.00 0.0 103
14 Third_Ventricle 0.98 0.0 29
15 Fourth_Ventricle 1.05 0.0 23
16 Brain_Stem 1.02 0.0 99
17 Left_Hippocampus 1.00 0.0 74
18 Left_Amygdala 1.00 0.0 78
24 CSF 1.00 0.0 42
26 Left_Accumbens_area 1.00 0.0 74
28 Left_VentralDC 1.15 0.0 109
40 Right_Cerebral_Exterior 1.00 0.0  0
41 Right_Cerebral_White_Matter 1.00 0.0 108
42 Right_Cerebral_Cortex 0.98 0.0 75
43 Right_Lateral_Ventricle 1.00 0.0 21
44 Right_Inf_Lat_Vent 1.00 0.0 36
46 Right_Cerebellum_White_Matter 1.00 0.0 95
47 Right_Cerebellum_Cortex 1.00 0.0 68
48 Right_Thalamus 0.99 0.0  0
49 Right_Thalamus_Proper 0.98 0.0 97
50 Right_Caudate 1.00 0.0 83
51 Right_Putamen 0.98 0.0 81
52 Right_Pallidum 0.99 0.0 103
53 Right_Hippocampus 1.00 0.0 70
54 Right_Amygdala 0.98 0.0 79
58 Right_Accumbens_area 1.00 0.0 86
60 Right_VentralDC 1.15 0.0 109
72 Fifth_Ventricle 1.00 0.0 38
75 Left_Lateral_Ventricles 1.00 0.0  0
76 Right_Lateral_Ventricles 1.00 0.0  0
77 WM_hypointensities 1.00 0.0 84
78 Left_WM_hypointensities 1.00 0.0  0
79 Right_WM_hypointensities 1.00 0.0  0
80 non_WM_hypointensities 1.00 0.0 54
81 Left_non_WM_hypointensities 1.00 0.0  0
82 Right_non_WM_hypointensities 1.00 0.0  0
186  1.00 0.0  0
187  1.00 0.0  0


> Date: Thu, 22 Apr 2010 10:34:06 -0400
> From: fischl@nmr.mgh.harvard.edu
> To: freesurfer_zg@hotmail.com
> CC: nicks@nmr.mgh.harvard.edu; freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] a 3T MPRAGE subject fails at mri_ca_label
>
> is there space left on your disk? Can you see if the file
> aseg.auto_noCCseg.label_intensities.txt exists? Do you have permission to
> write it?
>
> On Thu, 22 Apr 2010, Guang Zeng
> wrote:
>
> >
> > Hello, Nick,
> >
> > Thanks a lot for your help. I downloaded the new version for the website, and reran the subject again.
> > It failed at the same place, it looks like the new version does not work for my case.
> >
> > Thanks!
> > Guang
> >
> > mri_ca_label -align -nobigventricles norm.mgz transforms/talairach.m3z /data1/radiology/m047599/temp_fs_2/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca aseg.auto_noCCseg.mgz
> >
> > renormalizing sequences with structure alignment, equivalent to:
> > -renormalize
> > -renormalize_mean 0.500
> > -regularize 0.500
> > not handling expanded ventricles...
> > reading 1 input volumes...
> > reading classifier array from /data1/radiology/m047599/temp_fs_2/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca...
> > reading input volume from norm.mgz...
> > average std[0] = 6.9
> > reading transform from transforms/talairach.m3z...
> > zcat transforms/talairach.m3z
> > Atlas used for the 3D morph was /data1/radiology/m047599/temp_fs_2/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca
> > average std = 6.9 using min determinant for regularization = 4.7
> > 0 singular and 0 ill-conditioned covariance matrices regularized
> > labeling volume...
> > renormalizing by structure alignment....
> > renormalizing input #0
> > gca peak = 0.15151 (27)
> > mri peak = 0.19455 (22)
> > Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (14935 voxels, overlap=0.730)
> > Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (14935 voxels, peak = 24), gca=24.3
> > gca peak = 0.14982 (20)
> > mri peak = 0.17994 (24)
> > Right_Lateral_Ventricle (43): linear fit = 1.02 x + 0.0 (13315 voxels, overlap=0.564)
> > Right_Lateral_Ventricle (43): linear fit = 1.02 x + 0.0 (13315 voxels, peak = 20), gca=20.5
> > gca peak = 0.28003 (97)
> > mri peak = 0.16459 (110)
> > Right_Pallidum (52): linear fit = 1.12 x + 0.0 (393 voxels, overlap=0.000)
> > Right_Pallidum (52): linear fit = 1.12 x + 0.0 (393 voxels, peak = 109), gca=109.1
> > gca peak = 0.18160 (96)
> > mri peak = 0.15057 (110)
> > Left_Pallidum (13): linear fit = 1.10 x + 0.0 (454 voxels, overlap=0.069)
> > Left_Pallidum (13): linear fit = 1.10 x + 0.0 (454 voxels, peak = 106), gca=105.6
> > gca peak = 0.27536 (62)
> > mri peak = 0.07277 (75)
> > Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (1544 voxels, overlap=0.140)
> > Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (1544 voxels, peak = 70), gca=69.8
> > gca peak = 0.32745 (63)
> > mri peak = 0.09303 (75)
> > Left_Hippocampus (17): linear fit = 1.17 x + 0.0 (1519 voxels, overlap=0.181)
> > Left_Hippocampus (17): linear fit = 1.17 x + 0.0 (1519 voxels, peak = 74), gca=74.0
> > gca peak = 0.08597 (105)
> > mri peak = 0.08247 (106)
> > Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (28258 voxels, overlap=0.656)
> > Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (28258 voxels, peak = 108), gca=107.6
> > gca peak = 0.09209 (106)
> > mri peak = 0.07428 (109)
> > Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (34792 voxels, overlap=0.661)
> > Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (34792 voxels, peak = 109), gca=108.6
> > gca peak = 0.07826 (63)
> > mri peak = 0.02775 (74)
> > Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (69386 voxels, overlap=0.031)
> > Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (69386 voxels, peak = 76), gca=75.6
> > gca peak = 0.08598 (64)
> > mri peak = 0.02662 (74)
> > Right_Cerebral_Cortex (42): linear fit = 1.23 x + 0.0 (69439 voxels, overlap=0.015)
> > Right_Cerebral_Cortex (42): linear fit = 1.23 x + 0.0 (69439 voxels, peak = 78), gca=78.4
> > gca peak = 0.24164 (71)
> > mri peak = 0.09277 (84)
> > Right_Caudate (50): linear fit = 1.17 x + 0.0 (1505 voxels, overlap=0.000)
> > Right_Caudate (50): linear fit = 1.17 x + 0.0 (1505 voxels, peak = 83), gca=83.4
> > gca peak = 0.18227 (75)
> > mri peak = 0.10121 (86)
> > Left_Caudate (11): linear fit = 1.05 x + 0.0 (1290 voxels, overlap=0.481)
> > Left_Caudate (11): linear fit = 1.05 x + 0.0 (1290 voxels, peak = 79), gca=78.8
> > gca peak = 0.10629 (62)
> > mri peak = 0.05510 (72)
> > Left_Cerebellum_Cortex (8): linear fit = 1.20 x + 0.0 (35554 voxels, overlap=0.245)
> > Left_Cerebellum_Cortex (8): linear fit = 1.20 x + 0.0 (35554 voxels, peak = 74), gca=74.4
> > gca peak = 0.11668 (59)
> > mri peak = 0.04765 (71)
> > Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (36178 voxels, overlap=0.425)
> > Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (36178 voxels, peak = 68), gca=67.8
> > gca peak = 0.17849 (88)
> > mri peak = 0.10359 (97)
> > Left_Cerebellum_White_Matter (7): linear fit = 1.10 x + 0.0 (5829 voxels, overlap=0.251)
> > Left_Cerebellum_White_Matter (7): linear fit = 1.10 x + 0.0 (5829 voxels, peak = 97), gca=96.8
> > gca peak = 0.16819 (86)
> > mri peak = 0.08973 (95)
> > Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (5682 voxels, overlap=0.276)
> > Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (5682 voxels, peak = 95), gca=94.6
> > gca peak = 0.41688 (64)
> > mri peak = 0.08920 (76)
> > Left_Amygdala (18): linear fit = 1.23 x + 0.0 (565 voxels, overlap=0.000)
> > Left_Amygdala (18): linear fit = 1.23 x + 0.0 (565 voxels, peak = 78), gca=78.4
> > gca peak = 0.42394 (62)
> > mri peak = 0.08525 (81)
> > Right_Amygdala (54): linear fit = 1.30 x + 0.0 (481 voxels, overlap=0.000)
> > Right_Amygdala (54): linear fit = 1.30 x + 0.0 (481 voxels, peak = 81), gca=80.6
> > gca peak = 0.10041 (96)
> > mri peak = 0.07187 (96)
> > Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (5596 voxels, overlap=0.613)
> > Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (5596 voxels, peak = 98), gca=98.4
> > gca peak = 0.13978 (88)
> > mri peak = 0.05644 (99)
> > Right_Thalamus_Proper (49): linear fit = 1.12 x + 0.0 (5116 voxels, overlap=0.582)
> > Right_Thalamus_Proper (49): linear fit = 1.12 x + 0.0 (5116 voxels, peak = 99), gca=99.0
> > gca peak = 0.08514 (81)
> > mri peak = 0.11174 (88)
> > Left_Putamen (12): linear fit = 1.08 x + 0.0 (1383 voxels, overlap=0.545)
> > Left_Putamen (12): linear fit = 1.08 x + 0.0 (1383 voxels, peak = 87), gca=87.1
> > gca peak = 0.09624 (82)
> > mri peak = 0.11806 (88)
> > Right_Putamen (51): linear fit = 1.10 x + 0.0 (983 voxels, overlap=0.585)
> > Right_Putamen (51): linear fit = 1.10 x + 0.0 (983 voxels, peak = 90), gca=90.2
> > gca peak = 0.07543 (88)
> > mri peak = 0.06257 (98)
> > Brain_Stem (16): linear fit = 1.10 x + 0.0 (12615 voxels, overlap=0.400)
> > Brain_Stem (16): linear fit = 1.10 x + 0.0 (12615 voxels, peak = 97), gca=96.8
> > gca peak = 0.12757 (95)
> > mri peak = 0.07190 (107)
> > Right_VentralDC: unreasonable value (111.6/107.0), not in range [80, 110] - rejecting
> > gca peak = 0.17004 (92)
> > mri peak = 0.08220 (112)
> > Left_VentralDC: unreasonable value (105.8/112.0), not in range [80, 110] - rejecting
> > gca peak = 0.21361 (36)
> > mri peak = 0.17046 (27)
> > Third_Ventricle (14): linear fit = 0.80 x + 0.0 (423 voxels, overlap=0.115)
> > Third_Ventricle (14): linear fit = 0.80 x + 0.0 (423 voxels, peak = 29), gca=28.8
> > gca peak = 0.26069 (23)
> > mri peak = 0.12203 (25)
> > Fourth_Ventricle (15): linear fit = 0.95 x + 0.0 (467 voxels, overlap=0.806)
> > Fourth_Ventricle (15): linear fit = 0.95 x + 0.0 (467 voxels, peak = 22), gca=21.9
> > gca peak Unknown = 0.94427 ( 0)
> > gca peak Left_Inf_Lat_Vent = 0.31795 (35)
> > gca peak CSF = 0.14367 (38)
> > gca peak Left_Accumbens_area = 0.57033 (70)
> > gca peak Left_VentralDC = 0.17004 (92)
> > gca peak Left_undetermined = 1.00000 (35)
> > gca peak Left_vessel = 0.65201 (62)
> > gca peak Left_choroid_plexus = 0.09084 (48)
> > gca peak Right_Inf_Lat_Vent = 0.31129 (32)
> > gca peak Right_Accumbens_area = 0.30219 (72)
> > gca peak Right_VentralDC = 0.12757 (95)
> > gca peak Right_vessel = 0.83418 (60)
> > gca peak Right_choroid_plexus = 0.10189 (48)
> > gca peak Fifth_Ventricle = 0.72939 (42)
> > gca peak WM_hypointensities = 0.14821 (82)
> > gca peak non_WM_hypointensities = 0.10354 (53)
> > gca peak Optic_Chiasm = 0.34849 (76)
> > not using caudate to estimate GM means
> > estimating mean gm scale to be 1.21 x + 0.0
> > estimating mean wm scale to be 1.02 x + 0.0
> > estimating mean csf scale to be 0.92 x + 0.0
> > Left_Pallidum too bright - rescaling by 0.973 (from 1.100) to 102.7 (was 105.6)
> > Right_Pallidum too bright - rescaling by 0.941 (from 1.125) to 102.7 (was 109.1)
> > saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
> > renormalizing by structure alignment....
> > renormalizing input #0
> > gca peak = 0.14647 (25)
> > mri peak = 0.19455 (22)
> > Left_Lateral_Ventricle (4): linear fit = 0.98 x + 0.0 (14935 voxels, overlap=0.867)
> > Left_Lateral_Ventricle (4): linear fit = 0.98 x + 0.0 (14935 voxels, peak = 24), gca=24.4
> > gca peak = 0.19378 (21)
> > mri peak = 0.17994 (24)
> > Right_Lateral_Ventricle (43): linear fit = 1.00 x + 0.0 (13315 voxels, overlap=0.577)
> > Right_Lateral_Ventricle (43): linear fit = 1.00 x + 0.0 (13315 voxels, peak = 21), gca=21.0
> > gca peak = 0.26518 (104)
> > mri peak = 0.16459 (110)
> > Right_Pallidum (52): linear fit = 1.05 x + 0.0 (393 voxels, overlap=0.718)
> > Right_Pallidum (52): linear fit = 1.05 x + 0.0 (393 voxels, peak = 109), gca=109.2
> > gca peak = 0.18126 (103)
> > mri peak = 0.15057 (110)
> > Left_Pallidum (13): linear fit = 1.05 x + 0.0 (454 voxels, overlap=0.599)
> > Left_Pallidum (13): linear fit = 1.05 x + 0.0 (454 voxels, peak = 108), gca=108.1
> > gca peak = 0.25544 (70)
> > mri peak = 0.07277 (75)
> > Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1544 voxels, overlap=0.987)
> > Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1544 voxels, peak = 70), gca=70.0
> > gca peak = 0.28137 (74)
> > mri peak = 0.09303 (75)
> > Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (1519 voxels, overlap=0.999)
> > Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (1519 voxels, peak = 74), gca=74.0
> > gca peak = 0.08350 (108)
> > mri peak = 0.08247 (106)
> > Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28258 voxels, overlap=0.753)
> > Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28258 voxels, peak = 108), gca=108.0
> > gca peak = 0.08542 (108)
> > mri peak = 0.07428 (109)
> > Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34792 voxels, overlap=0.746)
> > Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34792 voxels, peak = 108), gca=108.0
> > gca peak = 0.06459 (76)
> > mri peak = 0.02775 (74)
> > Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (69386 voxels, overlap=0.183)
> > Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (69386 voxels, peak = 76), gca=76.0
> > gca peak = 0.07121 (77)
> > mri peak = 0.02662 (74)
> > Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (69439 voxels, overlap=0.174)
> > Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (69439 voxels, peak = 75), gca=75.1
> > gca peak = 0.21592 (83)
> > mri peak = 0.09277 (84)
> > Right_Caudate (50): linear fit = 1.00 x + 0.0 (1505 voxels, overlap=0.996)
> > Right_Caudate (50): linear fit = 1.00 x + 0.0 (1505 voxels, peak = 83), gca=83.0
> > gca peak = 0.15916 (79)
> > mri peak = 0.10121 (86)
> > Left_Caudate (11): linear fit = 1.00 x + 0.0 (1290 voxels, overlap=0.882)
> > Left_Caudate (11): linear fit = 1.00 x + 0.0 (1290 voxels, peak = 79), gca=79.0
> > gca peak = 0.08763 (73)
> > mri peak = 0.05510 (72)
> > Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (35554 voxels, overlap=0.948)
> > Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (35554 voxels, peak = 73), gca=73.0
> > gca peak = 0.10762 (68)
> > mri peak = 0.04765 (71)
> > Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (36178 voxels, overlap=0.974)
> > Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (36178 voxels, peak = 68), gca=68.0
> > gca peak = 0.16966 (96)
> > mri peak = 0.10359 (97)
> > Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5829 voxels, overlap=0.978)
> > Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5829 voxels, peak = 96), gca=96.0
> > gca peak = 0.15537 (95)
> > mri peak = 0.08973 (95)
> > Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5682 voxels, overlap=0.983)
> > Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5682 voxels, peak = 95), gca=95.0
> > gca peak = 0.30364 (78)
> > mri peak = 0.08920 (76)
> > Left_Amygdala (18): linear fit = 1.00 x + 0.0 (565 voxels, overlap=1.000)
> > Left_Amygdala (18): linear fit = 1.00 x + 0.0 (565 voxels, peak = 78), gca=78.0
> > gca peak = 0.37855 (81)
> > mri peak = 0.08525 (81)
> > Right_Amygdala (54): linear fit = 0.98 x + 0.0 (481 voxels, overlap=1.000)
> > Right_Amygdala (54): linear fit = 0.98 x + 0.0 (481 voxels, peak = 79), gca=79.0
> > gca peak = 0.10643 (98)
> > mri peak = 0.07187 (96)
> > Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5596 voxels, overlap=0.793)
> > Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5596 voxels, peak = 98), gca=98.0
> > gca peak = 0.12116 (99)
> > mri peak = 0.05644 (99)
> > Right_Thalamus_Proper (49): linear fit = 0.98 x + 0.0 (5116 voxels, overlap=0.867)
> > Right_Thalamus_Proper (49): linear fit = 0.98 x + 0.0 (5116 voxels, peak = 97), gca=96.5
> > gca peak = 0.08623 (87)
> > mri peak = 0.11174 (88)
> > Left_Putamen (12): linear fit = 1.00 x + 0.0 (1383 voxels, overlap=0.855)
> > Left_Putamen (12): linear fit = 1.00 x + 0.0 (1383 voxels, peak = 87), gca=87.0
> > gca peak = 0.09047 (83)
> > mri peak = 0.11806 (88)
> > Right_Putamen (51): linear fit = 0.98 x + 0.0 (983 voxels, overlap=0.834)
> > Right_Putamen (51): linear fit = 0.98 x + 0.0 (983 voxels, peak = 81), gca=80.9
> > gca peak = 0.06833 (97)
> > mri peak = 0.06257 (98)
> > Brain_Stem (16): linear fit = 1.02 x + 0.0 (12615 voxels, overlap=0.781)
> > Brain_Stem (16): linear fit = 1.02 x + 0.0 (12615 voxels, peak = 99), gca=99.4
> > gca peak = 0.13036 (95)
> > mri peak = 0.07190 (107)
> > Right_VentralDC (60): linear fit = 1.15 x + 0.0 (1487 voxels, overlap=0.012)
> > Right_VentralDC (60): linear fit = 1.15 x + 0.0 (1487 voxels, peak = 109), gca=109.2
> > gca peak = 0.16234 (92)
> > mri peak = 0.08220 (112)
> > Left_VentralDC: unreasonable value (105.8/112.0), not in range [80, 110] - rejecting
> > gca peak = 0.20402 (30)
> > mri peak = 0.17046 (27)
> > Third_Ventricle (14): linear fit = 0.98 x + 0.0 (423 voxels, overlap=0.788)
> > Third_Ventricle (14): linear fit = 0.98 x + 0.0 (423 voxels, peak = 29), gca=29.2
> > gca peak = 0.20373 (22)
> > mri peak = 0.12203 (25)
> > Fourth_Ventricle (15): linear fit = 1.05 x + 0.0 (467 voxels, overlap=0.862)
> > Fourth_Ventricle (15): linear fit = 1.05 x + 0.0 (467 voxels, peak = 23), gca=23.1
> > gca peak Unknown = 0.94427 ( 0)
> > gca peak Left_Inf_Lat_Vent = 0.23861 (41)
> > gca peak CSF = 0.19583 (42)
> > gca peak Left_Accumbens_area = 0.34736 (74)
> > gca peak Left_VentralDC = 0.16234 (92)
> > gca peak Left_undetermined = 1.00000 (35)
> > gca peak Left_vessel = 0.63638 (62)
> > gca peak Left_choroid_plexus = 0.09084 (48)
> > gca peak Right_Inf_Lat_Vent = 0.22085 (36)
> > gca peak Right_Accumbens_area = 0.25693 (86)
> > gca peak Right_vessel = 0.83418 (60)
> > gca peak Right_choroid_plexus = 0.10189 (48)
> > gca peak Fifth_Ventricle = 0.82185 (38)
> > gca peak WM_hypointensities = 0.14848 (84)
> > gca peak non_WM_hypointensities = 0.11940 (54)
> > gca peak Optic_Chiasm = 0.34508 (76)
> > mri_ca_label GCA sequential renormalization: label 28 not consistently computed.
> >
> > not using caudate to estimate GM means
> > setting label Right_VentralDC based on Left_VentralDC = 1.15 x + 0
> > estimating mean gm scale to be 0.99 x + 0.0
> > estimating mean wm scale to be 1.00 x + 0.0
> > estimating mean csf scale to be 1.00 x + 0.0
> > Left_Pallidum too bright - rescaling by 0.949 (from 1.050) to 102.6 (was 108.1)
> > Right_Pallidum too bright - rescaling by 0.940 (from 1.050) to 102.6 (was 109.2)
> > saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
> > Linux dnode33.mayo.edu 2.6.18-92.1.6.el5 #1 SMP Wed Jun 25 13:45:47 EDT 2008 x86_64 x86_64 x86_64 GNU/Linux
> >
> > recon-all exited with ERRORS at Wed Apr 21 17:58:54 CDT 2010
> >
> >
> >> From: nicks@nmr.mgh.harvard.edu
> >> To: freesurfer_zg@hotmail.com
> >> Date: Tue, 20 Apr 2010 18:18:14 -0400
> >> CC: freesurfer@nmr.mgh.harvard.edu
> >> Subject: Re: [Freesurfer] a 3T MPRAGE subject fails at mri_ca_label
> >>
> >> you can download a newer mri_ca_label for your platform from here:
> >>
> >> ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/
> >>
> >> which fixes this problem.
> >>
> >> n.
> >>
> >>
> >> On Tue, 2010-04-20 at 15:21 -0500, Guang Zeng wrote:
> >>> Hi, there
> >>>
> >>> I have a 3T MPRAGE subject which fails at the mri_ca_label step, the
> >>> recon-all.log is pasted below,
> >>> Any suggestions to fix this error?
> >>>
> >>> Thanks a lot!
> >>> Guang
> >>>
> >>> mri_ca_label -align -nobigventricles norm.mgz
> >>> transforms/talairach.m3z /usr/local/biotools/freesurfer/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca aseg.auto_noCCseg.mgz
> >>>
> >>> renormalizing sequences with structure alignment, equivalent to:
> >>> -renormalize
> >>> -renormalize_mean 0.500
> >>> -regularize 0.500
> >>> not handling expanded ventricles...
> >>> reading 1 input volumes...
> >>> reading classifier array
> >>> from /usr/local/biotools/freesurfer/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca...
> >>> reading input volume from norm.mgz...
> >>> average std[0] = 6.9
> >>> reading transform from transforms/talairach.m3z...
> >>> zcat transforms/talairach.m3z
> >>> Atlas used for the 3D morph
> >>> was /usr/local/biotools/freesurfer/freesurfer-v4.5.0/average/RB_all_2008-03-26.gca
> >>> average std = 6.9 using min determinant for regularization = 4.7
> >>> 0 singular and 0 ill-conditioned covariance matrices regularized
> >>> labeling volume...
> >>> renormalizing by structure alignment....
> >>> renormalizing input #0
> >>> gca peak = 0.15151 (27)
> >>> mri peak = 0.20145 (24)
> >>> Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (15451 voxels,
> >>> overlap=0.608)
> >>> Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (15451 voxels,
> >>> peak = 23), gca=23.0
> >>> gca peak = 0.14982 (20)
> >>> mri peak = 0.18345 (24)
> >>> Right_Lateral_Ventricle (43): linear fit = 1.02 x + 0.0 (13803 voxels,
> >>> overlap=0.564)
> >>> Right_Lateral_Ventricle (43): linear fit = 1.02 x + 0.0 (13803 voxels,
> >>> peak = 20), gca=20.5
> >>> gca peak = 0.28003 (97)
> >>> mri peak = 0.12841 (110)
> >>> Right_Pallidum (52): linear fit = 1.12 x + 0.0 (445 voxels,
> >>> overlap=0.000)
> >>> Right_Pallidum (52): linear fit = 1.12 x + 0.0 (445 voxels, peak =
> >>> 109), gca=109.1
> >>> gca peak = 0.18160 (96)
> >>> mri peak = 0.13582 (111)
> >>> Left_Pallidum (13): linear fit = 1.15 x + 0.0 (451 voxels,
> >>> overlap=0.004)
> >>> Left_Pallidum (13): linear fit = 1.15 x + 0.0 (451 voxels, peak =
> >>> 110), gca=110.4
> >>> gca peak = 0.27536 (62)
> >>> mri peak = 0.07207 (76)
> >>> Right_Hippocampus (53): linear fit = 1.15 x + 0.0 (1453 voxels,
> >>> overlap=0.164)
> >>> Right_Hippocampus (53): linear fit = 1.15 x + 0.0 (1453 voxels, peak =
> >>> 71), gca=71.3
> >>> gca peak = 0.32745 (63)
> >>> mri peak = 0.08789 (75)
> >>> Left_Hippocampus (17): linear fit = 1.15 x + 0.0 (1469 voxels,
> >>> overlap=0.000)
> >>> Left_Hippocampus (17): linear fit = 1.15 x + 0.0 (1469 voxels, peak =
> >>> 72), gca=72.4
> >>> gca peak = 0.08597 (105)
> >>> mri peak = 0.08672 (108)
> >>> Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (29417
> >>> voxels, overlap=0.653)
> >>> Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (29417
> >>> voxels, peak = 108), gca=107.6
> >>> gca peak = 0.09209 (106)
> >>> mri peak = 0.08520 (109)
> >>> Left_Cerebral_White_Matter (2): linear fit = 1.05 x + 0.0 (36362
> >>> voxels, overlap=0.554)
> >>> Left_Cerebral_White_Matter (2): linear fit = 1.05 x + 0.0 (36362
> >>> voxels, peak = 111), gca=111.3
> >>> gca peak = 0.07826 (63)
> >>> mri peak = 0.02796 (76)
> >>> Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (68673 voxels,
> >>> overlap=0.031)
> >>> Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (68673 voxels,
> >>> peak = 76), gca=75.6
> >>> gca peak = 0.08598 (64)
> >>> mri peak = 0.02607 (77)
> >>> Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (68179 voxels,
> >>> overlap=0.006)
> >>> Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (68179 voxels,
> >>> peak = 77), gca=76.8
> >>> gca peak = 0.24164 (71)
> >>> mri peak = 0.09815 (87)
> >>> Right_Caudate (50): linear fit = 1.20 x + 0.0 (1249 voxels,
> >>> overlap=0.000)
> >>> Right_Caudate (50): linear fit = 1.20 x + 0.0 (1249 voxels, peak =
> >>> 85), gca=85.2
> >>> gca peak = 0.18227 (75)
> >>> mri peak = 0.08068 (84)
> >>> Left_Caudate (11): linear fit = 1.08 x + 0.0 (1061 voxels,
> >>> overlap=0.509)
> >>> Left_Caudate (11): linear fit = 1.08 x + 0.0 (1061 voxels, peak = 81),
> >>> gca=80.6
> >>> gca peak = 0.10629 (62)
> >>> mri peak = 0.05013 (71)
> >>> Left_Cerebellum_Cortex (8): linear fit = 1.15 x + 0.0 (36025 voxels,
> >>> overlap=0.446)
> >>> Left_Cerebellum_Cortex (8): linear fit = 1.15 x + 0.0 (36025 voxels,
> >>> peak = 71), gca=71.3
> >>> gca peak = 0.11668 (59)
> >>> mri peak = 0.05257 (70)
> >>> Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (36255 voxels,
> >>> overlap=0.425)
> >>> Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (36255 voxels,
> >>> peak = 68), gca=67.8
> >>> gca peak = 0.17849 (88)
> >>> mri peak = 0.09129 (95)
> >>> Left_Cerebellum_White_Matter (7): linear fit = 1.08 x + 0.0 (6702
> >>> voxels, overlap=0.720)
> >>> Left_Cerebellum_White_Matter (7): linear fit = 1.08 x + 0.0 (6702
> >>> voxels, peak = 95), gca=94.6
> >>> gca peak = 0.16819 (86)
> >>> mri peak = 0.09287 (95)
> >>> Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (5941
> >>> voxels, overlap=0.422)
> >>> Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (5941
> >>> voxels, peak = 95), gca=94.6
> >>> gca peak = 0.41688 (64)
> >>> mri peak = 0.08561 (83)
> >>> Left_Amygdala (18): linear fit = 1.27 x + 0.0 (553 voxels,
> >>> overlap=0.000)
> >>> Left_Amygdala (18): linear fit = 1.27 x + 0.0 (553 voxels, peak = 82),
> >>> gca=81.6
> >>> gca peak = 0.42394 (62)
> >>> mri peak = 0.10507 (82)
> >>> Right_Amygdala (54): linear fit = 1.30 x + 0.0 (492 voxels,
> >>> overlap=0.000)
> >>> Right_Amygdala (54): linear fit = 1.30 x + 0.0 (492 voxels, peak =
> >>> 81), gca=80.6
> >>> gca peak = 0.10041 (96)
> >>> mri peak = 0.06936 (96)
> >>> Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (5098 voxels,
> >>> overlap=0.799)
> >>> Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (5098 voxels,
> >>> peak = 101), gca=100.8
> >>> gca peak = 0.13978 (88)
> >>> mri peak = 0.05876 (102)
> >>> Right_Thalamus_Proper (49): linear fit = 1.10 x + 0.0 (4698 voxels,
> >>> overlap=0.529)
> >>> Right_Thalamus_Proper (49): linear fit = 1.10 x + 0.0 (4698 voxels,
> >>> peak = 97), gca=96.8
> >>> gca peak = 0.08514 (81)
> >>> mri peak = 0.09350 (92)
> >>> Left_Putamen (12): linear fit = 1.08 x + 0.0 (1465 voxels,
> >>> overlap=0.545)
> >>> Left_Putamen (12): linear fit = 1.08 x + 0.0 (1465 voxels, peak = 87),
> >>> gca=87.1
> >>> gca peak = 0.09624 (82)
> >>> mri peak = 0.16556 (90)
> >>> Right_Putamen (51): linear fit = 1.10 x + 0.0 (1124 voxels,
> >>> overlap=0.363)
> >>> Right_Putamen (51): linear fit = 1.10 x + 0.0 (1124 voxels, peak =
> >>> 90), gca=90.2
> >>> gca peak = 0.07543 (88)
> >>> mri peak = 0.05860 (97)
> >>> Brain_Stem (16): linear fit = 1.12 x + 0.0 (12206 voxels,
> >>> overlap=0.421)
> >>> Brain_Stem (16): linear fit = 1.12 x + 0.0 (12206 voxels, peak = 99),
> >>> gca=99.0
> >>> gca peak = 0.12757 (95)
> >>> mri peak = 0.06982 (110)
> >>> Right_VentralDC: unreasonable value (111.6/110.0), not in range [80,
> >>> 110] - rejecting
> >>> gca peak = 0.17004 (92)
> >>> mri peak = 0.08107 (112)
> >>> Left_VentralDC: unreasonable value (108.1/112.0), not in range [80,
> >>> 110] - rejecting
> >>> gca peak = 0.21361 (36)
> >>> mri peak = 0.18754 (25)
> >>> Third_Ventricle (14): linear fit = 0.80 x + 0.0 (503 voxels,
> >>> overlap=0.115)
> >>> Third_Ventricle (14): linear fit = 0.80 x + 0.0 (503 voxels, peak =
> >>> 29), gca=28.8
> >>> gca peak = 0.26069 (23)
> >>> mri peak = 0.11881 (24)
> >>> Fourth_Ventricle (15): linear fit = 0.88 x + 0.0 (463 voxels,
> >>> overlap=0.723)
> >>> Fourth_Ventricle (15): linear fit = 0.88 x + 0.0 (463 voxels, peak =
> >>> 20), gca=20.1
> >>> gca peak Unknown = 0.94427 ( 0)
> >>> gca peak Left_Inf_Lat_Vent = 0.31795 (35)
> >>> gca peak CSF = 0.14367 (38)
> >>> gca peak Left_Accumbens_area = 0.57033 (70)
> >>> gca peak Left_VentralDC = 0.17004 (92)
> >>> gca peak Left_undetermined = 1.00000 (35)
> >>> gca peak Left_vessel = 0.65201 (62)
> >>> gca peak Left_choroid_plexus = 0.09084 (48)
> >>> gca peak Right_Inf_Lat_Vent = 0.31129 (32)
> >>> gca peak Right_Accumbens_area = 0.30219 (72)
> >>> gca peak Right_VentralDC = 0.12757 (95)
> >>> gca peak Right_vessel = 0.83418 (60)
> >>> gca peak Right_choroid_plexus = 0.10189 (48)
> >>> gca peak Fifth_Ventricle = 0.72939 (42)
> >>> gca peak WM_hypointensities = 0.14821 (82)
> >>> gca peak non_WM_hypointensities = 0.10354 (53)
> >>> gca peak Optic_Chiasm = 0.34849 (76)
> >>> not using caudate to estimate GM means
> >>> estimating mean gm scale to be 1.21 x + 0.0
> >>> estimating mean wm scale to be 1.04 x + 0.0
> >>> estimating mean csf scale to be 0.89 x + 0.0
> >>> Left_Pallidum too bright - rescaling by 0.942 (from 1.150) to 104.0
> >>> (was 110.4)
> >>> Right_Pallidum too bright - rescaling by 0.953 (from 1.125) to 104.0
> >>> (was 109.1)
> >>> saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
> >>> renormalizing by structure alignment....
> >>> renormalizing input #0
> >>> gca peak = 0.17125 (23)
> >>> mri peak = 0.20145 (24)
> >>> Left_Lateral_Ventricle (4): linear fit = 1.00 x + 0.0 (15451 voxels,
> >>> overlap=0.669)
> >>> Left_Lateral_Ventricle (4): linear fit = 1.00 x + 0.0 (15451 voxels,
> >>> peak = 23), gca=23.0
> >>> gca peak = 0.19382 (21)
> >>> mri peak = 0.18345 (24)
> >>> Right_Lateral_Ventricle (43): linear fit = 1.00 x + 0.0 (13803 voxels,
> >>> overlap=0.577)
> >>> Right_Lateral_Ventricle (43): linear fit = 1.00 x + 0.0 (13803 voxels,
> >>> peak = 21), gca=21.0
> >>> gca peak = 0.22474 (104)
> >>> mri peak = 0.12841 (110)
> >>> Right_Pallidum (52): linear fit = 1.05 x + 0.0 (445 voxels,
> >>> overlap=0.749)
> >>> Right_Pallidum (52): linear fit = 1.05 x + 0.0 (445 voxels, peak =
> >>> 109), gca=109.2
> >>> gca peak = 0.18148 (104)
> >>> mri peak = 0.13582 (111)
> >>> Left_Pallidum (13): linear fit = 1.02 x + 0.0 (451 voxels,
> >>> overlap=0.768)
> >>> Left_Pallidum (13): linear fit = 1.02 x + 0.0 (451 voxels, peak =
> >>> 107), gca=106.6
> >>> gca peak = 0.24928 (71)
> >>> mri peak = 0.07207 (76)
> >>> Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1453 voxels,
> >>> overlap=0.785)
> >>> Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1453 voxels, peak =
> >>> 71), gca=71.0
> >>> gca peak = 0.25085 (72)
> >>> mri peak = 0.08789 (75)
> >>> Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (1469 voxels,
> >>> overlap=0.998)
> >>> Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (1469 voxels, peak =
> >>> 70), gca=70.2
> >>> gca peak = 0.08354 (108)
> >>> mri peak = 0.08672 (108)
> >>> Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (29417
> >>> voxels, overlap=0.739)
> >>> Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (29417
> >>> voxels, peak = 108), gca=108.0
> >>> gca peak = 0.08793 (111)
> >>> mri peak = 0.08520 (109)
> >>> Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (36362
> >>> voxels, overlap=0.718)
> >>> Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (36362
> >>> voxels, peak = 111), gca=111.0
> >>> gca peak = 0.06468 (76)
> >>> mri peak = 0.02796 (76)
> >>> Left_Cerebral_Cortex (3): linear fit = 0.98 x + 0.0 (68673 voxels,
> >>> overlap=0.222)
> >>> Left_Cerebral_Cortex (3): linear fit = 0.98 x + 0.0 (68673 voxels,
> >>> peak = 74), gca=74.1
> >>> gca peak = 0.07358 (76)
> >>> mri peak = 0.02607 (77)
> >>> Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (68179 voxels,
> >>> overlap=0.207)
> >>> Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (68179 voxels,
> >>> peak = 74), gca=74.1
> >>> gca peak = 0.23743 (85)
> >>> mri peak = 0.09815 (87)
> >>> Right_Caudate (50): linear fit = 0.98 x + 0.0 (1249 voxels,
> >>> overlap=1.000)
> >>> Right_Caudate (50): linear fit = 0.98 x + 0.0 (1249 voxels, peak =
> >>> 83), gca=82.9
> >>> gca peak = 0.16079 (80)
> >>> mri peak = 0.08068 (84)
> >>> Left_Caudate (11): linear fit = 1.00 x + 0.0 (1061 voxels,
> >>> overlap=0.832)
> >>> Left_Caudate (11): linear fit = 1.00 x + 0.0 (1061 voxels, peak = 80),
> >>> gca=80.0
> >>> gca peak = 0.09121 (70)
> >>> mri peak = 0.05013 (71)
> >>> Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (36025 voxels,
> >>> overlap=0.968)
> >>> Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (36025 voxels,
> >>> peak = 70), gca=70.0
> >>> gca peak = 0.10783 (68)
> >>> mri peak = 0.05257 (70)
> >>> Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (36255 voxels,
> >>> overlap=0.955)
> >>> Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (36255 voxels,
> >>> peak = 68), gca=68.0
> >>> gca peak = 0.17131 (94)
> >>> mri peak = 0.09129 (95)
> >>> Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6702
> >>> voxels, overlap=0.990)
> >>> Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6702
> >>> voxels, peak = 94), gca=94.0
> >>> gca peak = 0.15537 (95)
> >>> mri peak = 0.09287 (95)
> >>> Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5941
> >>> voxels, overlap=0.995)
> >>> Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5941
> >>> voxels, peak = 95), gca=95.0
> >>> gca peak = 0.30366 (81)
> >>> mri peak = 0.08561 (83)
> >>> Left_Amygdala (18): linear fit = 1.00 x + 0.0 (553 voxels,
> >>> overlap=1.000)
> >>> Left_Amygdala (18): linear fit = 1.00 x + 0.0 (553 voxels, peak = 81),
> >>> gca=81.0
> >>> gca peak = 0.36454 (81)
> >>> mri peak = 0.10507 (82)
> >>> Right_Amygdala (54): linear fit = 1.00 x + 0.0 (492 voxels,
> >>> overlap=0.776)
> >>> Right_Amygdala (54): linear fit = 1.00 x + 0.0 (492 voxels, peak =
> >>> 81), gca=81.0
> >>> gca peak = 0.10118 (99)
> >>> mri peak = 0.06936 (96)
> >>> Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5098 voxels,
> >>> overlap=0.924)
> >>> Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5098 voxels,
> >>> peak = 99), gca=99.0
> >>> gca peak = 0.09695 (97)
> >>> mri peak = 0.05876 (102)
> >>> Right_Thalamus_Proper (49): linear fit = 1.02 x + 0.0 (4698 voxels,
> >>> overlap=0.892)
> >>> Right_Thalamus_Proper (49): linear fit = 1.02 x + 0.0 (4698 voxels,
> >>> peak = 99), gca=99.4
> >>> gca peak = 0.08397 (87)
> >>> mri peak = 0.09350 (92)
> >>> Left_Putamen (12): linear fit = 1.00 x + 0.0 (1465 voxels,
> >>> overlap=0.855)
> >>> Left_Putamen (12): linear fit = 1.00 x + 0.0 (1465 voxels, peak = 87),
> >>> gca=87.0
> >>> gca peak = 0.08263 (85)
> >>> mri peak = 0.16556 (90)
> >>> Right_Putamen (51): linear fit = 1.00 x + 0.0 (1124 voxels,
> >>> overlap=0.741)
> >>> Right_Putamen (51): linear fit = 1.00 x + 0.0 (1124 voxels, peak =
> >>> 85), gca=85.0
> >>> gca peak = 0.07503 (99)
> >>> mri peak = 0.05860 (97)
> >>> Brain_Stem (16): linear fit = 1.00 x + 0.0 (12206 voxels,
> >>> overlap=0.801)
> >>> Brain_Stem (16): linear fit = 1.00 x + 0.0 (12206 voxels, peak = 99),
> >>> gca=99.0
> >>> gca peak = 0.11812 (95)
> >>> mri peak = 0.06982 (110)
> >>> Right_VentralDC (60): linear fit = 1.15 x + 0.0 (1457 voxels,
> >>> overlap=0.011)
> >>> Right_VentralDC (60): linear fit = 1.15 x + 0.0 (1457 voxels, peak =
> >>> 109), gca=109.2
> >>> gca peak = 0.15960 (92)
> >>> mri peak = 0.08107 (112)
> >>> Left_VentralDC: unreasonable value (105.8/112.0), not in range [80,
> >>> 110] - rejecting
> >>> gca peak = 0.20402 (30)
> >>> mri peak = 0.18754 (25)
> >>> Third_Ventricle (14): linear fit = 0.98 x + 0.0 (503 voxels,
> >>> overlap=0.845)
> >>> Third_Ventricle (14): linear fit = 0.98 x + 0.0 (503 voxels, peak =
> >>> 29), gca=29.2
> >>> gca peak = 0.24174 (20)
> >>> mri peak = 0.11881 (24)
> >>> Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (463 voxels,
> >>> overlap=0.882)
> >>> Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (463 voxels, peak =
> >>> 20), gca=20.5
> >>> gca peak Unknown = 0.94427 ( 0)
> >>> gca peak Left_Inf_Lat_Vent = 0.18244 (40)
> >>> gca peak CSF = 0.17923 (34)
> >>> gca peak Left_Accumbens_area = 0.46662 (75)
> >>> gca peak Left_VentralDC = 0.15960 (92)
> >>> gca peak Left_undetermined = 1.00000 (35)
> >>> gca peak Left_vessel = 0.63638 (62)
> >>> gca peak Left_choroid_plexus = 0.09084 (48)
> >>> gca peak Right_Inf_Lat_Vent = 0.19452 (37)
> >>> gca peak Right_Accumbens_area = 0.27742 (86)
> >>> gca peak Right_vessel = 0.83418 (60)
> >>> gca peak Right_choroid_plexus = 0.10189 (48)
> >>> gca peak Fifth_Ventricle = 0.82185 (37)
> >>> gca peak WM_hypointensities = 0.14997 (85)
> >>> gca peak non_WM_hypointensities = 0.10331 (55)
> >>> gca peak Optic_Chiasm = 0.34851 (76)
> >>> mri_ca_label GCA sequential renormalization: label 28 not consistently
> >>> computed.
> >>>
> >>> not using caudate to estimate GM means
> >>> setting label Right_VentralDC based on Left_VentralDC = 1.15 x + 0
> >>> estimating mean gm scale to be 0.99 x + 0.0
> >>> estimating mean wm scale to be 1.00 x + 0.0
> >>> estimating mean csf scale to be 1.00 x + 0.0
> >>> Left_Pallidum too bright - rescaling by 0.976 (from 1.025) to 104.0
> >>> (was 106.6)
> >>> Right_Pallidum too bright - rescaling by 0.953 (from 1.050) to 104.0
> >>> (was 109.2)
> >>> saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
> >>> Linux dnode80.mayo.edu 2.6.18-164.11.1.el5 #1 SMP Wed Jan 20 07:32:21
> >>> EST 2010 x86_64 x86_64 x86_64 GNU/Linux
> >>>
> >>> recon-all exited with ERRORS at Thu Apr 15 22:46:04 CDT 2010
> >>>
> >>>
> >>>
> >>> ______________________________________________________________________
> >>> The New Busy think 9 to 5 is a cute idea. Combine multiple calendars
> >>> with Hotmail. Get busy.
> >>> _______________________________________________
> >>> Freesurfer mailing list
> >>> Freesurfer@nmr.mgh.harvard.edu
> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >>
> >> _______________________________________________
> >> Freesurfer mailing list
> >> Freesurfer@nmr.mgh.harvard.edu
> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >>
> >>
> >> The information in this e-mail is intended only for the person to whom it is
> >> addressed. If you believe this e-mail was sent to you in error and the e-mail
> >> contains patient information, please contact the Partners Compliance HelpLine at
> >> http://www.partners.org/complianceline . If the e-mail was sent to you in error
> >> but does not contain patient information, please contact the sender and properly
> >> dispose of the e-mail.
> >>
> >
> > _________________________________________________________________
> > The New Busy is not the too busy. Combine all your e-mail accounts with Hotmail.
> > http://www.windowslive.com/campaign/thenewbusy?tile=multiaccount&ocid=PID28326::T:WLMTAGL:ON:WL:en-US:WM_HMP:042010_4

---

The New Busy think 9 to 5 is a cute idea. Combine multiple calendars with Hotmail. Get busy.