How did you convert the files to nifti? Can you upload an example
NIFTI file (and the the original ANALYZE files) to
http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
and let us know the 6 digit reference number?
Thanks
Matthew
> regarding nifti problem posn error
> Here's what I get:
>
>
> fslstats net1 -r -R
> ** WARNING: posn not header size (0, 348)
> 0.464809 914.370178 -16512.000000 31457.000000
>
>
>
> fslhd net1.nii.gz
> ** WARNING: posn not header size (0, 348)
> filename net1.nii.gz
>
> sizeof_hdr 348
> data_type INT16
> dim0 4
> dim1 64
> dim2 64
> dim3 28
> dim4 100
> dim5 1
> dim6 1
> dim7 1
> vox_units mm
> time_units s
> datatype 4
> nbyper 2
> bitpix 16
> pixdim0 0.0000000000
> pixdim1 3.1250000000
> pixdim2 3.1250000000
> pixdim3 3.9900000095
> pixdim4 1.0000000000
> pixdim5 0.0000000000
> pixdim6 0.0000000000
> pixdim7 0.0000000000
> vox_offset 352
> cal_max 1923.0000
> 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 Aligned Anat
> qform_code 2
> qto_xyz:1 -3.125000 0.000000 -0.000000 96.875000
> qto_xyz:2 0.000000 3.125000 -0.000000 -96.875000
> qto_xyz:3 0.000000 0.000000 3.990000 -51.869999
> 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 Aligned Anat
> sform_code 2
> sto_xyz:1 -3.125000 0.000000 0.000000 96.875000
> sto_xyz:2 0.000000 3.125000 0.000000 -96.875000
> sto_xyz:3 0.000000 0.000000 3.990000 -51.869999
> 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 FSL4.0
> aux_file
>
> If I do fslhd on the analyze version of the file, I get:
>
> fslhd net_func_axial_6
>
> filename net_func_axial_6
>
> sizeof_hdr 348
> data_type dsr
> db_name net_func_axial_6
> extents 16384
> session_error 0
> regular r
> hkey_un0
> dim0 4
> dim1 64
> dim2 64
> dim3 28
> dim4 100
> dim5 0
> dim6 0
> dim7 0
> vox_units mm
> cal_units
> unused1 0
> datatype 4
> bitpix 16
> pixdim0 4.0000000000
> pixdim1 3.1250000000
> pixdim2 3.1250000000
> pixdim3 3.9900000095
> pixdim4 1.0000000000
> pixdim5 0.0000000000
> pixdim6 0.0000000000
> pixdim7 0.0000000000
> vox_offset 0.0000
> funused1 1.0000
> funused2 0.0000
> funused3 0.0000
> cal_max 1963.0000
> cal_min 0.0000
> compressed 0
> verified 0
> glmax 1963
> glmin 0
> descrip Bookheimer^NET
> aux_file
> orient 0
> originator
> origin1 0
> origin2 0
> origin3 0
> generated (X)MedCon
> scannum 1
> patient_id net_s1_1
> exp_date
> exp_time
> hist_un0
> views 0
> vols_added 0
> start_field 0
> field_skip 0
> omax 0
> omin 0
> smin 0
> smin 0
> file_type ANALYZE-7.5
> file_code 0
>
|