Dear FSL Experts
To apply "eddy" on diffusion images, I use "fslmerge" according to the procedure explained in fslwiki. Although all of my data was acquired in a same way, I get the following warning for some of them.
fslmerge -t A2P_P2A_B0 A2P_B0 HARDI_B0
WARNING:: Inconsistent orientations for individual images when attempting to merge.
Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*!
I checked the fslhd for the two images (A2P_B0, HARDI_B0) and as it can be found in the attachments, all qform and sform orientations are the same. Since I get this warning for some of date, I'm wondering what is wrong and how I could fix it.
I really appreciate your kind help.
Best Regards
Farzaneh
filename A2P_B0.nii.gz
sizeof_hdr 348
data_type INT16
dim0 3
dim1 128
dim2 128
dim3 68
dim4 1
dim5 1
dim6 1
dim7 1
vox_units mm
time_units s
datatype 4
nbyper 2
bitpix 16
pixdim0 0.000000
pixdim1 2.000000
pixdim2 2.000000
pixdim3 2.000000
pixdim4 9.000000
pixdim5 0.000000
pixdim6 0.000000
pixdim7 0.000000
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 -1.994661 0.048748 0.137660 123.276016
qto_xyz:2 -0.022610 1.759467 -0.950665 -84.046516
qto_xyz:3 0.144275 0.949684 1.754219 -87.032860
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 -1.994661 0.048748 0.137663 123.276016
sto_xyz:2 -0.022610 1.759467 -0.950665 -84.046516
sto_xyz:3 0.144278 0.949684 1.754219 -87.032860
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
filename HARDI_B0.nii
sizeof_hdr 348
data_type INT16
dim0 3
dim1 128
dim2 128
dim3 68
dim4 1
dim5 1
dim6 1
dim7 1
vox_units mm
time_units s
datatype 4
nbyper 2
bitpix 16
pixdim0 0.000000
pixdim1 2.000000
pixdim2 2.000000
pixdim3 2.000000
pixdim4 9.000000
pixdim5 1.000000
pixdim6 1.000000
pixdim7 45718.199219
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 -1.995257 -0.000000 0.137661 126.385292
qto_xyz:2 -0.065591 1.758389 -0.950665 -81.227844
qto_xyz:3 0.121031 0.952925 1.754219 -85.749336
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 -1.995257 0.000000 0.137663 126.385292
sto_xyz:2 -0.065591 1.758389 -0.950665 -81.227844
sto_xyz:3 0.121032 0.952925 1.754219 -85.749336
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
aux_file
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