Hello FreeSurfer Experts!

I’m having trouble projecting the Yeo 17n annotation to volume space. I’ve tried on FS v7.4.1 on Mac OS (14.3.1) and FS v7.3.2 on Linux (7.9).

I’ve tried the following two methods:

---- 1. aparc2aseg ----

cd $FREESURFER_HOME/subjects/fsaverage/label

mri_aparc2aseg \

--s fsaverage \

--o Yeo2011_17Networks_N1000.mgz \

--annot Yeo2011_17Networks_N1000

---- Output ----

SUBJECTS_DIR /Applications/freesurfer/7.4.1/subjects

subject fsaverage

outvol Yeo2011_17Networks_N1000.mgz

useribbon 0

baseoffset 0

RipUnknown 0

Reading lh white surface

/Applications/freesurfer/7.4.1/subjects/fsaverage/surf/lh.white

Reading lh pial surface

/Applications/freesurfer/7.4.1/subjects/fsaverage/surf/lh.pial

Loading lh annotations from /Applications/freesurfer/7.4.1/subjects/fsaverage/label/lh.Yeo2011_17Networks_N1000.annot

Have color table for lh white annotation

Building hash of lh white

Building hash of lh pial

Reading rh white surface

/Applications/freesurfer/7.4.1/subjects/fsaverage/surf/rh.white

Reading rh pial surface

/Applications/freesurfer/7.4.1/subjects/fsaverage/surf/rh.pial

Loading rh annotations from /Applications/freesurfer/7.4.1/subjects/fsaverage/label/rh.Yeo2011_17Networks_N1000.annot

Have color table for rh white annotation

Building hash of rh white

Building hash of rh pial

Loading ribbon segmentation from /Applications/freesurfer/7.4.1/subjects/fsaverage/mri/ribbon.mgz

Loading aseg from /Applications/freesurfer/7.4.1/subjects/fsaverage/mri/aseg.mgz

ASeg Vox2RAS: -----------

-1.00000 0.00000 0.00000 128.00000;

0.00000 0.00000 1.00000 -128.00000;

0.00000 -1.00000 0.00000 128.00000;

0.00000 0.00000 0.00000 1.00000;

-------------------------

Labeling Slice (256)

0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19

20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39

40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59

60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79

80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119

120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139

140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159

160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179

180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199

200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219

220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239

240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 332584

Used brute-force search on 0 voxels

Writing output aseg to Yeo2011_17Networks_N1000.mgz

error: mghWrite(Yeo2011_17Networks_N1000.mgz, -1): could not open file

#VMPC# mri_aparc2aseg VmPeak 0

mri_aparc2aseg done

---- 2. label2vol ----

cd $FREESURFER_HOME/subjects/fsaverage/label

mri_label2vol \

--annot lh.Yeo2011_17Networks_N1000.annot \

--o lh.Yeo2011_17Networks_N1000.mgz \

--hemi lh \

--fill-ribbon \

--identity \

--subject fsaverage

---- Output ----

Number of labels: 0

Annot File: lh.Yeo2011_17Networks_N1000.annot

Template Volume: (null)

Outut Volume: lh.Yeo2011_17Networks_N1000.mgz

Registration File: (null)

Fill Threshold: 0

Label Vox Vol: 1

ProjType: (null)

ProjTypeId: 0

ProjStart: 0

ProjStop: 0

ProjDelta: 0.1

Subject: fsaverage

Hemi: lh

UseNewASeg2Vol: 0

DoLabelStatVol 0

LabelCodeOffset 0

setenv SUBJECTS_DIR /Applications/freesurfer/7.4.1/subjects

7.4.1

INFO: loading surface /Applications/freesurfer/7.4.1/subjects/fsaverage/surf/lh.white

nvertices = 163842

Reading thickness /Applications/freesurfer/7.4.1/subjects/fsaverage/surf/lh.thickness

Loading annotations from lh.Yeo2011_17Networks_N1000.annot

annotidmax = 18

nlabels = 18

Loading /Applications/freesurfer/7.4.1/subjects/fsaverage/mri/ribbon.mgz

Mapping

error: mghWrite(lh.Yeo2011_17Networks_N1000.mgz, -1): could not open file

----

I’ve done this before, so I feel like I must be doing something wrong. Any ideas?

Cheers,

Bram

Bram R. Diamond, MS

Clinical Psychology Doctoral Candidate

Northwestern University Feinberg School of Medicine

Mesulam Center for Cognitive Neurology & Alzheimer’s Disease

300 E. Superior Street | Tarry 8 | Chicago, IL 60611