T2raw.dat.log 41 KB

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  1. Logfile for bbregister
  2. Thu Aug 8 21:35:33 CEST 2013
  3. setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
  4. cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  5. /opt/freesurfer/5.3.0/bin/bbregister --s sub003 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz --lta /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.lta --init-fsl --T2
  6. $Id: bbregister,v 1.49.2.3 2013/03/25 18:04:53 greve Exp $
  7. Linux snake5 2.6.32-5-amd64 #1 SMP Fri May 10 08:43:19 UTC 2013 x86_64 GNU/Linux
  8. FREESURFER_HOME /opt/freesurfer/5.3.0
  9. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  10. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  11. $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
  12. reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz...
  13. TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
  14. i_ras = (-0.99822, -0.0508489, 0.0311494)
  15. j_ras = (-0.0512259, 0.998622, -0.0114243)
  16. k_ras = (0.0305256, 0.0129996, 0.999449)
  17. writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii...
  18. fslregister --s sub003 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister --dof 6 --fsvol brainmask.mgz
  19. Log file is /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat.fslregister.log
  20. Thu Aug 8 21:35:38 CEST 2013
  21. --s sub003 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister --dof 6 --fsvol brainmask.mgz
  22. $Id: fslregister,v 1.34.2.2 2012/11/08 16:18:56 greve Exp $
  23. snake5
  24. Linux snake5 2.6.32-5-amd64 #1 SMP Fri May 10 08:43:19 UTC 2013 x86_64 GNU/Linux
  25. nIters 1
  26. --------------------------------------
  27. /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  28. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/refvol.fslregister.nii
  29. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/refvol.fslregister.nii
  30. $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
  31. reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/brainmask.mgz...
  32. TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
  33. i_ras = (-1, 4.65661e-09, -1.86265e-09)
  34. j_ras = (1.86265e-09, 2.79397e-09, -1)
  35. k_ras = (-8.3528e-09, 1, -9.31323e-10)
  36. writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/refvol.fslregister.nii...
  37. --------------------------------------
  38. /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  39. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii --frame 0
  40. mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii --frame 0
  41. $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
  42. reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii...
  43. TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
  44. i_ras = (-0.99822, -0.0508489, 0.0311494)
  45. j_ras = (-0.0512259, 0.998622, -0.0114243)
  46. k_ras = (0.0305256, 0.0129996, 0.999449)
  47. keeping frame 0
  48. writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii...
  49. Mov determinant is -0.311093
  50. /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  51. tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/reg0.7616.dat --regheader --fslregout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat.fsl.mat0 --s sub003 --noedit
  52. tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
  53. INFO: no target volume specified, assuming FreeSurfer orig volume.
  54. target volume orig
  55. movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii
  56. reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/reg0.7616.dat
  57. LoadVol 0
  58. ZeroCRAS 0
  59. $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
  60. Diagnostic Level -1
  61. INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig.mgz
  62. Ttarg: --------------------
  63. -1.000 0.000 0.000 128.000;
  64. 0.000 0.000 1.000 -128.000;
  65. 0.000 -1.000 0.000 128.000;
  66. 0.000 0.000 0.000 1.000;
  67. INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii
  68. Tmov: --------------------
  69. -0.700 0.000 0.000 95.894;
  70. 0.000 0.000 0.667 -128.000;
  71. 0.000 -0.667 0.000 128.000;
  72. 0.000 0.000 0.000 1.000;
  73. mkheaderreg = 1, float2int = 0
  74. Computing reg from header (and possibly input matrix)
  75. ---- Input registration matrix (computed) --------
  76. 0.998 0.051 -0.031 -0.000;
  77. 0.031 0.013 0.999 0.000;
  78. 0.051 -0.999 0.011 0.000;
  79. 0.000 0.000 0.000 1.000;
  80. ---------------------------------------
  81. ---- Input registration matrix --------
  82. 0.998 0.051 -0.031 -0.000;
  83. 0.031 0.013 0.999 0.000;
  84. 0.051 -0.999 0.011 0.000;
  85. 0.000 0.000 0.000 1.000;
  86. Determinant 1
  87. subject = sub003
  88. RegMat ---------------------------
  89. 0.998 0.051 -0.031 -0.000;
  90. 0.031 0.013 0.999 0.000;
  91. 0.051 -0.999 0.011 0.000;
  92. 0.000 0.000 0.000 1.000;
  93. FSLOUTPUTTYPE NIFTI
  94. tkreg2FSL: mov det = -0.311093, ref det = -1
  95. Thu Aug 8 21:35:47 CEST 2013
  96. /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  97. flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii -bins 256 -cost corratio -dof 6 -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -verbose 0 -omat /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/fslmat0.trans.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/xyztrans.sch -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat.fsl.mat0
  98. Thu Aug 8 21:40:24 CEST 2013
  99. /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  100. flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/movvol.fslregister.nii -bins 256 -cost corratio -dof 6 -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -verbose 0 -omat /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat.fsl.mat -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/fslregister/fslmat0.trans.mat -schedule /opt/freesurfer/5.3.0/bin/flirt.newdefault.20080811.sch
  101. tkregister2_cmdl --s sub003 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --fslreg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat.fsl.mat --noedit
  102. tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
  103. ---- FSL registration matrix --------
  104. 0.998 0.051 -0.033 30.148;
  105. -0.033 -0.006 -0.999 260.830;
  106. -0.051 0.999 -0.004 5.216;
  107. 0.000 0.000 0.000 1.000;
  108. ---------------------------------------
  109. INFO: no target volume specified, assuming FreeSurfer orig volume.
  110. target volume orig
  111. movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  112. reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat
  113. LoadVol 0
  114. ZeroCRAS 0
  115. $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
  116. Diagnostic Level -1
  117. INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig.mgz
  118. Ttarg: --------------------
  119. -1.000 0.000 0.000 128.000;
  120. 0.000 0.000 1.000 -128.000;
  121. 0.000 -1.000 0.000 128.000;
  122. 0.000 0.000 0.000 1.000;
  123. INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  124. Tmov: --------------------
  125. -0.700 0.000 0.000 95.894;
  126. 0.000 0.000 0.667 -128.000;
  127. 0.000 -0.667 0.000 128.000;
  128. 0.000 0.000 0.000 1.000;
  129. mkheaderreg = 0, float2int = 0
  130. FSLOUTPUTTYPE NIFTI
  131. fsl2TkReg: mov det = -0.311093, ref det = -1
  132. ---- Input registration matrix (computed) --------
  133. 0.998 0.051 -0.033 0.150;
  134. 0.033 -0.004 0.999 1.026;
  135. 0.051 -0.999 -0.006 -0.374;
  136. 0.000 0.000 0.000 1.000;
  137. ---------------------------------------
  138. ---- Input registration matrix --------
  139. 0.998 0.051 -0.033 0.150;
  140. 0.033 -0.004 0.999 1.026;
  141. 0.051 -0.999 -0.006 -0.374;
  142. 0.000 0.000 0.000 1.000;
  143. Determinant 1
  144. subject = sub003
  145. RegMat ---------------------------
  146. 0.998 0.051 -0.033 0.150;
  147. 0.033 -0.004 0.999 1.026;
  148. 0.051 -0.999 -0.006 -0.374;
  149. 0.000 0.000 0.000 1.000;
  150. Started at Thu Aug 8 21:35:38 CEST 2013
  151. Ended at Thu Aug 8 21:47:22 CEST 2013
  152. fslregister Done
  153. To check results, run:
  154. tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --surf orig
  155. mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-frac 0.5 --gm-gt-wm 0.5
  156. $Id: mri_segreg.c,v 1.103.2.1 2011/10/07 19:14:42 greve Exp $
  157. setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
  158. cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  159. mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-frac 0.5 --gm-gt-wm 0.5
  160. sysname Linux
  161. hostname snake5
  162. machine x86_64
  163. user fkaule
  164. movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  165. regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.init.dat
  166. subject sub003
  167. dof 6
  168. outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat
  169. UseMask 0
  170. UseLH 1
  171. UseRH 1
  172. nsubsamp 100
  173. PenaltySign -1
  174. PenaltySlope 0.500000
  175. PenaltyCenter 0.000000
  176. surfname white
  177. GMProjFrac 0.500000
  178. WMProjAbs 2.000000
  179. lhcostfile (null)
  180. rhcostfile (null)
  181. interp trilinear (1)
  182. frame 0
  183. TolPowell 0.000100
  184. nMaxItersPowell 36
  185. n1dmin 3
  186. Profile 0
  187. Gdiag_no -1
  188. AddNoise 0 (0)
  189. SynthSeed 1376059224
  190. TransRandMax 0.000000
  191. RotRandMax 0.000000
  192. Translations 0.000000 0.000000 0.000000
  193. Rotations 0.000000 0.000000 0.000000
  194. Input reg
  195. 0.998 0.051 -0.033 0.150;
  196. 0.033 -0.004 0.999 1.026;
  197. 0.051 -0.999 -0.006 -0.374;
  198. 0.000 0.000 0.000 1.000;
  199. Loading mov
  200. Projecting LH Surfs
  201. Loading lh.white surf
  202. Loading lh.thickness for GM
  203. GM Proj: 1 0.500000 2.000000
  204. WM Proj: 0 0.500000 2.000000
  205. Projecting RH Surfs
  206. Loading rh.white surf
  207. Loading rh.thickness
  208. Projecting RH Surfs
  209. Computing relative cost
  210. 0 -25.0 -25.0 -25.0 0.986576
  211. 1 -25.0 -25.0 25.0 0.983247
  212. 2 -25.0 25.0 -25.0 1.007463
  213. 3 -25.0 25.0 25.0 1.044004
  214. 4 25.0 -25.0 -25.0 1.036276
  215. 5 25.0 -25.0 25.0 1.040975
  216. 6 25.0 25.0 -25.0 1.013110
  217. 7 25.0 25.0 25.0 1.034280
  218. REL: 8 0.467633 8.145932 1.018241 rel = 0.459255
  219. Initial costs ----------------
  220. Number of surface hits 2411
  221. WM Intensity 67.2941 +/- 13.0305
  222. Ctx Intensity 80.6970 +/- 18.9236
  223. Pct Contrast 17.0092 +/- 23.6115
  224. Cost 0.4676
  225. RelCost 0.4593
  226. ------------------------------------
  227. Brute force preopt -4 4 4, n = 729
  228. 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.9902 0.9902 0.0
  229. 3 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 0.9857 0.9857 0.0
  230. 4 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 0.0000 0.9724 0.9724 0.0
  231. 15 -4.0000 -4.0000 -4.0000 0.0000 4.0000 -4.0000 0.8944 0.8944 0.0
  232. 21 -4.0000 -4.0000 -4.0000 4.0000 0.0000 -4.0000 0.8910 0.8910 0.0
  233. 39 -4.0000 -4.0000 0.0000 0.0000 0.0000 -4.0000 0.8550 0.8550 0.0
  234. 102 -4.0000 0.0000 -4.0000 4.0000 0.0000 -4.0000 0.7523 0.7523 0.0
  235. 120 -4.0000 0.0000 0.0000 0.0000 0.0000 -4.0000 0.7029 0.7029 0.0
  236. 346 0.0000 0.0000 -4.0000 4.0000 0.0000 0.0000 0.5969 0.5969 0.0
  237. 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.4676 0.4676 0.0
  238. Brute Force --------------------------
  239. Min cost was 0.467633
  240. Number of iterations 729
  241. Search time 2.660000 sec
  242. Parameters at best (transmm, rotdeg)
  243. 0.000 0.000 0.000 0.000 0.000 0.000
  244. --------------------------------------------
  245. Starting Powell Minimization
  246. Init Powel Params dof = 6
  247. 0 0
  248. 1 0
  249. 2 0
  250. 3 0
  251. 4 0
  252. 5 0
  253. 11 0.019 0.000 0.000 0.000 0.000 0.000 0.4675131428
  254. 12 0.025 0.000 0.000 0.000 0.000 0.000 0.4674809813
  255. 13 0.036 0.000 0.000 0.000 0.000 0.000 0.4674561091
  256. 14 0.035 0.000 0.000 0.000 0.000 0.000 0.4674542680
  257. 15 0.033 0.000 0.000 0.000 0.000 0.000 0.4674534706
  258. 21 0.033 -1.618 0.000 0.000 0.000 0.000 0.4053029209
  259. 22 0.033 -1.331 0.000 0.000 0.000 0.000 0.3953529608
  260. 24 0.033 -0.823 0.000 0.000 0.000 0.000 0.3941499489
  261. 26 0.033 -1.058 0.000 0.000 0.000 0.000 0.3931425806
  262. 30 0.033 -1.069 0.000 0.000 0.000 0.000 0.3930436256
  263. 31 0.033 -1.073 0.000 0.000 0.000 0.000 0.3930194551
  264. 33 0.033 -1.075 0.000 0.000 0.000 0.000 0.3930114613
  265. 35 0.033 -1.076 0.000 0.000 0.000 0.000 0.3930113406
  266. 37 0.033 -1.076 1.000 0.000 0.000 0.000 0.2670190595
  267. 40 0.033 -1.076 1.618 0.000 0.000 0.000 0.2610119080
  268. 42 0.033 -1.076 1.345 0.000 0.000 0.000 0.2531224902
  269. 43 0.033 -1.076 1.352 0.000 0.000 0.000 0.2528559976
  270. 44 0.033 -1.076 1.423 0.000 0.000 0.000 0.2525060895
  271. 46 0.033 -1.076 1.394 0.000 0.000 0.000 0.2522172948
  272. 56 0.033 -1.076 1.394 0.382 0.000 0.000 0.2357375372
  273. 57 0.033 -1.076 1.394 0.336 0.000 0.000 0.2341538128
  274. 58 0.033 -1.076 1.394 0.284 0.000 0.000 0.2328213725
  275. 60 0.033 -1.076 1.394 0.243 0.000 0.000 0.2326645563
  276. 61 0.033 -1.076 1.394 0.255 0.000 0.000 0.2323784493
  277. 62 0.033 -1.076 1.394 0.261 0.000 0.000 0.2323630026
  278. 63 0.033 -1.076 1.394 0.260 0.000 0.000 0.2323600515
  279. 71 0.033 -1.076 1.394 0.260 0.046 0.000 0.2321164858
  280. 73 0.033 -1.076 1.394 0.260 0.039 0.000 0.2320909955
  281. 76 0.033 -1.076 1.394 0.260 0.038 0.000 0.2320871752
  282. 84 0.033 -1.076 1.394 0.260 0.038 -0.255 0.2288025977
  283. 85 0.033 -1.076 1.394 0.260 0.038 -0.226 0.2286803540
  284. 86 0.033 -1.076 1.394 0.260 0.038 -0.213 0.2286702508
  285. 88 0.033 -1.076 1.394 0.260 0.038 -0.131 0.2283463921
  286. 90 0.033 -1.076 1.394 0.260 0.038 -0.163 0.2283462069
  287. 91 0.033 -1.076 1.394 0.260 0.038 -0.147 0.2282822144
  288. 92 0.033 -1.076 1.394 0.260 0.038 -0.146 0.2282811641
  289. 93 0.033 -1.076 1.394 0.260 0.038 -0.144 0.2282744338
  290. 107 0.015 -1.076 1.394 0.260 0.038 -0.144 0.2280284491
  291. 108 0.016 -1.076 1.394 0.260 0.038 -0.144 0.2280243147
  292. 109 0.017 -1.076 1.394 0.260 0.038 -0.144 0.2280232614
  293. 117 0.017 -0.694 1.394 0.260 0.038 -0.144 0.2050094028
  294. 119 0.017 -0.730 1.394 0.260 0.038 -0.144 0.2047954990
  295. 120 0.017 -0.727 1.394 0.260 0.038 -0.144 0.2047353044
  296. 121 0.017 -0.715 1.394 0.260 0.038 -0.144 0.2046219815
  297. 123 0.017 -0.716 1.394 0.260 0.038 -0.144 0.2046207957
  298. 132 0.017 -0.716 1.155 0.260 0.038 -0.144 0.2001881173
  299. 133 0.017 -0.716 1.177 0.260 0.038 -0.144 0.2000120596
  300. 134 0.017 -0.716 1.199 0.260 0.038 -0.144 0.1999988262
  301. 135 0.017 -0.716 1.189 0.260 0.038 -0.144 0.1999617517
  302. 143 0.017 -0.716 1.189 0.642 0.038 -0.144 0.1836026879
  303. 144 0.017 -0.716 1.189 0.571 0.038 -0.144 0.1826210799
  304. 145 0.017 -0.716 1.189 0.568 0.038 -0.144 0.1825894435
  305. 146 0.017 -0.716 1.189 0.450 0.038 -0.144 0.1817752020
  306. 148 0.017 -0.716 1.189 0.495 0.038 -0.144 0.1817290746
  307. 149 0.017 -0.716 1.189 0.478 0.038 -0.144 0.1816493584
  308. 151 0.017 -0.716 1.189 0.481 0.038 -0.144 0.1816467865
  309. 153 0.017 -0.716 1.189 0.480 0.038 -0.144 0.1816464746
  310. 162 0.017 -0.716 1.189 0.480 0.066 -0.144 0.1816448783
  311. 163 0.017 -0.716 1.189 0.480 0.052 -0.144 0.1816346052
  312. 165 0.017 -0.716 1.189 0.480 0.047 -0.144 0.1816325051
  313. 166 0.017 -0.716 1.189 0.480 0.049 -0.144 0.1816295590
  314. 175 0.017 -0.716 1.189 0.480 0.049 -0.258 0.1812482422
  315. 176 0.017 -0.716 1.189 0.480 0.049 -0.211 0.1808579081
  316. 177 0.017 -0.716 1.189 0.480 0.049 -0.210 0.1808553024
  317. 178 0.017 -0.716 1.189 0.480 0.049 -0.200 0.1808404900
  318. 180 0.017 -0.716 1.189 0.480 0.049 -0.198 0.1808404695
  319. 181 0.017 -0.716 1.189 0.480 0.049 -0.197 0.1808401222
  320. 182 0.017 -0.716 1.189 0.480 0.049 -0.190 0.1808362096
  321. 186 0.017 -0.716 1.189 0.480 0.049 -0.191 0.1808355393
  322. 187 0.001 -0.357 0.985 0.700 0.061 -0.238 0.1722128821
  323. 194 0.003 -0.391 1.004 0.679 0.060 -0.233 0.1718116350
  324. 196 0.003 -0.383 1.000 0.684 0.060 -0.234 0.1717705390
  325. 206 -0.109 -0.383 1.000 0.684 0.060 -0.234 0.1709969041
  326. 221 -0.109 -0.383 1.000 0.684 0.060 -0.211 0.1702856055
  327. 222 -0.109 -0.383 1.000 0.684 0.060 -0.139 0.1688426579
  328. 225 -0.109 -0.383 1.000 0.684 0.060 -0.133 0.1687721311
  329. 226 -0.109 -0.383 1.000 0.684 0.060 -0.123 0.1687097224
  330. 236 -0.109 -0.383 0.737 0.684 0.060 -0.123 0.1573634780
  331. 239 -0.109 -0.383 0.734 0.684 0.060 -0.123 0.1573594472
  332. 249 -0.109 -0.383 0.734 0.860 0.060 -0.123 0.1490910204
  333. 251 -0.109 -0.383 0.734 0.840 0.060 -0.123 0.1490776266
  334. 253 -0.109 -0.383 0.734 0.849 0.060 -0.123 0.1490195326
  335. 254 -0.109 -0.383 0.734 0.848 0.060 -0.123 0.1490181004
  336. 263 -0.109 -0.383 0.734 0.848 0.033 -0.123 0.1486217550
  337. 264 -0.109 -0.383 0.734 0.848 0.024 -0.123 0.1486186896
  338. 265 -0.109 -0.383 0.734 0.848 0.028 -0.123 0.1486107347
  339. 267 -0.109 -0.383 0.734 0.848 0.029 -0.123 0.1486103046
  340. 275 -0.106 -0.453 0.774 0.806 0.027 -0.114 0.1481831611
  341. 289 -0.064 -0.453 0.774 0.806 0.027 -0.114 0.1481664275
  342. 290 -0.084 -0.453 0.774 0.806 0.027 -0.114 0.1480575169
  343. 301 -0.084 -0.453 0.774 0.806 0.027 -0.153 0.1477852686
  344. 302 -0.084 -0.453 0.774 0.806 0.027 -0.145 0.1477742506
  345. 303 -0.084 -0.453 0.774 0.806 0.027 -0.147 0.1477712237
  346. 304 -0.084 -0.453 0.774 0.806 0.027 -0.148 0.1477709643
  347. 312 -0.084 -0.453 0.586 0.806 0.027 -0.148 0.1405570570
  348. 314 -0.084 -0.453 0.592 0.806 0.027 -0.148 0.1405391024
  349. 315 -0.084 -0.453 0.599 0.806 0.027 -0.148 0.1405186979
  350. 320 -0.084 -0.453 0.598 0.806 0.027 -0.148 0.1405164413
  351. 322 -0.084 -0.453 0.597 0.806 0.027 -0.148 0.1405156542
  352. 329 -0.084 -0.453 0.597 0.938 0.027 -0.148 0.1372059596
  353. 332 -0.084 -0.453 0.597 0.953 0.027 -0.148 0.1372033284
  354. 333 -0.084 -0.453 0.597 0.945 0.027 -0.148 0.1371705124
  355. 336 -0.084 -0.453 0.597 0.944 0.027 -0.148 0.1371703173
  356. 346 -0.084 -0.453 0.597 0.944 0.055 -0.148 0.1363851946
  357. 347 -0.084 -0.453 0.597 0.944 0.062 -0.148 0.1363652232
  358. 348 -0.084 -0.453 0.597 0.944 0.061 -0.148 0.1363640171
  359. 356 -0.080 -0.533 0.643 0.895 0.058 -0.137 0.1347476246
  360. 357 -0.080 -0.533 0.643 0.895 0.058 -0.137 0.1347362534
  361. 358 -0.081 -0.516 0.633 0.906 0.059 -0.139 0.1346805271
  362. 360 -0.081 -0.522 0.637 0.902 0.059 -0.139 0.1346635519
  363. 361 -0.081 -0.521 0.636 0.902 0.059 -0.139 0.1346634868
  364. 363 -0.055 -0.590 0.498 0.999 0.091 -0.163 0.1306214095
  365. 370 -0.058 -0.581 0.516 0.987 0.087 -0.160 0.1305123469
  366. 371 -0.058 -0.581 0.516 0.987 0.087 -0.160 0.1305109192
  367. 372 -0.058 -0.583 0.512 0.989 0.087 -0.161 0.1305000663
  368. 374 -0.057 -0.583 0.511 0.990 0.088 -0.161 0.1304990943
  369. 384 -0.094 -0.583 0.511 0.990 0.088 -0.161 0.1303908439
  370. 385 -0.085 -0.583 0.511 0.990 0.088 -0.161 0.1303653723
  371. 386 -0.082 -0.583 0.511 0.990 0.088 -0.161 0.1303601038
  372. 388 -0.080 -0.583 0.511 0.990 0.088 -0.161 0.1303589313
  373. 389 -0.081 -0.583 0.511 0.990 0.088 -0.161 0.1303587661
  374. 397 -0.081 -0.583 0.511 0.990 0.088 -0.189 0.1302129309
  375. 398 -0.081 -0.583 0.511 0.990 0.088 -0.188 0.1302124721
  376. 399 -0.081 -0.583 0.511 0.990 0.088 -0.187 0.1302111751
  377. 409 -0.080 -0.590 0.515 0.986 0.087 -0.186 0.1300492376
  378. 411 -0.079 -0.617 0.530 0.970 0.087 -0.182 0.1298577719
  379. 412 -0.079 -0.610 0.526 0.974 0.087 -0.183 0.1298386809
  380. 415 -0.080 -0.607 0.524 0.976 0.087 -0.184 0.1298362414
  381. 416 -0.079 -0.607 0.525 0.975 0.087 -0.184 0.1298354730
  382. 417 -0.079 -0.608 0.525 0.975 0.087 -0.184 0.1298353065
  383. 425 -0.079 -0.608 0.525 0.948 0.087 -0.184 0.1294352107
  384. 427 -0.079 -0.608 0.525 0.951 0.087 -0.184 0.1294232040
  385. 430 -0.079 -0.608 0.525 0.952 0.087 -0.184 0.1294205362
  386. 438 -0.079 -0.608 0.525 0.952 0.063 -0.184 0.1290539386
  387. 439 -0.079 -0.608 0.525 0.952 0.054 -0.184 0.1289878445
  388. 440 -0.079 -0.608 0.525 0.952 0.037 -0.184 0.1289744422
  389. 441 -0.079 -0.608 0.525 0.952 0.044 -0.184 0.1289537906
  390. 442 -0.079 -0.608 0.525 0.952 0.045 -0.184 0.1289526990
  391. 449 -0.070 -0.634 0.472 0.989 0.057 -0.193 0.1289489272
  392. 450 -0.075 -0.621 0.498 0.970 0.051 -0.188 0.1284704510
  393. 452 -0.074 -0.621 0.498 0.971 0.051 -0.188 0.1284703164
  394. 465 -0.077 -0.621 0.498 0.971 0.051 -0.188 0.1284661953
  395. 466 -0.078 -0.621 0.498 0.971 0.051 -0.188 0.1284656516
  396. 475 -0.078 -0.621 0.498 0.971 0.051 -0.203 0.1283631135
  397. 476 -0.078 -0.621 0.498 0.971 0.051 -0.208 0.1283598454
  398. 480 -0.078 -0.621 0.498 0.971 0.051 -0.212 0.1283589260
  399. 481 -0.078 -0.621 0.498 0.971 0.051 -0.211 0.1283587004
  400. 482 -0.078 -0.621 0.498 0.971 0.051 -0.210 0.1283582946
  401. 491 -0.078 -0.619 0.497 0.972 0.051 -0.210 0.1283545845
  402. 492 -0.078 -0.619 0.497 0.972 0.051 -0.210 0.1283536503
  403. 502 -0.078 -0.619 0.497 0.963 0.051 -0.210 0.1282398325
  404. 505 -0.078 -0.619 0.497 0.958 0.051 -0.210 0.1282233966
  405. 516 -0.078 -0.619 0.497 0.958 0.043 -0.210 0.1281501180
  406. 518 -0.078 -0.619 0.497 0.958 0.039 -0.210 0.1281414781
  407. 519 -0.078 -0.619 0.497 0.958 0.038 -0.210 0.1281369757
  408. 520 -0.078 -0.619 0.497 0.958 0.034 -0.210 0.1281365397
  409. 522 -0.078 -0.619 0.497 0.958 0.035 -0.210 0.1281323452
  410. 530 -0.076 -0.624 0.486 0.966 0.038 -0.212 0.1280227170
  411. 531 -0.076 -0.626 0.482 0.968 0.039 -0.213 0.1280155175
  412. 532 -0.076 -0.626 0.483 0.968 0.039 -0.213 0.1280147430
  413. 533 -0.076 -0.626 0.484 0.968 0.038 -0.212 0.1280140471
  414. 537 -0.076 -0.626 0.483 0.968 0.038 -0.212 0.1280139666
  415. 548 -0.079 -0.626 0.483 0.968 0.038 -0.212 0.1280115701
  416. 549 -0.078 -0.626 0.483 0.968 0.038 -0.212 0.1280099384
  417. 550 -0.077 -0.626 0.483 0.968 0.038 -0.212 0.1280093167
  418. 559 -0.077 -0.626 0.483 0.968 0.038 -0.211 0.1280093009
  419. 569 -0.077 -0.619 0.480 0.972 0.039 -0.211 0.1279943915
  420. 571 -0.077 -0.620 0.480 0.971 0.039 -0.211 0.1279942885
  421. 581 -0.077 -0.620 0.480 0.966 0.039 -0.211 0.1279674828
  422. 582 -0.077 -0.620 0.480 0.967 0.039 -0.211 0.1279674502
  423. 592 -0.077 -0.620 0.480 0.967 0.038 -0.211 0.1279614525
  424. 593 -0.077 -0.620 0.480 0.967 0.034 -0.211 0.1279500962
  425. 595 -0.077 -0.620 0.480 0.967 0.033 -0.211 0.1279493426
  426. 603 -0.076 -0.623 0.473 0.972 0.034 -0.213 0.1279196292
  427. 605 -0.076 -0.623 0.474 0.971 0.034 -0.212 0.1279175584
  428. 606 -0.076 -0.623 0.474 0.970 0.034 -0.212 0.1279173460
  429. 610 -0.077 -0.620 0.465 0.973 0.029 -0.212 0.1278815070
  430. 617 -0.077 -0.620 0.466 0.973 0.030 -0.212 0.1278798259
  431. 623 -0.077 -0.620 0.466 0.973 0.030 -0.212 0.1278796220
  432. 636 -0.079 -0.620 0.466 0.973 0.030 -0.212 0.1278790959
  433. 638 -0.078 -0.620 0.466 0.973 0.030 -0.212 0.1278787608
  434. 646 -0.078 -0.620 0.466 0.973 0.030 -0.207 0.1278720852
  435. 657 -0.078 -0.621 0.467 0.972 0.030 -0.207 0.1278699518
  436. 680 -0.078 -0.621 0.467 0.972 0.031 -0.207 0.1278692602
  437. 688 -0.078 -0.620 0.466 0.973 0.031 -0.206 0.1278674976
  438. 694 -0.078 -0.620 0.466 0.973 0.031 -0.206 0.1278673395
  439. Powell done niters = 7
  440. Computing relative cost
  441. 0 -25.0 -25.0 -25.0 0.968830
  442. 1 -25.0 -25.0 25.0 1.022399
  443. 2 -25.0 25.0 -25.0 1.010376
  444. 3 -25.0 25.0 25.0 1.027400
  445. 4 25.0 -25.0 -25.0 1.051955
  446. 5 25.0 -25.0 25.0 1.018903
  447. 6 25.0 25.0 -25.0 1.019751
  448. 7 25.0 25.0 25.0 1.046903
  449. REL: 8 0.127867 8.166515 1.020814 rel = 0.12526
  450. Number of iterations 7
  451. Min cost was 0.127867
  452. Number of FunctionCalls 696
  453. TolPowell 0.000100
  454. nMaxItersPowell 36
  455. OptimizationTime 2.516000 sec
  456. Parameters at optimum (transmm) -0.07808 -0.62048 0.46589
  457. Parameters at optimum (rotdeg) 0.97265 0.03053 -0.20650
  458. Final costs ----------------
  459. Number of surface hits 2411
  460. WM Intensity 65.1866 +/- 11.3468
  461. Ctx Intensity 79.9800 +/- 13.1774
  462. Pct Contrast 20.3501 +/- 13.6723
  463. Cost 0.1279
  464. RelCost 0.4593
  465. Reg at min cost was
  466. 0.998 0.051 -0.029 0.075;
  467. 0.029 0.013 1.000 0.411;
  468. 0.051 -0.999 0.011 0.109;
  469. 0.000 0.000 0.000 1.000;
  470. Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat, type = 14
  471. Original Reg
  472. 0.998 0.051 -0.033 0.150;
  473. 0.033 -0.004 0.999 1.026;
  474. 0.051 -0.999 -0.006 -0.374;
  475. 0.000 0.000 0.000 1.000;
  476. Original Reg - Optimal Reg
  477. -0.000 0.000 -0.004 0.075;
  478. 0.004 -0.017 -0.000 0.615;
  479. -0.000 -0.000 -0.017 -0.483;
  480. 0.000 0.000 0.000 0.000;
  481. Computing change in lh position
  482. LH rmsDiffMean 1.517281
  483. Computing change in rh position
  484. Surface RMS Diff (mm) 1.555715 2.412896
  485. mri_segreg done
  486. mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5
  487. $Id: mri_segreg.c,v 1.103.2.1 2011/10/07 19:14:42 greve Exp $
  488. setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
  489. cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/scripts
  490. mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5
  491. sysname Linux
  492. hostname snake5
  493. machine x86_64
  494. user fkaule
  495. movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii
  496. regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat
  497. subject sub003
  498. dof 6
  499. outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat
  500. UseMask 0
  501. UseLH 1
  502. UseRH 1
  503. nsubsamp 1
  504. PenaltySign -1
  505. PenaltySlope 0.500000
  506. PenaltyCenter 0.000000
  507. surfname white
  508. GMProjFrac 0.500000
  509. WMProjAbs 2.000000
  510. lhcostfile (null)
  511. rhcostfile (null)
  512. interp trilinear (1)
  513. frame 0
  514. TolPowell 0.000000
  515. nMaxItersPowell 36
  516. n1dmin 3
  517. Profile 0
  518. Gdiag_no -1
  519. AddNoise 0 (0)
  520. SynthSeed 1376293067
  521. TransRandMax 0.000000
  522. RotRandMax 0.000000
  523. Translations 0.000000 0.000000 0.000000
  524. Rotations 0.000000 0.000000 0.000000
  525. Input reg
  526. 0.998 0.051 -0.029 0.075;
  527. 0.029 0.013 1.000 0.411;
  528. 0.051 -0.999 0.011 0.109;
  529. 0.000 0.000 0.000 1.000;
  530. Loading mov
  531. Projecting LH Surfs
  532. Loading lh.white surf
  533. Loading lh.thickness for GM
  534. GM Proj: 1 0.500000 2.000000
  535. WM Proj: 0 0.500000 2.000000
  536. Projecting RH Surfs
  537. Loading rh.white surf
  538. Loading rh.thickness
  539. Projecting RH Surfs
  540. Computing relative cost
  541. 0 -25.0 -25.0 -25.0 1.012628
  542. 1 -25.0 -25.0 25.0 1.010317
  543. 2 -25.0 25.0 -25.0 1.013781
  544. 3 -25.0 25.0 25.0 1.026243
  545. 4 25.0 -25.0 -25.0 1.035852
  546. 5 25.0 -25.0 25.0 1.031547
  547. 6 25.0 25.0 -25.0 1.028321
  548. 7 25.0 25.0 25.0 1.031602
  549. REL: 8 0.133532 8.190292 1.023786 rel = 0.130429
  550. Initial costs ----------------
  551. Number of surface hits 240423
  552. WM Intensity 64.9359 +/- 11.1877
  553. Ctx Intensity 79.7729 +/- 12.9062
  554. Pct Contrast 20.4782 +/- 13.8817
  555. Cost 0.1335
  556. RelCost 0.1304
  557. ------------------------------------
  558. Brute force preopt -0.1 0.1 0.1, n = 729
  559. 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.1323 0.1323 0.0
  560. 9 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 -0.1000 0.1284 0.1284 0.0
  561. 21 -0.1000 -0.1000 -0.1000 0.1000 0.0000 -0.1000 0.1280 0.1280 0.0
  562. 99 -0.1000 0.0000 -0.1000 0.1000 -0.1000 -0.1000 0.1271 0.1271 0.0
  563. Brute Force --------------------------
  564. Min cost was 0.127104
  565. Number of iterations 729
  566. Search time 2.645000 sec
  567. Parameters at best (transmm, rotdeg)
  568. -0.100 0.000 -0.100 0.100 -0.100 -0.100
  569. --------------------------------------------
  570. Starting Powell Minimization
  571. Init Powel Params dof = 6
  572. 0 -0.1
  573. 1 0
  574. 2 -0.1
  575. 3 0.1
  576. 4 -0.1
  577. 5 -0.1
  578. 7 -0.042 0.000 -0.100 0.100 -0.100 -0.100 0.1307987305
  579. 8 -0.030 0.000 -0.100 0.100 -0.100 -0.100 0.1307770674
  580. 9 -0.029 0.000 -0.100 0.100 -0.100 -0.100 0.1307765224
  581. 10 -0.027 0.000 -0.100 0.100 -0.100 -0.100 0.1307761312
  582. 11 -0.026 0.000 -0.100 0.100 -0.100 -0.100 0.1307759415
  583. 14 -0.025 0.000 -0.100 0.100 -0.100 -0.100 0.1307759274
  584. 22 -0.025 0.075 -0.100 0.100 -0.100 -0.100 0.1300930603
  585. 23 -0.025 0.070 -0.100 0.100 -0.100 -0.100 0.1300780848
  586. 24 -0.025 0.063 -0.100 0.100 -0.100 -0.100 0.1300697692
  587. 25 -0.025 0.064 -0.100 0.100 -0.100 -0.100 0.1300695851
  588. 33 -0.025 0.064 -0.191 0.100 -0.100 -0.100 0.1288568820
  589. 34 -0.025 0.064 -0.201 0.100 -0.100 -0.100 0.1288540792
  590. 35 -0.025 0.064 -0.197 0.100 -0.100 -0.100 0.1288519871
  591. 44 -0.025 0.064 -0.197 0.160 -0.100 -0.100 0.1282988494
  592. 45 -0.025 0.064 -0.197 0.152 -0.100 -0.100 0.1282747727
  593. 46 -0.025 0.064 -0.197 0.149 -0.100 -0.100 0.1282723798
  594. 47 -0.025 0.064 -0.197 0.148 -0.100 -0.100 0.1282721881
  595. 55 -0.025 0.064 -0.197 0.148 -0.038 -0.100 0.1277993515
  596. 57 -0.025 0.064 -0.197 0.148 -0.042 -0.100 0.1277987802
  597. 59 -0.025 0.064 -0.197 0.148 -0.040 -0.100 0.1277982290
  598. 67 -0.025 0.064 -0.197 0.148 -0.040 -0.034 0.1275387248
  599. 68 -0.025 0.064 -0.197 0.148 -0.040 -0.051 0.1274734378
  600. 69 -0.025 0.064 -0.197 0.148 -0.040 -0.055 0.1274698060
  601. 70 -0.025 0.064 -0.197 0.148 -0.040 -0.056 0.1274694474
  602. 80 -0.012 0.064 -0.197 0.148 -0.040 -0.056 0.1274541905
  603. 82 -0.014 0.064 -0.197 0.148 -0.040 -0.056 0.1274531144
  604. 91 -0.014 0.087 -0.197 0.148 -0.040 -0.056 0.1274297659
  605. 92 -0.014 0.079 -0.197 0.148 -0.040 -0.056 0.1274225386
  606. 93 -0.014 0.080 -0.197 0.148 -0.040 -0.056 0.1274222259
  607. 94 -0.014 0.081 -0.197 0.148 -0.040 -0.056 0.1274222185
  608. 103 -0.014 0.081 -0.231 0.148 -0.040 -0.056 0.1272575196
  609. 113 -0.014 0.081 -0.231 0.185 -0.040 -0.056 0.1271104372
  610. 114 -0.014 0.081 -0.231 0.176 -0.040 -0.056 0.1270789392
  611. 115 -0.014 0.081 -0.231 0.174 -0.040 -0.056 0.1270777567
  612. 124 -0.014 0.081 -0.231 0.174 -0.038 -0.056 0.1270736522
  613. 126 -0.014 0.081 -0.231 0.174 -0.036 -0.056 0.1270728425
  614. 135 -0.014 0.081 -0.231 0.174 -0.036 -0.045 0.1270528137
  615. 138 -0.004 0.099 -0.266 0.200 -0.031 -0.033 0.1269067538
  616. 145 -0.003 0.101 -0.270 0.204 -0.031 -0.032 0.1269045210
  617. 146 -0.003 0.101 -0.271 0.204 -0.031 -0.032 0.1269043616
  618. 148 -0.002 0.102 -0.272 0.205 -0.030 -0.031 0.1269041834
  619. 171 -0.002 0.106 -0.272 0.205 -0.030 -0.031 0.1269024512
  620. 173 -0.002 0.107 -0.272 0.205 -0.030 -0.031 0.1269023307
  621. 182 -0.002 0.107 -0.279 0.205 -0.030 -0.031 0.1268956505
  622. 183 -0.002 0.107 -0.280 0.205 -0.030 -0.031 0.1268956258
  623. 200 -0.002 0.107 -0.280 0.205 -0.039 -0.031 0.1268924465
  624. 201 -0.002 0.107 -0.280 0.205 -0.036 -0.031 0.1268905816
  625. 210 -0.004 0.104 -0.274 0.201 -0.037 -0.033 0.1268869372
  626. 216 -0.004 0.104 -0.273 0.200 -0.037 -0.033 0.1268869206
  627. 231 -0.002 0.104 -0.273 0.200 -0.037 -0.033 0.1268861339
  628. 247 -0.002 0.104 -0.275 0.200 -0.037 -0.033 0.1268854410
  629. 248 -0.002 0.104 -0.276 0.200 -0.037 -0.033 0.1268853028
  630. 274 -0.002 0.103 -0.275 0.200 -0.037 -0.034 0.1268852642
  631. 275 -0.002 0.103 -0.275 0.200 -0.037 -0.034 0.1268852221
  632. 331 -0.002 0.103 -0.275 0.200 -0.037 -0.034 0.1268851593
  633. 344 -0.003 0.103 -0.275 0.199 -0.037 -0.034 0.1268851469
  634. 350 -0.003 0.103 -0.275 0.199 -0.037 -0.034 0.1268851387
  635. 355 -0.003 0.103 -0.275 0.199 -0.037 -0.034 0.1268851321
  636. 356 -0.003 0.103 -0.275 0.199 -0.037 -0.034 0.1268851311
  637. 402 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268851099
  638. 404 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850452
  639. 413 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850423
  640. 414 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850316
  641. 418 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850312
  642. 474 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850109
  643. 530 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850104
  644. 531 -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.1268850093
  645. Powell done niters = 7
  646. Computing relative cost
  647. 0 -25.0 -25.0 -25.0 1.012531
  648. 1 -25.0 -25.0 25.0 1.011168
  649. 2 -25.0 25.0 -25.0 1.013170
  650. 3 -25.0 25.0 25.0 1.026299
  651. 4 25.0 -25.0 -25.0 1.036595
  652. 5 25.0 -25.0 25.0 1.032410
  653. 6 25.0 25.0 -25.0 1.028059
  654. 7 25.0 25.0 25.0 1.032638
  655. REL: 8 0.126885 8.192870 1.024109 rel = 0.123898
  656. Number of iterations 7
  657. Min cost was 0.126885
  658. Number of FunctionCalls 534
  659. TolPowell 0.000000
  660. nMaxItersPowell 36
  661. OptimizationTime 62.002000 sec
  662. Parameters at optimum (transmm) -0.00261 0.10287 -0.27464
  663. Parameters at optimum (rotdeg) 0.19921 -0.03618 -0.03386
  664. Final costs ----------------
  665. Number of surface hits 240423
  666. WM Intensity 64.9338 +/- 11.2144
  667. Ctx Intensity 79.7146 +/- 12.8242
  668. Pct Contrast 20.4261 +/- 13.7529
  669. Cost 0.1269
  670. RelCost 0.1304
  671. Reg at min cost was
  672. 0.998 0.052 -0.029 0.073;
  673. 0.028 0.016 0.999 0.513;
  674. 0.052 -0.999 0.015 -0.164;
  675. 0.000 0.000 0.000 1.000;
  676. Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat, type = 14
  677. Original Reg
  678. 0.998 0.051 -0.029 0.075;
  679. 0.029 0.013 1.000 0.411;
  680. 0.051 -0.999 0.011 0.109;
  681. 0.000 0.000 0.000 1.000;
  682. Original Reg - Optimal Reg
  683. 0.000 -0.001 -0.001 0.002;
  684. 0.001 -0.003 0.000 -0.102;
  685. -0.001 -0.000 -0.003 0.273;
  686. 0.000 0.000 0.000 0.000;
  687. Computing change in lh position
  688. LH rmsDiffMean 0.217297
  689. Computing change in rh position
  690. Surface RMS Diff (mm) 0.199717 0.396121
  691. mri_segreg done
  692. tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat --noedit --ltaout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.lta
  693. tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
  694. INFO: no target volume specified, assuming FreeSurfer orig volume.
  695. target volume orig
  696. movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz
  697. reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat
  698. LoadVol 0
  699. ZeroCRAS 0
  700. $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
  701. Diagnostic Level -1
  702. ---- Input registration matrix --------
  703. 0.998 0.052 -0.029 0.073;
  704. 0.028 0.016 0.999 0.513;
  705. 0.052 -0.999 0.015 -0.164;
  706. 0.000 0.000 0.000 1.000;
  707. float2int = 0
  708. ---------------------------------------
  709. INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig.mgz
  710. Ttarg: --------------------
  711. -1.000 0.000 0.000 128.000;
  712. 0.000 0.000 1.000 -128.000;
  713. 0.000 -1.000 0.000 128.000;
  714. 0.000 0.000 0.000 1.000;
  715. INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz
  716. Tmov: --------------------
  717. -0.700 0.000 0.000 95.894;
  718. 0.000 0.000 0.667 -128.000;
  719. 0.000 -0.667 0.000 128.000;
  720. 0.000 0.000 0.000 1.000;
  721. mkheaderreg = 0, float2int = 0
  722. ---- Input registration matrix --------
  723. 0.998 0.052 -0.029 0.073;
  724. 0.028 0.016 0.999 0.513;
  725. 0.052 -0.999 0.015 -0.164;
  726. 0.000 0.000 0.000 1.000;
  727. Determinant 1
  728. subject = sub003
  729. RegMat ---------------------------
  730. 0.998 0.052 -0.029 0.073;
  731. 0.028 0.016 0.999 0.513;
  732. 0.052 -0.999 0.015 -0.164;
  733. 0.000 0.000 0.000 1.000;
  734. transformed matrix:
  735. 1.000 -0.001 -0.002 -0.083;
  736. 0.001 1.000 0.003 -0.144;
  737. 0.002 -0.003 1.000 -0.430;
  738. 0.000 0.000 0.000 1.000;
  739. transformed matrix:
  740. 0.699 0.035 -0.019 29.283;
  741. -0.020 0.010 -0.666 257.303;
  742. -0.036 0.666 0.011 2.863;
  743. 0.000 0.000 0.000 1.000;
  744. Cleaning up
  745. Started at Thu Aug 8 21:35:33 CEST 2013
  746. Ended at Thu Aug 8 21:49:20 CEST 2013
  747. BBR-Run-Time-Sec 827
  748. bbregister Done
  749. To check results, run:
  750. tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat --surf