This is the output for the parcellate_subject:



<color><param>0000,0000,FFFF</param>[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% 

</color>

and then the tksurfer cf1 rh inflated > file > label> import
annotation >
/Users/../Volumes/stem/freesurfer/subjects/cf1/label/rh.aparc.annot:


<color><param>0000,0000,FFFF</param>[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

</color>

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

<color><param>0000,0000,0000</param>

</color>