From vladimir.fonov at gmail.com  Wed Feb 10 12:29:56 2016
From: vladimir.fonov at gmail.com (Vladimir S. FONOV)
Date: Wed, 10 Feb 2016 12:29:56 -0500
Subject: [MINC-development] organization of the minc web site
Message-ID: <56BB7394.4040904@gmail.com>

Hello Minc Developers,

as you are probably aware, currently we have a little bit of a mish-mash 
of web sites describing available minc-tools. In particular, novice 
users, or readers of the papers (or Louis' grant reviewers). Are having 
hard time finding what we have and how to use it.

Currently we have following:

http://www.mcgill.ca/bic/software - official web site, with obsolete 
information , hard to navigate and almost impossible to update.

http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous 
official web site, now partially out-of-date and partially transferred 
to http://www.mcgill.ca/bic/ - there were plans to decommission it, but 
it looks like it's not going to happen.

https://en.wikibooks.org/wiki/MINC - semi-official documentation page, a 
few things are up-to-date. But focus is mostly on software developers.


http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page that 
is still alive, and shows-up in top-5 hit when I google minc tools.

there are a few other places which show-up with various information.

Recently we had several meetings with people maintaining 
http://www.mcgill.ca/bic/ site with discussions on how to move forward, 
in particular in line of the latest announcement on pushing for Open 
Science ( for those who missed it: 
http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science 
).

Currently the decision is to move as much information as possible to a 
single website and update all the old locations with links pointing to a 
new location. The particular location and organization of it is still up 
for discussion. But Louis wants it to start functioning pretty soon (i.e 
by the end of February).
Currently, it seems we have several possibilities:


1. Keep maintaining the old wiki ( 
http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much 
information as possible there.


2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and orient 
it more towards minc software users, rather then minc developers


3. Use github - since most of the open-source minc software already 
lives in https://github.com/BIC-MNI/ , and we can have issue tracking 
and wiki integration there. As well as github pages ( 
https://pages.github.com )


4. Use nitrc https://www.nitrc.org/projects/minc or 
https://www.nitrc.org/projects/minc-toolkit  - this one seem to be 
better suited for software releases. But I find the interface to be 
difficult to use.

So, what do you think?

P.S. The same goes for all the date sets that we are currently making 
available , in particular Atlases ( 
http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb ( 
http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE ( 
http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.

-- 
Best regards,

  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com

From robert.d.vincent at mcgill.ca  Wed Feb 10 12:59:34 2016
From: robert.d.vincent at mcgill.ca (Robert D. Vincent)
Date: Wed, 10 Feb 2016 12:59:34 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <56BB7394.4040904@gmail.com>
References: <56BB7394.4040904@gmail.com>
Message-ID: <CAAd5DeQYM+A6REmN+uYeNqzqS=WpUHFQUxenQwxWsD1C91+z8A@mail.gmail.com>

Hi Vlad,

Thanks for starting the discussion - I think we do need to get this under
control. Here's my take on each of the possibilities you mention:

1. I'd rather remove this, or migrate it to the McGill BIC site, assuming
that the BIC is not planning to maintain the old site.

2. I also don't see much need to maintain the wikibooks. I don't know if we
should remove what is there, but I would prefer not to have to maintain it.

3. I think it makes sense to continue to use Github for developer
documentation and communication. I don't know all of the Github services
well, but it probably makes sense to host other things there since it is
where we do most of our work. We could certainly create pages for some of
the active projects, and provide links to user documentation.

4. I'd like to use NITRC, but mostly as a set of links to other pages for
documentation and downloads. It should just point users to Github, or our
binary distributions, or whatever else is deemed appropriate. The
FreeSurfer entry is a good example I think we might want to follow.

In general, I would be happy to increase our use of the www.mcgill.ca/bic
website as a source for the MINC tools and documentation. I've taken the
McGill web management courses and so I can do the work of migrating some of
the older BIC pages if the "powers that be" are willing to let me.

    -bert

On Wed, Feb 10, 2016 at 12:29 PM, Vladimir S. FONOV <
vladimir.fonov at gmail.com> wrote:

> Hello Minc Developers,
>
> as you are probably aware, currently we have a little bit of a mish-mash
> of web sites describing available minc-tools. In particular, novice users,
> or readers of the papers (or Louis' grant reviewers). Are having hard time
> finding what we have and how to use it.
>
> Currently we have following:
>
> http://www.mcgill.ca/bic/software - official web site, with obsolete
> information , hard to navigate and almost impossible to update.
>
> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
> official web site, now partially out-of-date and partially transferred to
> http://www.mcgill.ca/bic/ - there were plans to decommission it, but it
> looks like it's not going to happen.
>
> https://en.wikibooks.org/wiki/MINC - semi-official documentation page, a
> few things are up-to-date. But focus is mostly on software developers.
>
>
> http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page that
> is still alive, and shows-up in top-5 hit when I google minc tools.
>
> there are a few other places which show-up with various information.
>
> Recently we had several meetings with people maintaining
> http://www.mcgill.ca/bic/ site with discussions on how to move forward,
> in particular in line of the latest announcement on pushing for Open
> Science ( for those who missed it:
> http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
> ).
>
> Currently the decision is to move as much information as possible to a
> single website and update all the old locations with links pointing to a
> new location. The particular location and organization of it is still up
> for discussion. But Louis wants it to start functioning pretty soon (i.e by
> the end of February).
> Currently, it seems we have several possibilities:
>
>
> 1. Keep maintaining the old wiki (
> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much
> information as possible there.
>
>
> 2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and orient
> it more towards minc software users, rather then minc developers
>
>
> 3. Use github - since most of the open-source minc software already lives
> in https://github.com/BIC-MNI/ , and we can have issue tracking and wiki
> integration there. As well as github pages ( https://pages.github.com )
>
>
> 4. Use nitrc https://www.nitrc.org/projects/minc or
> https://www.nitrc.org/projects/minc-toolkit  - this one seem to be better
> suited for software releases. But I find the interface to be difficult to
> use.
>
> So, what do you think?
>
> P.S. The same goes for all the date sets that we are currently making
> available , in particular Atlases (
> http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb (
> http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE (
> http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.
>
> --
> Best regards,
>
>  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
>
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From jason at mouseimaging.ca  Wed Feb 10 13:01:11 2016
From: jason at mouseimaging.ca (Jason Lerch)
Date: Wed, 10 Feb 2016 13:01:11 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <56BB7394.4040904@gmail.com>
References: <56BB7394.4040904@gmail.com>
Message-ID: <C3BBE634-F741-4866-B891-AA8DDFB0BB62@mouseimaging.ca>

Hi all,

I vote for either # 2 or 3 in Vlad's options - both easy for users to add documentation to. 

Jason

> On Feb 10, 2016, at 12:29 PM, Vladimir S. FONOV <vladimir.fonov at gmail.com> wrote:
> 
> Hello Minc Developers,
> 
> as you are probably aware, currently we have a little bit of a mish-mash of web sites describing available minc-tools. In particular, novice users, or readers of the papers (or Louis' grant reviewers). Are having hard time finding what we have and how to use it.
> 
> Currently we have following:
> 
> http://www.mcgill.ca/bic/software - official web site, with obsolete information , hard to navigate and almost impossible to update.
> 
> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous official web site, now partially out-of-date and partially transferred to http://www.mcgill.ca/bic/ - there were plans to decommission it, but it looks like it's not going to happen.
> 
> https://en.wikibooks.org/wiki/MINC - semi-official documentation page, a few things are up-to-date. But focus is mostly on software developers.
> 
> 
> http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page that is still alive, and shows-up in top-5 hit when I google minc tools.
> 
> there are a few other places which show-up with various information.
> 
> Recently we had several meetings with people maintaining http://www.mcgill.ca/bic/ site with discussions on how to move forward, in particular in line of the latest announcement on pushing for Open Science ( for those who missed it: http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science ).
> 
> Currently the decision is to move as much information as possible to a single website and update all the old locations with links pointing to a new location. The particular location and organization of it is still up for discussion. But Louis wants it to start functioning pretty soon (i.e by the end of February).
> Currently, it seems we have several possibilities:
> 
> 
> 1. Keep maintaining the old wiki ( http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much information as possible there.
> 
> 
> 2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and orient it more towards minc software users, rather then minc developers
> 
> 
> 3. Use github - since most of the open-source minc software already lives in https://github.com/BIC-MNI/ , and we can have issue tracking and wiki integration there. As well as github pages ( https://pages.github.com )
> 
> 
> 4. Use nitrc https://www.nitrc.org/projects/minc or https://www.nitrc.org/projects/minc-toolkit  - this one seem to be better suited for software releases. But I find the interface to be difficult to use.
> 
> So, what do you think?
> 
> P.S. The same goes for all the date sets that we are currently making available , in particular Atlases ( http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb ( http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE ( http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.
> 
> -- 
> Best regards,
> 
> Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
> _______________________________________________
> MINC-development mailing list
> MINC-development at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development

From vladimir.fonov at gmail.com  Wed Feb 10 13:11:55 2016
From: vladimir.fonov at gmail.com (Vladimir S. FONOV)
Date: Wed, 10 Feb 2016 13:11:55 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <CAAd5DeQYM+A6REmN+uYeNqzqS=WpUHFQUxenQwxWsD1C91+z8A@mail.gmail.com>
References: <56BB7394.4040904@gmail.com>
	<CAAd5DeQYM+A6REmN+uYeNqzqS=WpUHFQUxenQwxWsD1C91+z8A@mail.gmail.com>
Message-ID: <56BB7D6B.3030800@gmail.com>

Hello,


On 16-02-10 12:59 PM, Robert D. Vincent wrote:
> 1. I'd rather remove this, or migrate it to the McGill BIC site,
> assuming that the BIC is not planning to maintain the old site.
...
> In general, I would be happy to increase our use of the
> www.mcgill.ca/bic <http://www.mcgill.ca/bic> website as a source for the
> MINC tools and documentation. I've taken the McGill web management
> courses and so I can do the work of migrating some of the older BIC
> pages if the "powers that be" are willing to let me.

Unfortunately, that's the path that was deemed to be the least 
preferable. I.e Louis wants to have a web site where people can 
contribute without taking that course.




>
>      -bert
>
> On Wed, Feb 10, 2016 at 12:29 PM, Vladimir S. FONOV
> <vladimir.fonov at gmail.com <mailto:vladimir.fonov at gmail.com>> wrote:
>
>     Hello Minc Developers,
>
>     as you are probably aware, currently we have a little bit of a
>     mish-mash of web sites describing available minc-tools. In
>     particular, novice users, or readers of the papers (or Louis' grant
>     reviewers). Are having hard time finding what we have and how to use it.
>
>     Currently we have following:
>
>     http://www.mcgill.ca/bic/software - official web site, with obsolete
>     information , hard to navigate and almost impossible to update.
>
>     http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
>     official web site, now partially out-of-date and partially
>     transferred to http://www.mcgill.ca/bic/ - there were plans to
>     decommission it, but it looks like it's not going to happen.
>
>     https://en.wikibooks.org/wiki/MINC - semi-official documentation
>     page, a few things are up-to-date. But focus is mostly on software
>     developers.
>
>
>     http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page
>     that is still alive, and shows-up in top-5 hit when I google minc tools.
>
>     there are a few other places which show-up with various information.
>
>     Recently we had several meetings with people maintaining
>     http://www.mcgill.ca/bic/ site with discussions on how to move
>     forward, in particular in line of the latest announcement on pushing
>     for Open Science ( for those who missed it:
>     http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
>     ).
>
>     Currently the decision is to move as much information as possible to
>     a single website and update all the old locations with links
>     pointing to a new location. The particular location and organization
>     of it is still up for discussion. But Louis wants it to start
>     functioning pretty soon (i.e by the end of February).
>     Currently, it seems we have several possibilities:
>
>
>     1. Keep maintaining the old wiki (
>     http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as
>     much information as possible there.
>
>
>     2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and
>     orient it more towards minc software users, rather then minc developers
>
>
>     3. Use github - since most of the open-source minc software already
>     lives in https://github.com/BIC-MNI/ , and we can have issue
>     tracking and wiki integration there. As well as github pages (
>     https://pages.github.com )
>
>
>     4. Use nitrc https://www.nitrc.org/projects/minc or
>     https://www.nitrc.org/projects/minc-toolkit  - this one seem to be
>     better suited for software releases. But I find the interface to be
>     difficult to use.
>
>     So, what do you think?
>
>     P.S. The same goes for all the date sets that we are currently
>     making available , in particular Atlases (
>     http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the
>     brainweb ( http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ),
>     the BITE ( http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and
>     future projects.
>
>     --
>     Best regards,
>
>       Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com <http://gmail.com>
>
>


-- 
Best regards,

  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com

From robert.d.vincent at mcgill.ca  Wed Feb 10 14:06:37 2016
From: robert.d.vincent at mcgill.ca (Robert D. Vincent)
Date: Wed, 10 Feb 2016 14:06:37 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <56BB7D6B.3030800@gmail.com>
References: <56BB7394.4040904@gmail.com>
	<CAAd5DeQYM+A6REmN+uYeNqzqS=WpUHFQUxenQwxWsD1C91+z8A@mail.gmail.com>
	<56BB7D6B.3030800@gmail.com>
Message-ID: <CAAd5DeSUZ5SfJMwFB4vH+7kJFLHPTMHtArYKjvJKbL4B9PiGfQ@mail.gmail.com>

Hi Vlad,

Yes, that's a fine point. I would not use the McGill site to replace the
wiki, but rather as a landing page for MINC stuff. It would presumably link
out to Github or whatever else we use.

    -bert

On Wed, Feb 10, 2016 at 1:11 PM, Vladimir S. FONOV <vladimir.fonov at gmail.com
> wrote:

> Hello,
>
>
> On 16-02-10 12:59 PM, Robert D. Vincent wrote:
>
>> 1. I'd rather remove this, or migrate it to the McGill BIC site,
>> assuming that the BIC is not planning to maintain the old site.
>>
> ...
>
>> In general, I would be happy to increase our use of the
>> www.mcgill.ca/bic <http://www.mcgill.ca/bic> website as a source for the
>> MINC tools and documentation. I've taken the McGill web management
>> courses and so I can do the work of migrating some of the older BIC
>> pages if the "powers that be" are willing to let me.
>>
>
> Unfortunately, that's the path that was deemed to be the least preferable.
> I.e Louis wants to have a web site where people can contribute without
> taking that course.
>
>
>
>
>
>>      -bert
>>
>> On Wed, Feb 10, 2016 at 12:29 PM, Vladimir S. FONOV
>> <vladimir.fonov at gmail.com <mailto:vladimir.fonov at gmail.com>> wrote:
>>
>>     Hello Minc Developers,
>>
>>     as you are probably aware, currently we have a little bit of a
>>     mish-mash of web sites describing available minc-tools. In
>>     particular, novice users, or readers of the papers (or Louis' grant
>>     reviewers). Are having hard time finding what we have and how to use
>> it.
>>
>>     Currently we have following:
>>
>>     http://www.mcgill.ca/bic/software - official web site, with obsolete
>>     information , hard to navigate and almost impossible to update.
>>
>>     http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
>>     official web site, now partially out-of-date and partially
>>     transferred to http://www.mcgill.ca/bic/ - there were plans to
>>     decommission it, but it looks like it's not going to happen.
>>
>>     https://en.wikibooks.org/wiki/MINC - semi-official documentation
>>     page, a few things are up-to-date. But focus is mostly on software
>>     developers.
>>
>>
>>     http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page
>>     that is still alive, and shows-up in top-5 hit when I google minc
>> tools.
>>
>>     there are a few other places which show-up with various information.
>>
>>     Recently we had several meetings with people maintaining
>>     http://www.mcgill.ca/bic/ site with discussions on how to move
>>     forward, in particular in line of the latest announcement on pushing
>>     for Open Science ( for those who missed it:
>>
>> http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
>>     ).
>>
>>     Currently the decision is to move as much information as possible to
>>     a single website and update all the old locations with links
>>     pointing to a new location. The particular location and organization
>>     of it is still up for discussion. But Louis wants it to start
>>     functioning pretty soon (i.e by the end of February).
>>     Currently, it seems we have several possibilities:
>>
>>
>>     1. Keep maintaining the old wiki (
>>     http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as
>>     much information as possible there.
>>
>>
>>     2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and
>>     orient it more towards minc software users, rather then minc
>> developers
>>
>>
>>     3. Use github - since most of the open-source minc software already
>>     lives in https://github.com/BIC-MNI/ , and we can have issue
>>     tracking and wiki integration there. As well as github pages (
>>     https://pages.github.com )
>>
>>
>>     4. Use nitrc https://www.nitrc.org/projects/minc or
>>     https://www.nitrc.org/projects/minc-toolkit  - this one seem to be
>>     better suited for software releases. But I find the interface to be
>>     difficult to use.
>>
>>     So, what do you think?
>>
>>     P.S. The same goes for all the date sets that we are currently
>>     making available , in particular Atlases (
>>     http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the
>>     brainweb ( http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ),
>>     the BITE ( http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and
>>     future projects.
>>
>>     --
>>     Best regards,
>>
>>       Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com <http://gmail.com
>> >
>>
>>
>>
>
> --
> Best regards,
>
>  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
>
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From vladimir.fonov at gmail.com  Wed Feb 10 14:14:38 2016
From: vladimir.fonov at gmail.com (Vladimir S. FONOV)
Date: Wed, 10 Feb 2016 14:14:38 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <CAAd5DeSUZ5SfJMwFB4vH+7kJFLHPTMHtArYKjvJKbL4B9PiGfQ@mail.gmail.com>
References: <56BB7394.4040904@gmail.com>
	<CAAd5DeQYM+A6REmN+uYeNqzqS=WpUHFQUxenQwxWsD1C91+z8A@mail.gmail.com>
	<56BB7D6B.3030800@gmail.com>
	<CAAd5DeSUZ5SfJMwFB4vH+7kJFLHPTMHtArYKjvJKbL4B9PiGfQ@mail.gmail.com>
Message-ID: <56BB8C1E.1000601@gmail.com>

Ok, yes - that's the proposed plan. To have a simple page on the 
official web site pointing to the actual location where all the stuff 
lives.

On 16-02-10 02:06 PM, Robert D. Vincent wrote:
> Hi Vlad,
>
> Yes, that's a fine point. I would not use the McGill site to replace the
> wiki, but rather as a landing page for MINC stuff. It would presumably
> link out to Github or whatever else we use.
>
>      -bert
>
> On Wed, Feb 10, 2016 at 1:11 PM, Vladimir S. FONOV
> <vladimir.fonov at gmail.com <mailto:vladimir.fonov at gmail.com>> wrote:
>
>     Hello,
>
>
>     On 16-02-10 12:59 PM, Robert D. Vincent wrote:
>
>         1. I'd rather remove this, or migrate it to the McGill BIC site,
>         assuming that the BIC is not planning to maintain the old site.
>
>     ...
>
>         In general, I would be happy to increase our use of the
>         www.mcgill.ca/bic <http://www.mcgill.ca/bic>
>         <http://www.mcgill.ca/bic> website as a source for the
>         MINC tools and documentation. I've taken the McGill web management
>         courses and so I can do the work of migrating some of the older BIC
>         pages if the "powers that be" are willing to let me.
>
>
>     Unfortunately, that's the path that was deemed to be the least
>     preferable. I.e Louis wants to have a web site where people can
>     contribute without taking that course.
>
>
>
>
>
>               -bert
>
>         On Wed, Feb 10, 2016 at 12:29 PM, Vladimir S. FONOV
>         <vladimir.fonov at gmail.com <mailto:vladimir.fonov at gmail.com>
>         <mailto:vladimir.fonov at gmail.com
>         <mailto:vladimir.fonov at gmail.com>>> wrote:
>
>              Hello Minc Developers,
>
>              as you are probably aware, currently we have a little bit of a
>              mish-mash of web sites describing available minc-tools. In
>              particular, novice users, or readers of the papers (or
>         Louis' grant
>              reviewers). Are having hard time finding what we have and
>         how to use it.
>
>              Currently we have following:
>
>         http://www.mcgill.ca/bic/software - official web site, with obsolete
>              information , hard to navigate and almost impossible to update.
>
>         http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
>              official web site, now partially out-of-date and partially
>              transferred to http://www.mcgill.ca/bic/ - there were plans to
>              decommission it, but it looks like it's not going to happen.
>
>         https://en.wikibooks.org/wiki/MINC - semi-official documentation
>              page, a few things are up-to-date. But focus is mostly on
>         software
>              developers.
>
>
>         http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page
>              that is still alive, and shows-up in top-5 hit when I
>         google minc tools.
>
>              there are a few other places which show-up with various
>         information.
>
>              Recently we had several meetings with people maintaining
>         http://www.mcgill.ca/bic/ site with discussions on how to move
>              forward, in particular in line of the latest announcement
>         on pushing
>              for Open Science ( for those who missed it:
>         http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
>              ).
>
>              Currently the decision is to move as much information as
>         possible to
>              a single website and update all the old locations with links
>              pointing to a new location. The particular location and
>         organization
>              of it is still up for discussion. But Louis wants it to start
>              functioning pretty soon (i.e by the end of February).
>              Currently, it seems we have several possibilities:
>
>
>              1. Keep maintaining the old wiki (
>         http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as
>              much information as possible there.
>
>
>              2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC
>         , and
>              orient it more towards minc software users, rather then
>         minc developers
>
>
>              3. Use github - since most of the open-source minc software
>         already
>              lives in https://github.com/BIC-MNI/ , and we can have issue
>              tracking and wiki integration there. As well as github pages (
>         https://pages.github.com )
>
>
>              4. Use nitrc https://www.nitrc.org/projects/minc or
>         https://www.nitrc.org/projects/minc-toolkit  - this one seem to be
>              better suited for software releases. But I find the
>         interface to be
>              difficult to use.
>
>              So, what do you think?
>
>              P.S. The same goes for all the date sets that we are currently
>              making available , in particular Atlases (
>         http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the
>              brainweb (
>         http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ),
>              the BITE (
>         http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and
>              future projects.
>
>              --
>              Best regards,
>
>                Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
>         <http://gmail.com> <http://gmail.com>
>
>
>
>
>     --
>     Best regards,
>
>       Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com <http://gmail.com>
>
>


-- 
Best regards,

  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com

From a.janke at gmail.com  Wed Feb 10 14:17:55 2016
From: a.janke at gmail.com (Andrew Janke)
Date: Wed, 10 Feb 2016 14:17:55 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <C3BBE634-F741-4866-B891-AA8DDFB0BB62@mouseimaging.ca>
References: <56BB7394.4040904@gmail.com>
	<C3BBE634-F741-4866-B891-AA8DDFB0BB62@mouseimaging.ca>
Message-ID: <CAG0CB21juFKVMwJO+UR1TT=kGxjv7kPGAz2L5NUbChTBfBK9KA@mail.gmail.com>

What Jason said. SPM uses wikibooks and I find it a very easy
interface to use without the hassles of logins and other such things.
So, my preference:

   wikibooks for user documentation

   github for issue tracking and developer things.

All the others should contain links to these two canonical sources.
I'm happy to help organise this but can only contribute to wikibooks
and github.

ta



a



On 10 February 2016 at 13:01, Jason Lerch <jason at mouseimaging.ca> wrote:
> Hi all,
>
> I vote for either # 2 or 3 in Vlad's options - both easy for users to add documentation to.
>
> Jason
>
>> On Feb 10, 2016, at 12:29 PM, Vladimir S. FONOV <vladimir.fonov at gmail.com> wrote:
>>
>> Hello Minc Developers,
>>
>> as you are probably aware, currently we have a little bit of a mish-mash of web sites describing available minc-tools. In particular, novice users, or readers of the papers (or Louis' grant reviewers). Are having hard time finding what we have and how to use it.
>>
>> Currently we have following:
>>
>> http://www.mcgill.ca/bic/software - official web site, with obsolete information , hard to navigate and almost impossible to update.
>>
>> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous official web site, now partially out-of-date and partially transferred to http://www.mcgill.ca/bic/ - there were plans to decommission it, but it looks like it's not going to happen.
>>
>> https://en.wikibooks.org/wiki/MINC - semi-official documentation page, a few things are up-to-date. But focus is mostly on software developers.
>>
>>
>> http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page that is still alive, and shows-up in top-5 hit when I google minc tools.
>>
>> there are a few other places which show-up with various information.
>>
>> Recently we had several meetings with people maintaining http://www.mcgill.ca/bic/ site with discussions on how to move forward, in particular in line of the latest announcement on pushing for Open Science ( for those who missed it: http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science ).
>>
>> Currently the decision is to move as much information as possible to a single website and update all the old locations with links pointing to a new location. The particular location and organization of it is still up for discussion. But Louis wants it to start functioning pretty soon (i.e by the end of February).
>> Currently, it seems we have several possibilities:
>>
>>
>> 1. Keep maintaining the old wiki ( http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much information as possible there.
>>
>>
>> 2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and orient it more towards minc software users, rather then minc developers
>>
>>
>> 3. Use github - since most of the open-source minc software already lives in https://github.com/BIC-MNI/ , and we can have issue tracking and wiki integration there. As well as github pages ( https://pages.github.com )
>>
>>
>> 4. Use nitrc https://www.nitrc.org/projects/minc or https://www.nitrc.org/projects/minc-toolkit  - this one seem to be better suited for software releases. But I find the interface to be difficult to use.
>>
>> So, what do you think?
>>
>> P.S. The same goes for all the date sets that we are currently making available , in particular Atlases ( http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb ( http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE ( http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.
>>
>> --
>> Best regards,
>>
>> Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
>> _______________________________________________
>> MINC-development mailing list
>> MINC-development at bic.mni.mcgill.ca
>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
> _______________________________________________
> MINC-development mailing list
> MINC-development at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development

From gdevenyi at gmail.com  Wed Feb 10 14:22:46 2016
From: gdevenyi at gmail.com (Gabriel A. Devenyi)
Date: Wed, 10 Feb 2016 14:22:46 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <CAG0CB21juFKVMwJO+UR1TT=kGxjv7kPGAz2L5NUbChTBfBK9KA@mail.gmail.com>
References: <56BB7394.4040904@gmail.com>
	<C3BBE634-F741-4866-B891-AA8DDFB0BB62@mouseimaging.ca>
	<CAG0CB21juFKVMwJO+UR1TT=kGxjv7kPGAz2L5NUbChTBfBK9KA@mail.gmail.com>
Message-ID: <CAFQOoOpYjktu=qxyVjoi2OcRa_DZPuv72wmO=R9KTSfAQpd+HA@mail.gmail.com>

I'm +1 for a wiki (github or otherwise).

I'd just like to add that I hope that old scripts/docs hidden on the minc
wiki can be harvested and put somewhere (for example
http://www.bic.mni.mcgill.ca/ServicesSoftware/CenterMncOrigin which I found
yesterday)

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

On Wed, Feb 10, 2016 at 2:17 PM, Andrew Janke <a.janke at gmail.com> wrote:

> What Jason said. SPM uses wikibooks and I find it a very easy
> interface to use without the hassles of logins and other such things.
> So, my preference:
>
>    wikibooks for user documentation
>
>    github for issue tracking and developer things.
>
> All the others should contain links to these two canonical sources.
> I'm happy to help organise this but can only contribute to wikibooks
> and github.
>
> ta
>
>
>
> a
>
>
>
> On 10 February 2016 at 13:01, Jason Lerch <jason at mouseimaging.ca> wrote:
> > Hi all,
> >
> > I vote for either # 2 or 3 in Vlad's options - both easy for users to
> add documentation to.
> >
> > Jason
> >
> >> On Feb 10, 2016, at 12:29 PM, Vladimir S. FONOV <
> vladimir.fonov at gmail.com> wrote:
> >>
> >> Hello Minc Developers,
> >>
> >> as you are probably aware, currently we have a little bit of a
> mish-mash of web sites describing available minc-tools. In particular,
> novice users, or readers of the papers (or Louis' grant reviewers). Are
> having hard time finding what we have and how to use it.
> >>
> >> Currently we have following:
> >>
> >> http://www.mcgill.ca/bic/software - official web site, with obsolete
> information , hard to navigate and almost impossible to update.
> >>
> >> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
> official web site, now partially out-of-date and partially transferred to
> http://www.mcgill.ca/bic/ - there were plans to decommission it, but it
> looks like it's not going to happen.
> >>
> >> https://en.wikibooks.org/wiki/MINC - semi-official documentation page,
> a few things are up-to-date. But focus is mostly on software developers.
> >>
> >>
> >> http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page
> that is still alive, and shows-up in top-5 hit when I google minc tools.
> >>
> >> there are a few other places which show-up with various information.
> >>
> >> Recently we had several meetings with people maintaining
> http://www.mcgill.ca/bic/ site with discussions on how to move forward,
> in particular in line of the latest announcement on pushing for Open
> Science ( for those who missed it:
> http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
> ).
> >>
> >> Currently the decision is to move as much information as possible to a
> single website and update all the old locations with links pointing to a
> new location. The particular location and organization of it is still up
> for discussion. But Louis wants it to start functioning pretty soon (i.e by
> the end of February).
> >> Currently, it seems we have several possibilities:
> >>
> >>
> >> 1. Keep maintaining the old wiki (
> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much
> information as possible there.
> >>
> >>
> >> 2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and
> orient it more towards minc software users, rather then minc developers
> >>
> >>
> >> 3. Use github - since most of the open-source minc software already
> lives in https://github.com/BIC-MNI/ , and we can have issue tracking and
> wiki integration there. As well as github pages ( https://pages.github.com
> )
> >>
> >>
> >> 4. Use nitrc https://www.nitrc.org/projects/minc or
> https://www.nitrc.org/projects/minc-toolkit  - this one seem to be better
> suited for software releases. But I find the interface to be difficult to
> use.
> >>
> >> So, what do you think?
> >>
> >> P.S. The same goes for all the date sets that we are currently making
> available , in particular Atlases (
> http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb (
> http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE (
> http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.
> >>
> >> --
> >> Best regards,
> >>
> >> Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
> >> _______________________________________________
> >> MINC-development mailing list
> >> MINC-development at bic.mni.mcgill.ca
> >> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
> > _______________________________________________
> > MINC-development mailing list
> > MINC-development at bic.mni.mcgill.ca
> > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
> _______________________________________________
> MINC-development mailing list
> MINC-development at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
>
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From zijdenbos at gmail.com  Wed Feb 10 14:55:33 2016
From: zijdenbos at gmail.com (Alex Zijdenbos)
Date: Wed, 10 Feb 2016 14:55:33 -0500
Subject: [MINC-development] organization of the minc web site
In-Reply-To: <CAG0CB21juFKVMwJO+UR1TT=kGxjv7kPGAz2L5NUbChTBfBK9KA@mail.gmail.com>
References: <56BB7394.4040904@gmail.com>
	<C3BBE634-F741-4866-B891-AA8DDFB0BB62@mouseimaging.ca>
	<CAG0CB21juFKVMwJO+UR1TT=kGxjv7kPGAz2L5NUbChTBfBK9KA@mail.gmail.com>
Message-ID: <CABEEk15cVvhsjk+0eHEE3wEarGYH5M37MYNULdyNX=HYRcv8bQ@mail.gmail.com>

My vote for this as well - thanks for kicking this up again, Vlad!

On Wed, Feb 10, 2016 at 2:17 PM, Andrew Janke <a.janke at gmail.com> wrote:

> What Jason said. SPM uses wikibooks and I find it a very easy
> interface to use without the hassles of logins and other such things.
> So, my preference:
>
>    wikibooks for user documentation
>
>    github for issue tracking and developer things.
>
> All the others should contain links to these two canonical sources.
> I'm happy to help organise this but can only contribute to wikibooks
> and github.
>
> ta
>
>
>
> a
>
>
>
> On 10 February 2016 at 13:01, Jason Lerch <jason at mouseimaging.ca> wrote:
> > Hi all,
> >
> > I vote for either # 2 or 3 in Vlad's options - both easy for users to
> add documentation to.
> >
> > Jason
> >
> >> On Feb 10, 2016, at 12:29 PM, Vladimir S. FONOV <
> vladimir.fonov at gmail.com> wrote:
> >>
> >> Hello Minc Developers,
> >>
> >> as you are probably aware, currently we have a little bit of a
> mish-mash of web sites describing available minc-tools. In particular,
> novice users, or readers of the papers (or Louis' grant reviewers). Are
> having hard time finding what we have and how to use it.
> >>
> >> Currently we have following:
> >>
> >> http://www.mcgill.ca/bic/software - official web site, with obsolete
> information , hard to navigate and almost impossible to update.
> >>
> >> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage - previous
> official web site, now partially out-of-date and partially transferred to
> http://www.mcgill.ca/bic/ - there were plans to decommission it, but it
> looks like it's not going to happen.
> >>
> >> https://en.wikibooks.org/wiki/MINC - semi-official documentation page,
> a few things are up-to-date. But focus is mostly on software developers.
> >>
> >>
> >> http://www.bic.mni.mcgill.ca/software/ - old (and out-of date) page
> that is still alive, and shows-up in top-5 hit when I google minc tools.
> >>
> >> there are a few other places which show-up with various information.
> >>
> >> Recently we had several meetings with people maintaining
> http://www.mcgill.ca/bic/ site with discussions on how to move forward,
> in particular in line of the latest announcement on pushing for Open
> Science ( for those who missed it:
> http://www.sciencemag.org/news/2016/01/montreal-institute-going-open-accel-erate-science
> ).
> >>
> >> Currently the decision is to move as much information as possible to a
> single website and update all the old locations with links pointing to a
> new location. The particular location and organization of it is still up
> for discussion. But Louis wants it to start functioning pretty soon (i.e by
> the end of February).
> >> Currently, it seems we have several possibilities:
> >>
> >>
> >> 1. Keep maintaining the old wiki (
> http://www.bic.mni.mcgill.ca/ServicesSoftware/HomePage ) and put as much
> information as possible there.
> >>
> >>
> >> 2. Migrate to wikibooks https://en.wikibooks.org/wiki/MINC , and
> orient it more towards minc software users, rather then minc developers
> >>
> >>
> >> 3. Use github - since most of the open-source minc software already
> lives in https://github.com/BIC-MNI/ , and we can have issue tracking and
> wiki integration there. As well as github pages ( https://pages.github.com
> )
> >>
> >>
> >> 4. Use nitrc https://www.nitrc.org/projects/minc or
> https://www.nitrc.org/projects/minc-toolkit  - this one seem to be better
> suited for software releases. But I find the interface to be difficult to
> use.
> >>
> >> So, what do you think?
> >>
> >> P.S. The same goes for all the date sets that we are currently making
> available , in particular Atlases (
> http://www.bic.mni.mcgill.ca/ServicesAtlases/HomePage ), the brainweb (
> http://www.bic.mni.mcgill.ca/ServicesBrainWeb/HomePage ), the BITE (
> http://www.bic.mni.mcgill.ca/Services/ServicesBITE ) and future projects.
> >>
> >> --
> >> Best regards,
> >>
> >> Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
> >> _______________________________________________
> >> MINC-development mailing list
> >> MINC-development at bic.mni.mcgill.ca
> >> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
> > _______________________________________________
> > MINC-development mailing list
> > MINC-development at bic.mni.mcgill.ca
> > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
> _______________________________________________
> MINC-development mailing list
> MINC-development at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-development
>
>
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