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ds000114
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freesurfer-6.0.1
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sub-10
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mri
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mri_nu_correct.mni.log.bak

mri_nu_correct.mni.log.bak 4.6 KB
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  1. /corral-repl/utexas/poldracklab/data/OpenNeuro/ds000114/derivatives/freesurfer-6.0.1/sub-10/mri
    2. 

  2. /opt/freesurfer/bin/mri_nu_correct.mni
    3. 

  3. --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50
    4. 

  4. nIters 1
    5. 

  5. $Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $
    6. 

  6. Linux nid00780 4.4.103-6.38_4.0.95-cray_ari_c #1 SMP Fri Feb 9 17:52:44 UTC 2018 (172b90b) x86_64 x86_64 x86_64 GNU/Linux
    7. 

  7. Wed Oct 16 15:51:53 UTC 2019
    8. 

  8. Program nu_correct, built from:
    9. 

  9. Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
    10. 

  10. tmpdir is ./tmp.mri_nu_correct.mni.19475
    11. 

  11. /corral-repl/utexas/poldracklab/data/OpenNeuro/ds000114/derivatives/freesurfer-6.0.1/sub-10/mri
    12. 

  12. mri_convert orig.mgz ./tmp.mri_nu_correct.mni.19475/nu0.mnc -odt float
    13. 

  13. mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.19475/nu0.mnc -odt float 
    14. 

  14. $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
    15. 

  15. reading from orig.mgz...
    16. 

  16. TR=9.68, TE=0.00, TI=0.00, flip angle=0.00
    17. 

  17. i_ras = (-1, -2.09548e-09, 0)
    18. 

  18. j_ras = (0, 0, -1)
    19. 

  19. k_ras = (2.32831e-10, 1, 0)
    20. 

  20. changing data type from uchar to float (noscale = 0)...
    21. 

  21. writing to ./tmp.mri_nu_correct.mni.19475/nu0.mnc...
    22. 

  22.  
    23. 

  23. --------------------------------------------------------
    24. 

  24. Iteration 1 Wed Oct 16 15:51:54 UTC 2019
    25. 

  25. nu_correct -clobber ./tmp.mri_nu_correct.mni.19475/nu0.mnc ./tmp.mri_nu_correct.mni.19475/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.19475/0/ -iterations 1000 -distance 50
    26. 

  26. [oesteban@nid00780:/corral-repl/utexas/poldracklab/data/OpenNeuro/ds000114/derivatives/freesurfer-6.0.1/sub-10/mri/] [2019-10-16 15:51:54] running:
    27. 

  27.   /opt/freesurfer/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 1000 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 50 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.19475/0/ ./tmp.mri_nu_correct.mni.19475/nu0.mnc ./tmp.mri_nu_correct.mni.19475/nu1.imp
    28. 

  28. 

  29. Processing:.................................................................Done
    30. 

  30. Processing:.................................................................Done
    31. 

  31. Processing:.................................................................Done
    32. 

  32. Processing:.................................................................Done
    33. 

  33. Processing:.................................................................Done
    34. 

  34. Processing:.................................................................Done
    35. 

  35. Processing:.................................................................Done
    36. 

  36. Processing:.................................................................Done
    37. 

  37. Processing:.................................................................Done
    38. 

  38. Processing:.................................................................Done
    39. 

  39. Processing:.................................................................Done
    40. 

  40. Processing:.................................................................Done
    41. 

  41. Processing:.................................................................Done
    42. 

  42. Processing:.................................................................Done
    43. 

  43. Processing:.................................................................Done
    44. 

  44. Processing:.................................................................Done
    45. 

  45. Processing:.................................................................Done
    46. 

  46. Processing:.................................................................Done
    47. 

  47. Processing:.................................................................Done
    48. 

  48. Processing:.................................................................Done
    49. 

  49. Processing:.................................................................Done
    50. 

  50. Processing:.................................................................Done
    51. 

  51. Processing:.................................................................Done
    52. 

  52. Processing:.................................................................Done
    53. 

  53. Processing:.................................................................Done
    54. 

  54. Number of iterations: 25 
    55. 

  55. CV of field change: 0.000973579
    56. 

  56.  
    57. 

  57.  
    58. 

  58.  
    59. 

  59. mri_convert ./tmp.mri_nu_correct.mni.19475/nu1.mnc orig_nu.mgz --like orig.mgz --conform
    60. 

  60. mri_convert.bin ./tmp.mri_nu_correct.mni.19475/nu1.mnc orig_nu.mgz --like orig.mgz --conform 
    61. 

  61. $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
    62. 

  62. reading from ./tmp.mri_nu_correct.mni.19475/nu1.mnc...
    63. 

  63. TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
    64. 

  64. i_ras = (-1, -2.09548e-09, 0)
    65. 

  65. j_ras = (0, 0, -1)
    66. 

  66. k_ras = (2.32831e-10, 1, 0)
    67. 

  67. INFO: transform src into the like-volume: orig.mgz
    68. 

  68. changing data type from float to uchar (noscale = 0)...
    69. 

  69. MRIchangeType: Building histogram 
    70. 

  70. writing to orig_nu.mgz...
    71. 

  71.  
    72. 

  72.  
    73. 

  73. Wed Oct 16 15:52:42 UTC 2019
    74. 

  74. mri_nu_correct.mni done
    75.