[Neuroimaging] nibabel.trackvis.read error

[C.D. Langen]

Hi Matthew,

Thank you for your quick reply. Below are links to two datasets, one 
that failed to be read by nib.trackvis, and one that succeeded. Both can 
be viewed in Trackvis:

https://dl.dropboxusercontent.com/u/57089115/fail.trk
https://dl.dropboxusercontent.com/u/57089115/succeed.trk

Best,
Carolyn

On 03-09-15 19:31, Matthew Brett wrote:
> Hi,
>
> On Thu, Sep 3, 2015 at 10:22 AM, C.D. Langen <c.langen at erasmusmc.nl> wrote:
>> Greetings,
>>
>> When I try to run the following line of code:
>>
>> streams, hdr = nib.trackvis.read(os.path.join(subjDir, 'dti.trk'),
>> points_space='voxel')
>>
>> I get the following error, but only for a small subset of subjects:
>>
>>     File
>> "/cm/shared/apps/python/2.7.6/lib/python2.7/site-packages/nibabel/trackvis.py",
>> line 223, in read
>>       streamlines = list(streamlines)
>>     File
>> "/cm/shared/apps/python/2.7.6/lib/python2.7/site-packages/nibabel/trackvis.py",
>> line 202, in track_gen
>>       buffer = pts_str)
>> TypeError: buffer is too small for requested array
>>
>>
>> Someone else had a similar error
>> (http://mail.scipy.org/pipermail/nipy-devel/2012-March/007272.html)
>> which they resolved by using nibabel from github. I tried this, but got
>> the same error.
>>
>> All subjects' trackvis files were produced in exactly the same way using
>> Trackvis, so I am not sure why only a few subjects fail while others
>> succeed. Any ideas?
>>
>> Thank you in advance for your help in resolving this issue.
> Thanks for the report - would you mind put the file online somewhere
> so we can have a look?
>
> Best,
>
> Matthew
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