[autologins-Computer:stem/freesurfer/subjects] wanpark% parcellate_subject cf1
reading atlas from /Users/wanpark/Desktop/FreeSurfer/freesurfer/average/lh.atlas2002_simple.gcs
reading color table from GCSA file....
input 1: CURVATURE FILE, flags 0, avgs 0, name sulc
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
relabeling using gibbs priors...
000: 15065 changed, 190865 examined...
001: 3883 changed, 57322 examined...
002: 1317 changed, 20293 examined...
003: 629 changed, 7437 examined...
004: 333 changed, 3451 examined...
005: 187 changed, 1811 examined...
006: 108 changed, 1054 examined...
007: 60 changed, 594 examined...
008: 37 changed, 330 examined...
009: 23 changed, 206 examined...
010: 23 changed, 130 examined...
011: 11 changed, 117 examined...
012: 10 changed, 67 examined...
013: 6 changed, 44 examined...
014: 1 changed, 27 examined...
015: 0 changed, 5 examined...
000: 678 total segments, 566 labels (9496 vertices) changed
001: 180 total segments, 70 labels (776 vertices) changed
002: 115 total segments, 5 labels (366 vertices) changed
003: 110 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 167 changed)
writing output to /Users/../Volumes/stem/freesurfer/subjects/cf1/label/lh.aparc.annot...
writing colortable into annotation file...
classification took 20 minutes and 46 seconds.
reading atlas from /Users/wanpark/Desktop/FreeSurfer/freesurfer/average/rh.atlas2002_simple.gcs
reading color table from GCSA file....
input 1: CURVATURE FILE, flags 0, avgs 0, name sulc
input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature
labeling surface...
relabeling using gibbs priors...
000: 14686 changed, 187213 examined...
001: 3723 changed, 54710 examined...
002: 1228 changed, 19135 examined...
003: 543 changed, 6751 examined...
004: 305 changed, 3107 examined...
005: 171 changed, 1740 examined...
006: 92 changed, 948 examined...
007: 48 changed, 498 examined...
008: 26 changed, 256 examined...
009: 18 changed, 153 examined...
010: 11 changed, 85 examined...
011: 8 changed, 49 examined...
012: 1 changed, 36 examined...
013: 0 changed, 8 examined...
000: 586 total segments, 459 labels (8211 vertices) changed
001: 166 total segments, 45 labels (461 vertices) changed
002: 122 total segments, 2 labels (19 vertices) changed
003: 120 total segments, 0 labels (0 vertices) changed
10 filter iterations complete (10 requested, 196 changed)
writing output to /Users/../Volumes/stem/freesurfer/subjects/cf1/label/rh.aparc.annot...
writing colortable into annotation file...
classification took 18 minutes and 52 seconds.
[autologins-Computer:stem/freesurfer/subjects] wanpark%
and then the tksurfer cf1 rh inflated > file > label> import annotation > /Users/../Volumes/stem/freesurfer/subjects/cf1/label/rh.aparc.annot:
[autologins-Computer:stem/freesurfer/subjects] wanpark% tksurfer cf1 rh inflated
surfer: current subjects dir: /Users/../Volumes/stem/freesurfer/subjects
surfer: not in "scripts" dir ==> using cwd for session root
surfer: session root data dir ($session) set to:
surfer: /Volumes/stem/freesurfer/subjects
surfer: /Users/../Volumes/stem/freesurfer/subjects/cf1/mri/T1/COR-.info
ltMNIread: could not open file /Users/../Volumes/stem/freesurfer/subjects/cf1/mri/transforms/talairach.xfm
No such file or directory
surfer: Talairach xform file not found (ignored)
surfer: vertices=187213, faces=375476
surfer: using interface /Users/wanpark/Desktop/FreeSurfer/freesurfer/lib/tcl/tksurfer.tcl
Reading /Users/wanpark/Desktop/FreeSurfer/freesurfer/lib/tcl/tkm_common.tcl
Reading /Users/wanpark/Desktop/FreeSurfer/freesurfer/lib/tcl/tkm_wrappers.tcl
Reading /Users/wanpark/Desktop/FreeSurfer/freesurfer/lib/tcl/fsgdfPlot.tcl
Couldn't load libtclfsgdf.dylib.
Reading /Users/wanpark/Desktop/FreeSurfer/freesurfer/lib/tcl/tkUtils.tcl
Read /Users/wanpark/Desktop/FreeSurfer/freesurfer/surface_labels.txt, found 95 structures
Successfully parsed tksurfer.tcl
% reading colortable from annotation file...
colortable with 85 entries read (originally /space/neo/5/recon/christophe/Simple_surface_labels2002.txt)
reading colortable from annotation file...
*** malloc_zone_calloc[1839]: arguments too large: 3221210976,520
CTABreadFrom: could not allocate -1073756320 bin table
Cannot allocate memory
Bus error
my machine is a mac dual 1 GHz PowerPC G4 2 MB L3 cache per processor, Memory 1.5 Gb SDRAM
rh.annot.aparc is not a directory..
what i can do?
thanks
wan
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