[MINC-users] Virtual machine that includes minc tools

Wed May 18 13:39:51 EDT 2016

Sure - it's freely available as it is. It's just rather ancient so it's
missing the past 6-7 years of MINC development

-- A

On Wed, May 18, 2016 at 1:11 PM, Paul GRAVEL <pgravel at bic.mni.mcgill.ca>
wrote:

> Thanks Alex!
>
> I should have read the instructions more carefully!
>
> Actually, this package would be in essence what I was looking for.
> Unfortunately, I had different outcomes with NeuroDebian installation on a
> laptop and on my desktop at work (I of course acknowledge that this is most
> lokely due to my limitations in such matters ;-)!)
>
> That being said, if need be, would it be ok Alex if I distribute your
> virtual machine for a workshop?
> I would of course acknowledge you!
>
> Many thanks to All who replied!
>
> Best Regards,
>
> Paul
>
>
>
> On Wed, 18 May 2016, Alex Zijdenbos wrote:
>
> Hi Paul - user/pass are in the instructions on that page I sent:
>>
>> User: minc pass: minc
>>
>> that user has full sudo privileges iirc.
>>
>> On Wed, May 18, 2016 at 11:24 AM, Paul GRAVEL <pgravel at bic.mni.mcgill.ca>
>> wrote:
>>
>> Dear All,
>>>
>>> So I am now trying Alex's method, which is working so far, but I would
>>> need a username and a password, Alex?
>>>
>>> The reason for these questions is that I am preparing a hands-on training
>>> session as part of the PET Workshop happening in a couple of weeks, and I
>>> would have liked to have a virtual machine file with all the necessary
>>> tools, in order to make it easier for the participants to install the
>>> package.
>>>
>>> Best,
>>>
>>> Paul
>>>
>>>
>>>
>>> On Wed, 18 May 2016, Vladimir S. FONOV 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
>>>>
>>>>
>>> _______________________________________________
>>> MINC-users at bic.mni.mcgill.ca
>>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>>>
>>>
>>> _______________________________________________
>> MINC-users at bic.mni.mcgill.ca
>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>
>
> _______________________________________________
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> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>
>