I apply fslstats -R .../DWI1_rescaled and it throws:
** ERROR (nifti_image_read): failed to find header file for '-R'
** ERROR: nifti_image_open(-R): bad header info
Error: failed to open file -R
ERROR: Could not open image -R
Image Exception : #22 :: Failed to read volume -R
what does this mean?
thanks,
Julio
On Feb 23 2010, David Flitney wrote:
> I make that roughly 10G in size? Are your computers 64bit? Although
> that's big there's no defined limit in fslview and I'm a little
> suspicious about the "bad header info" message. I wouldn't expect to see
> that if you're running out of RAM. What does "fslstats -R DWI1_rescaled"
> say?
>
>On 23 Feb 2010, at 17:25, Julio Duarte wrote:
>
>> Using flirt in command mode (no optimize: -applyxfm and use s-form:
>> -usesqform) I was able to align a big DWI image to its corresponding T1
>> (higher resolution) image using the s-form info. However, the generated
>> image cannot be read by FSLVIew, which throws the following error:
>>
>> ** ERROR: nifti_image_open(.../fsl/data/DWI1/DWI1_rescaled): bad header
>> info
>> Error: failed to open file .../fsl/data/DWI1/DWI1_rescaled
>> terminate called after throwing an instance of 'Image::Exception'
>> what(): Failed to open file .../fsl/data/DWI1/DWI1_rescaled
>> .../fsl/bin/fslview: line 7: 898 Abort trap
>> ${FSLDIR}/bin/fslview.app/Contents/MacOS/fslview $@
>>
>> (I added the "..." to avoid providing here the full path)
>>
>> However, the header seems to be fine, as read by the nifti1_test and
>> fslcorrecthd utilities:
>> could it be its huge size??? I can load this image using slicer 3D
>> (although
>> it probably reads only the first volume). This happens on my laptop and
>> also
>> on a cluster.
>>
>> <nifti_image
>> nifti_type = 'NIFTI-1+'
>> header_filename =
>> '/Users/shirleymorillo/Desktop/fsl/data/DWI1_rescaled.nii.gz'
>> image_filename =
>> '/Users/shirleymorillo/Desktop/fsl/data/DWI1_rescaled.nii.gz'
>> image_offset = '352'
>> ndim = '4'
>> nx = '208'
>> ny = '256'
>> nz = '176'
>> nt = '301'
>> dx = '1'
>> dy = '1'
>> dz = '1'
>> dt = '1'
>> datatype = '16'
>> datatype_name = 'FLOAT32'
>> nvox = '2820866048'
>> nbyper = '4'
>> byteorder = 'LSB_FIRST'
>> scl_slope = '1'
>> scl_inter = '0'
>> xyz_units = '2'
>> xyz_units_name = 'mm'
>> time_units = '8'
>> time_units_name = 's'
>> descrip = 'FSL4.0'
>> qform_code = '1'
>> qform_code_name = 'Scanner Anat'
>> qto_xyz_matrix = '0 0 1 -90.4148 -1 0 -0 124.62 0 1 -0 -149.787 0 0 0 1'
>> qto_ijk_matrix = '-0 -1 0 124.62 0 0 1 149.787 1 -0 -0 90.4148 0 0 0 1'
>> quatern_b = '0.5'
>> quatern_c = '-0.5'
>> quatern_d = '-0.5'
>> qoffset_x = '-90.4148'
>> qoffset_y = '124.62'
>> qoffset_z = '-149.787'
>> qfac = '-1'
>> qform_i_orientation = 'Anterior-to-Posterior'
>> qform_j_orientation = 'Inferior-to-Superior'
>> qform_k_orientation = 'Left-to-Right'
>> sform_code = '1'
>> sform_code_name = 'Scanner Anat'
>> sto_xyz_matrix = '0 0 1 -90.4148 -1 0 0 124.62 0 1 0 -149.787 0 0 0 1'
>> sto_ijk matrix = '-0 -1 -0 124.62 -0 -0 1 149.787 1 -0 -0 90.4148 0 0
>> 0 1'
>> sform_i_orientation = 'Anterior-to-Posterior'
>> sform_j_orientation = 'Inferior-to-Superior'
>> sform_k_orientation = 'Left-to-Right'
>> num_ext = '0'
>> />
>>
>
>
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