[Mrtrix-discussion] nipype issue

[Anvi K Vora]

Makes sense. Thanks all :)


> On Dec 18, 2014, at 12:07 PM, Chris Filo Gorgolewski <krzysztof.gorgolewski at gmail.com> wrote:
> 
> It's on the TODO list! But we are very welcome people contributing code: http://nipy.org/nipype/devel/gitwash/index.html
> 
> Best,
> Chris
> 
>> On Thu Dec 18 2014 at 8:53:07 AM J-Donald Tournier <jdtournier at gmail.com> wrote:
>> I have a feeling nipype would expect the 0.2.x version of MRtrix. I'd be very surprised (and most impressed) if they'd already updated everything to work with MRtrix3...
>> 
>> Cheers,
>> Donald.
>> 
>> 
>>> On 18 December 2014 at 16:45, Roine Timo <timo.roine at uantwerpen.be> wrote:
>>> Hello,
>>> 
>>> These two functions have been replaced with the tensor2metric function, which provides functionality for both fa and ev (vector) computation.
>>> 
>>> Cheers,
>>> Timo
>>> 
>>> Lähettäjä: mrtrix-discussion-bounces at public.nitrc.org [mrtrix-discussion-bounces at public.nitrc.org] käyttäjän anvi vora [anvikvora at gmail.com] puolesta
>>> Lähetetty: 18. joulukuuta 2014 17:39
>>> Vastaanottaja: Erik Ziegler
>>> Kopio: nipy-devel; mrtrix mailinglist
>>> Aihe: Re: [Mrtrix-discussion] nipype issue
>>> 
>>> Thank you all for help on this, I appreciate.
>>> 
>>> So the error seems to be because I am missing tensor2fa and tensor2vector, among other things, which were not in my binary folder.  Then I checked CMD folder, which ./build script calls, and these were missing from there are well.  When I checked the latest commit for Mrtrix on Github (I had downloaded from Github), these were not in CMD folder there either.  I then saw them in the /mrtrix3/userdoc/commands folder as html files. 
>>> 
>>> Sorry to ask, but how do I get these commands in CMD folder or as binaries? 
>>> 
>>> Thanks again 
>>> 
>>>> On Wed, Dec 17, 2014 at 5:15 PM, Erik Ziegler <erik.ziegler at ulg.ac.be> wrote:
>>>> I'd say that Donald is right, it looks like you forgot to run sudo ./build install after ./build and that's why you don't have the binaries in your path.
>>>> 
>>>>> On Wed, Dec 17, 2014 at 9:02 PM, A.S. KANAAN <amadeus.kanaan at gmail.com> wrote:
>>>>> you have  multiple mrtrix related crashes.. hard to say without looking at the crash file. 
>>>>> 
>>>>> check the crash file by typing 
>>>>> $nipype_display_crash 'crash_file.......'
>>>>> 
>>>>> a guess is that the mrtrix environ has not been initialized. 
>>>>> 
>>>>> but mabye the nipype guys have some other thoughts. 
>>>>> 
>>>>> 
>>>>> 
>>>>> 
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>>>> 
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>> 
>> 
>> -- 
>> Dr J-Donald Tournier (PhD)
>> 
>> Senior Lecturer, Biomedical Engineering
>> Division of Imaging Sciences & Biomedical Engineering
>> King's College London
>> 
>> A: Department of Perinatal Imaging & Health, 1st Floor South Wing, St Thomas' Hospital, London. SE1 7EH
>> T: +44 (0)20 7188 7118 ext 53613
>> W: http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering
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