Dear FSL experts,
I have some difficulties with running bedpostX on my DTI data. Data has been acquired on a clinical Philips Achieva 3 Tesla. DTI images utilised 64 optimal nonlinear diffusion weighting directions (b = 1000 s/mm2) and 1 non-diffusion weighted volume.
The preprocessing done before running bedpostX includes dicom to nifti conversion, eddy_correct, and bet on nodif data.
The error message I received after some hours of bedpost processing was: For some reason the bedpostX process DOES NOT appear to have successfully completed. Please examine your results carefully.
However, when running datacheck everything seems to be alright. The dtifit process was ok, as well.
Please find below the files after completing bedpostX, the output of datacheck, and the process log.
Thanks in advance.
Regards,
FT
Files present after bedpostX is done
bvals
bvecs
commands.txt
dyads1_dispersion.nii.gz
dyads1.nii.gz
dyads2_dispersion.nii.gz
dyads2.nii.gz
dyads2_thr0.05.nii.gz
logs
mean_dsamples.nii.gz
mean_f1samples.nii.gz
mean_f2samples.nii.gz
mean_fsumsamples.nii.gz
mean_ph1samples.nii.gz
mean_ph2samples.nii.gz
mean_S0samples.nii.gz
mean_th1samples.nii.gz
mean_th2samples.nii.gz
merged_f1samples.nii.gz
merged_f2samples.nii.gz
merged_ph1samples.nii.gz
merged_ph2samples.nii.gz
merged_th1samples.nii.gz
merged_th2samples.nii.gz
monitor
nodif_brain_mask.nii.gz
Processing stage of bedpostX
Making bedpostx directory structure
Queuing preprocessing stages
Queuing parallel processing stage
0 slices processed
0 slices processed
0 slices processed
1 slices processed
1 slices processed
2 slices processed
2 slices processed
3 slices processed
…
…
58 slices processed
59 slices processed
59 slices processed
60 slices processed
61 slices processed
62 slices processed
63 slices processed
Queuing post processing stage
70 slices processed
For some reason the bedpostX process DOES NOT appear
to have successfully completed. Please examine your
results carefully.
/usr/local/fsl/bin/bedpostx: line 290: kill: (4781) - No such process> Data check
[fsl@fslvm6 prova_trac]$ bedpostx_datacheck 071
071/data
data_type INT16
dim1 224
dim2 224
dim3 70
dim4 65
datatype 4
pixdim1 1.000000
pixdim2 1.000000
pixdim3 1.500000
pixdim4 8.837000
cal_max 0.0000
cal_min 0.0000
file_type NIFTI-1+
071/nodif_brain_mask
data_type INT16
dim1 224
dim2 224
dim3 70
dim4 1
datatype 4
pixdim1 1.000000
pixdim2 1.000000
pixdim3 1.500000
pixdim4 1.000000
cal_max 0.0000
cal_min 0.0000
file_type NIFTI-1+
num lines in 071/bvals
1
num words in 071/bvals
65
num lines in 071/bvecs
3
num words in 071/bvecs
195
|