Hi Anastasia,

I am getting the following error when running trac-all –paths on all of my diffusion images using the newly updated TRACULA:

vlogin03.ls5(97)$ /work/04171/dpisner/stampede/Applications/freesurfer/bin/trac-all -no-isrunning -path -c /work/04171/dpisner/data/ABM/TRACULA/tractography_output/s002/trac_config.txt

niiRead(): NIFTI_UNITS_UNKNOWN, assuming mm

WARNING: niiRead(): unknown time units 0 in /work/04171/dpisner/data/ABM/TRACULA/tractography_output/s002/dmri/dwi.nii.gz

 

Any idea what’s going on here?

 

Thanks as always,

 

Derek Pisner

Doctoral Student

CLA 4.600

Mood Disorders Laboratory (MDL)

Department of Psychology | The University of Texas at Austin

 

P.S. Here is the header information on my dwi.nii.gz file:

vlogin03.ls5(105)$ fslhd dwi.nii.gz

filename       dwi.nii.gz

sizeof_hdr     348

data_type      FLOAT32

dim0           4

dim1           115

dim2           115

dim3           56

dim4           55

dim5           1

dim6           1

dim7           1

vox_units      Unknown

time_units     Unknown

datatype       16

nbyper         4

bitpix         32

pixdim0        0.000000

pixdim1        2.000000

pixdim2        2.000000

pixdim3        2.000000

pixdim4        1.000000

pixdim5        1.000000

pixdim6        1.000000

pixdim7        1.000000

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     Unknown

qform_code     0

qto_xyz:1      2.000000  0.000000  0.000000  0.000000

qto_xyz:2      0.000000  2.000000  0.000000  0.000000

qto_xyz:3      0.000000  0.000000  2.000000  0.000000

qto_xyz:4      0.000000  0.000000  0.000000  1.000000

qform_xorient  Left-to-Right

qform_yorient  Posterior-to-Anterior

qform_zorient  Inferior-to-Superior

sform_name     Aligned Anat

sform_code     2

sto_xyz:1      -2.000000  0.000000  0.000000  114.551003

sto_xyz:2      0.000000  2.000000  0.000000  -74.456001

sto_xyz:3      0.000000  0.000000  2.000000  -0.960182

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

--