Hi Dave!
> But you do get the subsequent progress message: "Queuing post
> processing stage" ?
This is what I get:
(cpbedpost= copy of bedopostx for demonstration purpose)
[fsl@localhost s1]$ ll
total 8321
drwxrwxrwx 1 root root 0 Jan 2 14:52 bedpostx
drwxrwxrwx 1 root root 0 Jan 2 14:52 bedpostx.bedpostX
drwxrwxrwx 1 root root 0 Jan 7 18:18 cpbedpostx
drwxrwxrwx 1 root root 0 Jan 4 20:41 dtifit
drwxrwxrwx 1 root root 0 Dec 18 11:49 eddycurrent
-rwxrwxrwx 1 root root 17039712 Dec 17 11:47
VR_1_19_ep2d_diff_12dir_20051114.nii
[fsl@localhost s1]$ bedpostx_datacheck cpbedpostx/
cpbedpostx//data
data_type INT16
dim1 128
dim2 128
dim3 40
dim4 13
datatype 4
pixdim1 2.0000000000
pixdim2 2.0000000000
pixdim3 3.2999992371
pixdim4 1.0000000000
cal_max 0.0000
cal_min 0.0000
file_type NIFTI-1+
cpbedpostx//nodif_brain_mask
data_type INT16
dim1 128
dim2 128
dim3 40
dim4 1
datatype 4
pixdim1 2.0000000000
pixdim2 2.0000000000
pixdim3 3.2999992371
pixdim4 1.0000000000
cal_max 0.0000
cal_min 0.0000
file_type NIFTI-1+
num lines in cpbedpostx//bvals
1
num words in cpbedpostx//bvals
13
num lines in cpbedpostx//bvecs
3
num words in cpbedpostx//bvecs
39
[fsl@localhost s1]$ bedpostx ./cpbedpostx/ -n 2 -w 1 -b 1000
subjectdir is /mnt/hgfs/Windows/CHUV_2006/DTI/s1/cpbedpostx
Making bedpostx directory structure
Queuing preprocessing stages
Queuing parallel processing stage
0 slices processed
7 slices processed
11 slices processed
14 slices processed
16 slices processed
19 slices processed
21 slices processed
24 slices processed
27 slices processed
30 slices processed
33 slices processed
/usr/local/fsl/bin/bedpostx: line 204: 3406 Terminated
${subjdir}.bedpostX/monitor
Queuing post processing stage
[fsl@localhost s1]$ ll
total 8321
drwxrwxrwx 1 root root 0 Jan 2 14:52 bedpostx
drwxrwxrwx 1 root root 0 Jan 2 14:52 bedpostx.bedpostX
drwxrwxrwx 1 root root 0 Jan 7 22:50 cpbedpostx
drwxrwxrwx 1 root root 0 Jan 7 22:50 cpbedpostx.bedpostX
drwxrwxrwx 1 root root 0 Jan 4 20:41 dtifit
drwxrwxrwx 1 root root 0 Dec 18 11:49 eddycurrent
-rwxrwxrwx 1 root root 17039712 Dec 17 11:47
VR_1_19_ep2d_diff_12dir_20051114.nii
[fsl@localhost s1]$
Quoting Dave Flitney <[log in to unmask]>:
> But you do get the subsequent progress message: "Queuing post
> processing stage" ?
>
> On 7 Jan 2008, at 15:10, Markus Gschwind wrote:
>
>>> Could you let me know which OS and FSL version you're using?
>>
>> In my case (I get this error messages regularely): CentOS_5_32 and
>> FSL 4.0.2.
>>
>> Thanks for your great work!
>> Markus
>>
>> Quoting Dave Flitney <[log in to unmask]>:
>>
>>> Lucia,
>>>
>>> Not sure what has gone wrong here. The message is about stopping the
>>> sub-task which generates the progress messages so I'm hoping it isn't
>>> serious. I'll investigate... ah, when there's no SGE bedpostx kills a
>>> background monitor task just before the "Queuing post processing
>>> stage" message. If this message is appearing then I'm happy that the
>>> task is completing okay. If not, let me know ASAP.
>>>
>>> In future I'll try to make sure this doesn't happen. Could you let me
>>> know which OS and FSL version you're using?
>>>
>>>
>>> On 7 Jan 2008, at 14:26, Lucia Garrido wrote:
>>>
>>>> Hello,
>>>>
>>>> I ran bedpostX and at the end it gave this error:
>>>> Errors: /home/fsl/Desktop/fsl/bin/bedpostx: line 207: 24467 Terminated $
>>>> {subjdir}.bedpostx/monitor
>>>>
>>>> I'd be very grateful if someone could let me know what might
>>>> have gone wrong
>>>> and how to deal it.
>>>>
>>>> Thank you very much,
>>>>
>>>> Lucia
>>>>
>>>
>>> --
>>> Cheers, Dave
>>>
>>> Dave Flitney, IT Manager
>>> Oxford Centre for Functional MRI of the Brain
>>> E:[log in to unmask] W:+44-1865-222713 F:+44-1865-222717
>>> URL: http://www.fmrib.ox.ac.uk/~flitney
>>
>>
>>
>> --
>>
>> Dr. med. Markus Gschwind, M.D.
>> Laboratory for Neurology and Imaging of Cognition
>> Dept of Neurosciences
>> University Medical Center (CMU)
>> 1 Michel-Servet - 1211 GENEVA - CH
>>
>> Tel 0041 (0) 22 379 5324
>> Fax 0041 (0) 22 379 5402
>> email: [log in to unmask]
>> http://labnic.unige.ch
>>
>
> --
> Cheers, Dave
>
> Dave Flitney, IT Manager
> Oxford Centre for Functional MRI of the Brain
> E:[log in to unmask] W:+44-1865-222713 F:+44-1865-222717
> URL: http://www.fmrib.ox.ac.uk/~flitney
--
Dr. med. Markus Gschwind, M.D.
Laboratory for Neurology and Imaging of Cognition
Dept of Neurosciences
University Medical Center (CMU)
1 Michel-Servet - 1211 GENEVA - CH
Tel 0041 (0) 22 379 5324
Fax 0041 (0) 22 379 5402
email: [log in to unmask]
http://labnic.unige.ch
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