 |
 |
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