Hi FSL experts,
Am I experiencing a strange local bug, or is it expected that fslview
and fslmeants may differ in how they translate mm coordinates to voxel
coordinates?
For a native-space RPI NIFTI test image (fslhd output below), fslview
translates mm 0, 0, 0 to voxel 24, 27, 40. fslmeants disagrees,
translating it to voxel 25, 28, 40.
Digging deeper I see that the voxel output from std2imgcoord is 24.5,
27.6122, 40.1939. Truncating those produces the fslview coordinates,
while rounding them produces the fslmeants coordinate.
FWIW, AFNI's GUI and 3dmaskdump agree with each other, while
disagreeing with both fslview and fslmeants (screenshot:
http://goo.gl/oYYco ).
No problems with voxel->mm for this image.
Any ideas?
Thank you,
Stephen
Neurodebian FSL 5.0.2 on 3.2.0-39-generic #62-Ubuntu SMP Thu Feb 28
00:28:53 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux
filename /tmp/run1_mosaic_pipeline1.nii.gz
sizeof_hdr 348
data_type INT16
dim0 4
dim1 50
dim2 74
dim3 74
dim4 71
dim5 1
dim6 1
dim7 1
vox_units mm
time_units s
datatype 4
nbyper 2
bitpix 16
pixdim0 0.0000000000
pixdim1 3.0000000000
pixdim2 2.9729728699
pixdim3 2.9729728699
pixdim4 5.8000001907
pixdim5 0.0000000000
pixdim6 0.0000000000
pixdim7 0.0000000000
vox_offset 352
cal_max 0.0000
cal_min 0.0000
scl_slope 1.000000
scl_inter 0.000000
phase_dim 0
freq_dim 0
slice_dim 0
slice_name Unknown
slice_code 0
slice_start 0
slice_end 0
slice_duration 0.000000
time_offset 0.000000
intent Unknown
intent_code 0
intent_name
intent_p1 0.000000
intent_p2 0.000000
intent_p3 0.000000
qform_name Scanner Anat
qform_code 1
qto_xyz:1 -3.000000 0.000000 -0.000000 73.500000
qto_xyz:2 0.000000 2.972973 -0.000000 -82.090347
qto_xyz:3 0.000000 0.000000 2.972973 -119.495377
qto_xyz:4 0.000000 0.000000 0.000000 1.000000
qform_xorient Right-to-Left
qform_yorient Posterior-to-Anterior
qform_zorient Inferior-to-Superior
sform_name Scanner Anat
sform_code 1
sto_xyz:1 -3.000000 0.000000 0.000000 73.500000
sto_xyz:2 0.000000 2.972973 0.000000 -82.090347
sto_xyz:3 0.000000 0.000000 2.972973 -119.495377
sto_xyz:4 0.000000 0.000000 0.000000 1.000000
sform_xorient Right-to-Left
sform_yorient Posterior-to-Anterior
sform_zorient Inferior-to-Superior
file_type NIFTI-1+
file_code 1
descrip FSL5.0
aux_file
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