[MINC-users] Virtual machine that includes minc tools

[Gabriel A. Devenyi]

One more option:

I built a Lubuntu-based VirtualBox image with minc-toolikit/R/RMINC and
brain-view2 for doing cortical-thickness like analysis.

https://drive.google.com/file/d/0B9gIQxu-xaI6NVE4bGxhUzRvYlE/view?usp=sharing

--
Gabriel A. Devenyi B.Eng. Ph.D.
Research Computing Associate
Computational Brain Anatomy Laboratory
Cerebral Imaging Center
Douglas Mental Health University Institute
Affiliate, Department of Psychiatry
McGill University
t: 514.761.6131x4781
e: gdevenyi at gmail.com

On Wed, May 18, 2016 at 11:05 AM, Vladimir S. FONOV <
vladimir.fonov at gmail.com> wrote:

> Hello,
>
> On 16-05-18 10:42 AM, Dante De Nigris wrote:
>
>> Similar to Pierre's previous proposal, I recently built a docker image
>> with
>> the minc-toolkit.  I was personally interested in building a very small
>> image so I use the Alpine Linux Base image and build everything from
>> scratch.
>>
> So, you want to run minc-toolkit on your embedded device?
>
>
>
>
>
>> Thiis might not correspond directly to your current needs, but it was
>> pretty reasonable for me.
>>
>> https://hub.docker.com/r/dantino19/minc-toolkit/
>>
>>
>>
>> On Tue, May 17, 2016 at 11:39 PM Paul GRAVEL <pgravel at bic.mni.mcgill.ca>
>> wrote:
>>
>> Once again many thanks Andrew and Pierre!
>>>
>>> It seems to have worked after sourcing /opt/minc/minc-toolkit-config.sh .
>>>
>>> I will give it a try (using MINC files) tomorrow.
>>>
>>> @Andrew: have a good day!
>>>
>>> @Pierre: Have a good night!
>>>
>>> Best,
>>>
>>> Paul
>>>
>>> On Tue, 17 May 2016, Pierre Bellec wrote:
>>>
>>> Paul, you may also want to look at dependencies and sourcing
>>>> environment variables (paragraph "using") in the documentation:
>>>> http://bic-mni.github.io/#installing
>>>>
>>>> Pierre Bellec
>>>> Assistant professor ("adjoint sous octroi"), Department of computer
>>>>
>>> science
>>>
>>>> and operational research (DIRO <http://diro.umontreal.ca/>)
>>>> Member, Centre de recherche de l'institut Universitaire de gériatrie de
>>>> Montréal (CRIUGM <http://www.criugm.qc.ca/>)
>>>> Member, Institute of Biomedical Engineering <
>>>>
>>> http://www.igb.umontreal.ca/>
>>>
>>>> Université de Montréal, Montréal, Canada
>>>> Phone +1 514 713 5596
>>>> Full coordinates on my home page
>>>> <http://simexp-lab.org/brainwiki/doku.php?id=pierrebellec>
>>>> Laboratory website <http://simexp-lab.org>.
>>>>
>>>> On Tue, May 17, 2016 at 11:01 PM, Andrew Janke <a.janke at gmail.com>
>>>>
>>> wrote:
>>>
>>>>
>>>> In my case I add my own private apt repository that mirrors things
>>>>> from the new a shiny source here:
>>>>>
>>>>>     http://bic-mni.github.io/
>>>>>
>>>>> In your case, just download the appropriate .deb file and then install
>>>>> using dpkg.
>>>>>
>>>>> This should do it:
>>>>>
>>>>>     $ wget
>>>>>
>>>>>
>>> http://packages.bic.mni.mcgill.ca/minc-toolkit/Debian/minc-toolkit-1.9.11-20160202-Debian_7.3-x86_64.deb
>>>
>>>>
>>>>>     $ sudo dpkg -i minc-toolkit-1.9.11-20160202-Debian_7.3-x86_64.deb
>>>>>
>>>>>
>>>>> a
>>>>>
>>>>> On 18 May 2016 at 12:56, Paul GRAVEL <pgravel at bic.mni.mcgill.ca>
>>>>> wrote:
>>>>>
>>>>>> So I installed:
>>>>>> NeuroDebian 7.8.0 image (64bit) for Windows 7 64 bit.
>>>>>>
>>>>>> After importing the "Applicance" in VirtualBox and configuring, I can
>>>>>>
>>>>> start
>>>>>
>>>>>> the virtual machine, so far so good, but when I come to install the
>>>>>> minctools; I had to use:
>>>>>> sudo apt-get install minc-toolkit
>>>>>>
>>>>>> I get the following:
>>>>>> Reading package lists... Done
>>>>>> Building dependency tree
>>>>>> Reading state information... Done
>>>>>> E: Unable to locate package minc-toolkit
>>>>>>
>>>>>> any ideas?
>>>>>>
>>>>>> Thanks again!
>>>>>>
>>>>>> Paul
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Wed, 18 May 2016, Andrew Janke wrote:
>>>>>>
>>>>>> I'm sure I saw one pass through the minc-users mailing list a while
>>>>>>>
>>>>>> back?
>>>>>
>>>>>>
>>>>>>> I use the neurodebian VM and then
>>>>>>>
>>>>>>>    apt-get install minc-toolkit     (thanks Vlad!)
>>>>>>>
>>>>>>> a
>>>>>>>
>>>>>>>
>>>>>>> On 18 May 2016 at 11:58, Paul GRAVEL <pgravel at bic.mni.mcgill.ca>
>>>>>>>
>>>>>> wrote:
>>>
>>>>
>>>>>>>> Dear All,
>>>>>>>>
>>>>>>>> I want to prepare a virtual machine for VirtualBox that includes a
>>>>>>>>
>>>>>>> linux
>>>>>
>>>>>> version with the minc tools. But being lazy (;-)!), I was wondering
>>>>>>>>
>>>>>>> if
>>>
>>>> anyone already had that and be willing to share.
>>>>>>>> Otherwise, any pointers on how to go about it (of course I would be
>>>>>>>> willing
>>>>>>>> to share the finished product!)?
>>>>>>>>
>>>>>>>
>
> --
> Best regards,
>
>  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>