Sorry i am unable to attach the screenshot from the terminal window.
Regards,
Divesh Thaploo
Smell and Taste Clinic
Dept of ORL, Carl Gustav Carus
TU Dresden, Germany
+49 177 4236 487
Skype-ID: dthaploo
On Wed, Nov 13, 2019 at 8:56 PM Divesh Thaploo <[log in to unmask]> wrote:
>
> Hello Mathew
>
> There is only one error which fslvbm2b.e says segmentation fault (core dumped). No error in 2b.o file. Those files are empty.
>
> Divesh Thaploo
> Smell and Taste Clinic
> Dept of ORL, TU Dresden
> Germany
>
> On Wed, Nov 13, 2019, 2:11 PM Matthew Webster <[log in to unmask]> wrote:
>>
>> Hello,
>> This would imply that the fslvbm2b step had failed - can you double check that the fslvbm2b .o and .e files don’t contain any messages?
>>
>> Kind Regards
>> Matthew
>> --------------------------------
>> Dr Matthew Webster
>> FMRIB Centre
>> John Radcliffe Hospital
>> University of Oxford
>>
>> On 12 Nov 2019, at 20:21, Divesh Thaploo <[log in to unmask]> wrote:
>>
>> I mean to say of the two files you asked, only of it is present.
>>
>> Divesh Thaploo
>> Smell and Taste Clinic
>> Dept of ORL, TU Dresden
>> Germany
>>
>> On Tue, Nov 12, 2019, 8:10 PM Divesh Thaploo <[log in to unmask]> wrote:
>>>
>>> Hello
>>>
>>> There is only one file _struc_GM. Not the other one.
>>>
>>> Divesh Thaploo
>>> Smell and Taste Clinic
>>> Dept of ORL, TU Dresden
>>> Germany
>>>
>>> On Tue, Nov 12, 2019, 6:00 PM Matthew Webster <[log in to unmask]> wrote:
>>>>
>>>> Hello,
>>>> For each file in your template_list, can you confirm that there is a file called
>>>>
>>>> <originalname>_struc_GM and <originalname>_struc_GM_to_T in the struc sub-directory?
>>>>
>>>> Kind Regards
>>>> Matthew
>>>> --------------------------------
>>>> Dr Matthew Webster
>>>> FMRIB Centre
>>>> John Radcliffe Hospital
>>>> University of Oxford
>>>>
>>>> On 12 Nov 2019, at 16:51, Divesh Thaploo <[log in to unmask]> wrote:
>>>>
>>>> The error is actually in fslswapdim.
>>>>
>>>> Divesh Thaploo
>>>> Smell and Taste Clinic
>>>> Dept of ORL, TU Dresden
>>>> Germany
>>>>
>>>> On Tue, Nov 12, 2019, 5:50 PM Divesh Thaploo <[log in to unmask]> wrote:
>>>>>
>>>>> Hello
>>>>> No there is no other error.
>>>>>
>>>>> Divesh Thaploo
>>>>> Smell and Taste Clinic
>>>>> Dept of ORL, TU Dresden
>>>>> Germany
>>>>>
>>>>> On Tue, Nov 12, 2019, 5:36 PM Matthew Webster <[log in to unmask]> wrote:
>>>>>>
>>>>>> Hello,
>>>>>> Are there any error messages in the *.e* and *.o* log files for the fslvbm sub jobs?
>>>>>> Kind Regards
>>>>>> Matthew
>>>>>> --------------------------------
>>>>>> Dr Matthew Webster
>>>>>> FMRIB Centre
>>>>>> John Radcliffe Hospital
>>>>>> University of Oxford
>>>>>>
>>>>>> On 12 Nov 2019, at 15:26, Divesh Thaploo <[log in to unmask]> wrote:
>>>>>>
>>>>>> Hello FSL
>>>>>> The error is consistent with smaller no of subjects as well.
>>>>>> It says
>>>>>>
>>>>>> unning segmentation: ID=64663
>>>>>> Running initial registration: ID=64926
>>>>>>
>>>>>> Image Exception : #63 :: No image files match: 1_002_s_####_struc_GM_to_T
>>>>>> libc++abi.dylib: terminating with uncaught exception of type
>>>>>> std::runtime_error: No image files match: 1_002_s_####_struc_GM_to_T
>>>>>> ./fslvbm2c: line 13: 68739 Abort trap: 6
>>>>>> $FSLDIR/bin/fslmerge -t template_4D_GM $mergelist
>>>>>> and it continues.
>>>>>>
>>>>>> Regards,
>>>>>> Divesh Thaploo
>>>>>> Smell and Taste Clinic
>>>>>> Dept of ORL, Carl Gustav Carus
>>>>>> TU Dresden, Germany
>>>>>> +49 177 4236 487
>>>>>> Skype-ID: dthaploo
>>>>>>
>>>>>> On Tue, Nov 12, 2019 at 10:36 AM Divesh Thaploo <[log in to unmask]> wrote:
>>>>>>
>>>>>>
>>>>>> Hello
>>>>>>
>>>>>> I have 4 groups with different no of subjects. i created template_list based on lowest no of subjects in one of the group. fslvbm_1_bet works fine. but fslvbm_2_template creates error. The error says no image file matches template_GM
>>>>>>
>>>>>> Any help would be appreciated. Meanwhile i will re run with smaller group just to see whether it works or not.
>>>>>> Note: The name of patients is in order like, 10,11,12,13,14,15,16,17,18,19,1,20,2,3,4,5,6,7,8,9.
>>>>>>
>>>>>>
>>>>>>
>>>>>> ########################################################################
>>>>>>
>>>>>> To unsubscribe from the FSL list, click the following link:
>>>>>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>>>>>>
>>>>>>
>>>>>>
>>>>>> ________________________________
>>>>>>
>>>>>> To unsubscribe from the FSL list, click the following link:
>>>>>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>>>>
>>>>
>>>> ________________________________
>>>>
>>>> To unsubscribe from the FSL list, click the following link:
>>>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>>>>
>>>>
>>>>
>>>> ________________________________
>>>>
>>>> To unsubscribe from the FSL list, click the following link:
>>>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>>
>>
>> ________________________________
>>
>> To unsubscribe from the FSL list, click the following link:
>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
>>
>>
>>
>> ________________________________
>>
>> To unsubscribe from the FSL list, click the following link:
>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
########################################################################
To unsubscribe from the FSL list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
|