[Neurodebian-users] FSL Topup failure

[Nan Xu]

Hi Morgan,

Here’re what I have.
1. topup without arguments returns the usage output without problems.
2. input text file and the file paths should all be good because the same command works fine in a different Linux system which installed the FSL without using neurodebian.

So, I’m wondering if it’s a installation problem, how to uninstall fsl and reinstall fsl with neurodebian?

Thanks,
Nan


> On Feb 2, 2020, at 11:27 PM, Morgan Hough <morgan.hough at gmail.com> wrote:
> 
> 
> Ok. So try topup without arguments. You should get the usage output. If that works for you, check your input text file the acquisition parameters. Make sure it’s UNIX text friendly. Then check the paths are OK? 
> 
> You can test your install with FEEDS. Hope this helps.
> 
> Cheers,
> 
> -Morgan
> 
>> On Sun, Feb 2, 2020 at 13:11 Nan Xu <nxu at u.rochester.edu> wrote:
>> Hi Morgan,
>> 
>> Yes, "which fslinfo" returns /user/bin/fslinfo
>> 
>> Thanks,
>> Nan
>> 
>>> On Fri, Jan 31, 2020 at 2:41 PM Morgan Hough <morgan.hough at gmail.com> wrote:
>>> Hi Nan,
>>> 
>>> Did you add the install directory to your shell’s path? What about “which fslinfo”?
>>> 
>>> Cheers,
>>> 
>>> -Morgan
>>> 
>>>> On Fri, Jan 31, 2020 at 11:37 Nan Xu <nxu at u.rochester.edu> wrote:
>>>> Hi,
>>>> 
>>>>  
>>>> 
>>>> I have a ubuntu 18.04 WSL system. I installed the neurodebian before install the fsl by using the command "sudo apt-get install fsl”. However, I received the following error message when running fsl topup:
>>>> 
>>>> $ topup --imain=EPI_fsl_swap --config=EPI_topup_HLL_fix.cnf --datain=datain_topup.txt --out=tu_g --iout=tus_g -v
>>>> 
>>>> Segmentation fault (core dumped)
>>>> 
>>>>  
>>>> 
>>>> Does anyone know how to fix this problem?
>>>> 
>>>>  
>>>> 
>>>> Thanks,
>>>> 
>>>> Nan
>>>> 
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