[Neuroimaging] FA images Was: Nipy.org new website needs a complete remake

[vanessa sochat]

If people are as unsure about flask as I am some of the other frameworks, I
would suggest that I can write out some proper documentation, and then
others can give the workflow a try? I can first figure out how to integrate
CircleCI so we could have automatic preview of PRs. Let me know your
thoughts.

On Mon, Aug 3, 2015 at 6:38 AM, vanessa sochat <vsochat at stanford.edu> wrote:

> My .02 on flask:
>
> The extra step is "freezing." The workflow to push an update will always
> be something along the lines of:
>
> - checkout or clone current flask site
> - do changes
> - freeze
> - push to gh-pages
>
> This seems do-able to me, but I sense that others aren't happy about the
> extra step, and I am open to the idea that other frameworks could do it
> better, perhaps at the cost of the more "interactive" back end allowed by
> flask. At the end of the day, it doesn't really matter so much as long as
> updating / adding content is relatively straight forward and pain free.
> Looking forward to more discussion on this.
>
> On Mon, Aug 3, 2015 at 6:33 AM, vanessa sochat <vsochat at stanford.edu>
> wrote:
>
>> This week we should perhaps vote/decide on a final framework to port the
>> nipy site into? I'm open to giving a go at whatever the group thinks is
>> best :)
>>
>> On Mon, Aug 3, 2015 at 6:11 AM, Ariel Rokem <arokem at gmail.com> wrote:
>>
>>>
>>> On Wed, Jul 29, 2015 at 8:38 PM, David Moreno-Dominguez <
>>> d.mor.dom at gmail.com> wrote:
>>>
>>>> Doesnt Dipy already do this? (be open source and compute FA images
>>>> [and much more] from any dwi dataset)
>>>
>>>
>>> Absolutely - I was being ironic.
>>>
>>> But I will admit that irony doesn't travel well by email.
>>>
>>>
>>>> On Wed, Jul 29, 2015 at 8:06 PM, Ariel Rokem <arokem at gmail.com> wrote:
>>>> >
>>>> > On Mon, Jul 27, 2015 at 10:44 AM, Gael Varoquaux
>>>> > <gael.varoquaux at normalesup.org> wrote:
>>>> >>
>>>> >> On Mon, Jul 27, 2015 at 08:56:08AM -0700, Ariel Rokem wrote:
>>>> >> >     PS: Vanessa: Nilearn is not only for fMRI. It's for statistical
>>>> >> > analysis
>>>> >> >     of images. It is also used for anatomical images:
>>>> >> >
>>>> http://nilearn.github.io/auto_examples/decoding/plot_oasis_vbm.html
>>>> >> >     If we could get a preprocessed, openly downloadable set of
>>>> images of
>>>> >> > eg
>>>> >> >     FA, we would do an example with diffusion too.
>>>> >>
>>>> >> > Completely off-topic, but I can't resist: if only there was an
>>>> >> > open-source project that computed FA images from freely available
>>>> >> > diffusion MRI data-sets!
>>>> >>
>>>> >> Well, you're welcome to help us with preprocessing and pitching a
>>>> >> relevant prediction problem from this data. I know nothing about
>>>> >> diffusion and nothing about the datasets you are talking about. In my
>>>> >> experience, writing a relevant example requires understanding the
>>>> data
>>>> >> and the questions. If you, or someone else, gets us to the point
>>>> where
>>>> >> there is a set of nifti images of FA with condition A and condition
>>>> B,
>>>> >> and helps us write the story, than we have an example.
>>>> >
>>>> >
>>>> > Hmm. Interesting idea. I am looking around for something along these
>>>> lines.
>>>> > I think that there are some freely available data-sets that are
>>>> already
>>>> > preprocessed, so could be used in this way. Let me think about how to
>>>> go
>>>> > about this.
>>>> >
>>>> >>
>>>> >> Gaël
>>>> >> _______________________________________________
>>>> >> Neuroimaging mailing list
>>>> >> Neuroimaging at python.org
>>>> >> https://mail.python.org/mailman/listinfo/neuroimaging
>>>> >
>>>> >
>>>> >
>>>> > _______________________________________________
>>>> > Neuroimaging mailing list
>>>> > Neuroimaging at python.org
>>>> > https://mail.python.org/mailman/listinfo/neuroimaging
>>>> >
>>>> _______________________________________________
>>>> Neuroimaging mailing list
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>>>>
>>>
>>>
>>> _______________________________________________
>>> Neuroimaging mailing list
>>> Neuroimaging at python.org
>>> https://mail.python.org/mailman/listinfo/neuroimaging
>>>
>>>
>>
>>
>> --
>> Vanessa Villamia Sochat
>> Stanford University
>> (603) 321-0676
>>
>
>
>
> --
> Vanessa Villamia Sochat
> Stanford University
> (603) 321-0676
>



-- 
Vanessa Villamia Sochat
Stanford University
(603) 321-0676
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