[Camino-users] tractstats

[Yan Jin]

Hi Phil,

Thanks! -header option is not mentioned in the command list
description page, so I didn't know. You probably need to update that
as well. I used -scalarfile instead, but it threw out error messages.
It also breaks for tractstatimage as well.

Yan

On Fri, Apr 27, 2012 at 1:23 PM, Philip A Cook
<cookpa at mail.med.upenn.edu> wrote:
> Hi,
>
> Thanks for the report, this is a bug, it is failing because it doesn't have a voxel to physical space transformation. It shouldn't need one since the length of each tract is already in physical space. I will work on a fix for this.
>
> In the interim, you can work around the problem by using the FA image you mentioned:
>
>  cat  trk.Bfloat | tractstats -header fa.nii.gz -tractstat length >  stats.Bdouble
>
>
> Phil
>
> On Apr 27, 2012, at 4:06 PM, Yan Jin wrote:
>
>> Hi Florian,
>>
>> Thank you! I just tried the command, but I got lots of "?" in the
>> text. I think that there is something wrong with the binary output
>> from tractstats. Are you using the current version (build 1043)?
>>
>> Yan
>>
>> On Fri, Apr 27, 2012 at 12:50 PM, Florian Fischer
>> <flofisch at students.uni-mainz.de> wrote:
>>> Hi Yan,
>>>
>>> you could just pass the (binary) tractstats output to "double2txt" like so:
>>>
>>> tractstats -tractstat  length<  trk.Bfloat |double2txt>  stats.txt
>>>
>>>
>>> Cheers
>>>
>>> Florian
>>>
>>>
>>>
>>> On 04/27/2012 09:05 PM, Yan Jin wrote:
>>>>
>>>> Hi,
>>>>
>>>> I just used tractstats to get the length of the streamlines. It
>>>> doesn't seem to work. Here is what I did:
>>>>
>>>> tractstats -tractstat  length<  trk.Bfloat>  stats.Bdouble
>>>>
>>>> Then in Matlab:
>>>> fid=fopen('stats.Bdouble'. 'r'. 'b');
>>>> data=fread(fid, 'double');
>>>>
>>>> But when I view data, it shows "NaN". I tried "endpointsep" as well.
>>>> It was the same. However, "min" works with an FA image. Did I do
>>>> anything wrong? Could you double check? I used v1043.
>>>>
>>>> Thanks,
>>>> Yan
>>>> _______________________________________________
>>>> Camino-users mailing list
>>>> Camino-users at www.nitrc.org
>>>> http://www.nitrc.org/mailman/listinfo/camino-users
>>>
>>>
>> _______________________________________________
>> Camino-users mailing list
>> Camino-users at www.nitrc.org
>> http://www.nitrc.org/mailman/listinfo/camino-users
>