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Dear all, When I used mkbrainmask-sess, an error occurred shown
below. I am using the latest FreeSurfer, and the bet command is included in the
distribution. Could anyone tell me how to fix it? thanks, Jia ++++++++++++++begin of error
message+++++++++++++++++++++++++ mkbrainmask-sess 20041007syhu $Id: mkbrainmask-sess,v 1.2 2003/10/01 21:54:43 greve
Exp $ Linux zion Tue Nov 23 20:23:19 CST 2004 /nfs/home/jliu/data/scramface/mystudy -sf sessid_syhu -df sesspar ProjectDir /nfs/home/jliu/data/scramface/mystudy ------------------------------------------------ ------------------------------------------------ /nfs/home/jliu/data/scramface/20041007syhu Tue Nov 23 20:23:19 CST 2004 /nfs/home/jliu/data/scramface/20041007syhu/bold mkbrainmask -i 005/f -o masks/brain -thresh 0.1 -umask
2 Scratch Dir is /tmp/mkbrainmask_4734 # ---------- Converting bvolume to .img
------------------ # mri_convert 005/f_000.bshort
/tmp/mkbrainmask_4734/f.img Reading 005/f_000.bshort ... Reading 005/f_001.bshort ... Reading 005/f_002.bshort ... Reading 005/f_003.bshort ... Reading 005/f_004.bshort ... Reading 005/f_005.bshort ... Reading 005/f_006.bshort ... Reading 005/f_007.bshort ... Reading 005/f_008.bshort ... Reading 005/f_009.bshort ... Reading 005/f_010.bshort ... Reading 005/f_011.bshort ... Reading 005/f_012.bshort ... Reading 005/f_013.bshort ... Reading 005/f_014.bshort ... Reading 005/f_015.bshort ... reading from 005/f_000.bshort... INFO: bvolumeRead: min = 0, max = 885 TR=1.50, TE=30.00, TI=30.00, flip angle=90.00 i_ras = (-1, 0, 0) j_ras = (0, -0.996195, 0.0871557) k_ras = (-0, 0.087156, 0.996195) writing to /tmp/mkbrainmask_4734/f.img... Analyze Output Matrix -3.125 0.000 -0.000
100.229; 0.000 -3.113 0.418
99.376; 0.000 0.272 4.782
-50.897; 0.000 0.000
0.000 1.000; -------------------- INFO: set hdr.hist.orient to 3 # ---------- Using FSL's BET to Extract
Brain------------------ # This program has not been compiled for this data type /nfs/home/jliu/data/scramface/20041007syhu/bold bet /tmp/mkbrainmask_4734/f
/tmp/mkbrainmask_4734/brain -m -f 0.1 ERROR: bet failed ERROR: mkbrainmask failed +++++++++end of error message++++++++++++++++++++ |
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