From austin at csail.mit.edu  Sun Dec  2 10:30:08 2007
From: austin at csail.mit.edu (Austin Che)
Date: Sun, 02 Dec 2007 10:30:08 -0500
Subject: [OWW-SC] CC & GFDL playing nice together
Message-ID: <8763zhw1vj.fsf@nitsua.mit.edu>


    Looks like they are finally merging together GFDL and CC BY-SA
    (the two licenses used by OWW). Wikipedia uses "GFDL (or any later
    version)" which is different from what OWW uses so Wikipedia
    content can't be copied to OWW but the reverse is possible. A new
    version of the GFDL will apparently be released (and by the "any
    later version" clause will apply to all of wikipedia) which will
    be compatible with CC BY-SA. This means OWW will be able to freely mix
    content with Wikipedia and this whole dual license mess may go away.
    http://slashdot.org/article.pl?sid=07/12/01/2032252
    
-- 
Austin Che           <austin at csail.mit.edu>          (617)253-5899


From macowell at gmail.com  Wed Dec  5 23:41:38 2007
From: macowell at gmail.com (Mackenzie Cowell)
Date: Wed, 5 Dec 2007 23:41:38 -0500
Subject: [OWW-SC] At this lab,
	everyone is required to maintain a science blog
Message-ID: <340DB33A-0A5F-4172-82E3-23BCEC01AFC0@gmail.com>

BoingBoing.net picked up on a post at ScienceBlogs.com about an  
evolutionary biologist who not only keeps a blog, but also requires  
all of the members of her lab to keep blogs on a semi-weekly basis  
about their work as well.

We should find out if she knows about OWW and if her lab and any  
others she knows about might be interested in switching their blogs  
from blogspot to OWW-blogs.

-Mac


Here's the post:
Anyway, it turns out that Rosie makes it a requirement for her lab  
members to maintain a blog. This was primarily to act as an appendum  
lab book, and a place to reflect on the experiments carried out  
recently.
Chatting with her, she was quite excited by the prospect of such a  
thing becoming common practice. She noted a number of side benefits to  
the process:

1. It allows her, as a supervisor, to remotely keep track on what's  
going on. Think of it as preface material before the lab meeting, or  
the one on ones.

2. She's convinced that with the public facade to the posting, folks  
in her lab tend to conceptualize more fully what the experiments and  
data could signify. In doing so, there's a great opportunity for  
blogging to help clarify the experiments necessary to move the  
research projects forward.

3. Scientists are not necessarily noted for their writing skills.  
Which is too bad, because that ability tends to come in very handy in  
the fine art of preparing grants. Here, you have a platform where you  
can work the "practice makes perfect" angle.

4. Depending on the tact of the blogger, you may inadvertently end up  
with a significant amount of draft material for that thesis or paper  
you going to have to write later.

Then, of course, Rosie got into the whole issue of open access. In  
that, her efforts to promote science blogging in her lab, could  
possibly be thought of as a powerful exercise in scientific  
communication. Imagine a scenario where facets of the standard "lab  
book" are offered for public viewing.

This means that things like negative data, serendipity findings  
(things that don't normally get published) have a chance to be  
publicly aired, which only adds to the body of scientific knowledge.  
And what about unpublished data? How open is that? For instance, Rosie  
herself has no qualms in presenting her grant proposals, even before  
competition deadlines.

Mind you, her lab happens to focus on a research area that is not too  
competitive, so the relative merits of what her lab's blogging is  
obviously subjected to this important nuance.

Still, it's interesting to imagine a scenario where what Rosie's lab  
does is common practice. i.e. what if NIH, NSERC, NSF, CIHR made it  
explicit in their funding structure.

Anyway, I've got two questions to throw at readers:

1. Is this a rare occurrence? I heard that boinformaticians might do  
this sort of thing, although it would still be primarily in the  
context of a private set-up.

2. What do you think? Is it a good idea, and if so, do you think you  
could convince your whole lab to follow suit?


-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071205/d4f80e91/attachment.htm

From jasonk at MIT.EDU  Thu Dec  6 00:00:45 2007
From: jasonk at MIT.EDU (Jason Kelly)
Date: Thu, 6 Dec 2007 00:00:45 -0500
Subject: [OWW-SC] SC meeting Today (TH) at Noon EST
Message-ID: <7c085c480712052100r57668b40y1479fc1ea31503eb@mail.gmail.com>

hey SC,

Number is 617-452-5208.

Chairs fill in your reports here:
http://openwetware.org/wiki/OpenWetWare:Steering_committee/Meeting_-_December_2007

Please add items to the agenda:
http://openwetware.org/wiki/OpenWetWare:Steering_committee_next_meeting

Or take a look at action list from last month for left over to-do items.
http://openwetware.org/wiki/OpenWetWare:Steering_committee_actions

Thanks!
jason


From julius at younglucks.com  Thu Dec  6 12:04:12 2007
From: julius at younglucks.com (Julius B. Lucks)
Date: Thu, 6 Dec 2007 12:04:12 -0500
Subject: [OWW-SC] At this lab,
	everyone is required to maintain a science blog
In-Reply-To: <340DB33A-0A5F-4172-82E3-23BCEC01AFC0@gmail.com>
References: <340DB33A-0A5F-4172-82E3-23BCEC01AFC0@gmail.com>
Message-ID: <5314D91B-93DD-41FB-983C-6EE3A7070A5E@younglucks.com>

Hey Mac,

I actually met Rosie over the summer at the SMBE meeting in Halifax.   
Over. Dinner we actually chatted about OWW, so she knows about it, but  
I think it was before we had blogs.

I'll contact her soon about this. Incidentally she is well connected  
in the science blogging community, so might know others who are  
interested.

Cheers,

Julius

Please Reply to julius at younglucks.com

On Dec 5, 2007, at 11:41 PM, Mackenzie Cowell <macowell at gmail.com>  
wrote:

> BoingBoing.net picked up on a post at ScienceBlogs.com about an  
> evolutionary biologist who not only keeps a blog, but also requires  
> all of the members of her lab to keep blogs on a semi-weekly basis  
> about their work as well.
>
> We should find out if she knows about OWW and if her lab and any  
> others she knows about might be interested in switching their blogs  
> from blogspot to OWW-blogs.
>
> -Mac
>
>
> Here's the post:
> Anyway, it turns out that Rosie makes it a requirement for her lab  
> members to maintain a blog. This was primarily to act as an appendum  
> lab book, and a place to reflect on the experiments carried out  
> recently.
> Chatting with her, she was quite excited by the prospect of such a  
> thing becoming common practice. She noted a number of side benefits  
> to the process:
>
> 1. It allows her, as a supervisor, to remotely keep track on what's  
> going on. Think of it as preface material before the lab meeting, or  
> the one on ones.
>
> 2. She's convinced that with the public facade to the posting, folks  
> in her lab tend to conceptualize more fully what the experiments and  
> data could signify. In doing so, there's a great opportunity for  
> blogging to help clarify the experiments necessary to move the  
> research projects forward.
>
> 3. Scientists are not necessarily noted for their writing skills.  
> Which is too bad, because that ability tends to come in very handy  
> in the fine art of preparing grants. Here, you have a platform where  
> you can work the "practice makes perfect" angle.
>
> 4. Depending on the tact of the blogger, you may inadvertently end  
> up with a significant amount of draft material for that thesis or  
> paper you going to have to write later.
>
> Then, of course, Rosie got into the whole issue of open access. In  
> that, her efforts to promote science blogging in her lab, could  
> possibly be thought of as a powerful exercise in scientific  
> communication. Imagine a scenario where facets of the standard "lab  
> book" are offered for public viewing.
>
> This means that things like negative data, serendipity findings  
> (things that don't normally get published) have a chance to be  
> publicly aired, which only adds to the body of scientific knowledge.  
> And what about unpublished data? How open is that? For instance,  
> Rosie herself has no qualms in presenting her grant proposals, even  
> before competition deadlines.
>
> Mind you, her lab happens to focus on a research area that is not  
> too competitive, so the relative merits of what her lab's blogging  
> is obviously subjected to this important nuance.
>
> Still, it's interesting to imagine a scenario where what Rosie's lab  
> does is common practice. i.e. what if NIH, NSERC, NSF, CIHR made it  
> explicit in their funding structure.
>
> Anyway, I've got two questions to throw at readers:
>
> 1. Is this a rare occurrence? I heard that boinformaticians might do  
> this sort of thing, although it would still be primarily in the  
> context of a private set-up.
>
> 2. What do you think? Is it a good idea, and if so, do you think you  
> could convince your whole lab to follow suit?
>
>
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071206/68d06616/attachment.htm

From wjf42 at MIT.EDU  Thu Dec  6 11:18:01 2007
From: wjf42 at MIT.EDU (Bill Flanagan)
Date: Thu, 6 Dec 2007 11:18:01 -0500
Subject: [OWW-SC] December Priorities for OWW Development
Message-ID: <26428aaa0712060818r150cf8c5s3c90ba780b105ffb@mail.gmail.com>

Please consult the following page for this month's OWW development hit-list.
I'll comment on it during today's call and will have comments about last
month's items sent out later today.

http://openwetware.org/wiki/OpenWetWare:Software/Milestones/December_2007
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071206/9a0d7070/attachment.htm

From endy at MIT.EDU  Fri Dec  7 12:14:23 2007
From: endy at MIT.EDU (Drew Endy)
Date: Fri, 7 Dec 2007 12:14:23 -0500
Subject: [OWW-SC] 'Publishing' on Pre-print services like arXiv.org
In-Reply-To: <65BAF402-A32B-422C-BE0F-CDD219BC5EBB@younglucks.com>
References: <65BAF402-A32B-422C-BE0F-CDD219BC5EBB@younglucks.com>
Message-ID: <35E82DE5-C93F-4551-848B-E10A101BEA61@mit.edu>

Hi Julius,

Thanks for leading this / taking things forward.

Here are some comments from my own perspective, starting selfishly  
with the community that I am based in and as a OWW user.

I am very keen to have a preprint server for the synthetic biology  
community.  I am also very keen to reduce (as close to zero as  
possible) the transaction costs associated with moving papers from OWW  
and a pre-print server to a peer-reviewed journal.  (as one point of  
reference, I am spending about 12 hours of my time dealing with a BMC  
journal trying to get a manuscript into the proofs stage).

So, I'd like to see arXiv.org set up a synthetic biology section.  I'd  
also like to see Nature Preceedings do the same (does anybody have a  
sense for how Preceedings is doing?).

Simultaneously, I'd like to see one or more journals commit to  
considering papers that have been published on pre-print servers.   
Specifically, for the synthetic biology community, I think that we  
should target Molecular Systems Biology, Journal of Biological  
Engineering (although they are BMC and I'm worried about transaction  
costs), and the relatively new IET journal that publishes the iGEM  
projects.

Moving to a more meta, OWW strategy level, if OWW can use an existing  
preprint server(s), and these preprint servers provide DOIs for their  
holdings, then OWW might not need to setup its own DOI server.  To  
feel like I have a clue though, I really need to understand what the  
preprint servers like arXiv are prepared to deal with.  For example,  
if we put a "button" on the top right of every OWW page that said  
(Publish!), which resulted in the current edit of the page being  
automatically submitted to the correct section of the correct preprint  
server (via a collection of toggle boxes that pop up after pushing the  
Publish! button, would arXiv and Preceedings be able to deal with  
this?  As I'm typing this out, my sense is that OWW needs to set up  
it's own DOI server, and that when somebody hits "Publish!" they have  
the option of sending it to arXiv.org, Preceedings, any other existing  
preprint server that exists and that wants to partner with us, but  
also a OWW preprint server (which is nothing more than our own DOI  
server).  This will let people DOI whatever they want, while also  
building the OWW publishing brand, and providing outlets to existing  
publishing channels (this association will also help the OWW  
publishing brand).

Finally,, while I am hopelessly biased, I think that the synthetic  
biology community provides a good launch community for using a  
preprint server in biological research.  The community is young,  
vibrant, and full of immigrants.  We can set the standards of practice  
within the culture now.  Other existing communities will have a harder  
time of this (i.e., if the paper is not published in Cell then it does  
not exist -- overstatement I know).

Best,
Drew

On Nov 28, 2007, at 10:55 AM, Julius B. Lucks wrote:

> Hi SC,
>
> Following up on last month's meeting, I would like to gather your  
> ideas on how the OWW community might like to use a pre-print service  
> such as arXiv.org or Nature Proceedings to 'publish' content  
> originally created on OWW.
>
> My first impression was that these pre-print services could be used  
> as a stepping-stone towards more traditional publication - i.e. an  
> article would be written with the OWW wiki, and when sufficiently  
> polished, sent off to arXiv as an official pre-print.  This would  
> provide a citeable uri for that version of the document, and would  
> be used as the basis to notify the community of the polished work,  
> as well as submit to a traditional peer-reviewed journal (if the  
> authors desire).
>
> In discussing this at the last SC meeting, Barry mentioned a very  
> interesting possibility of posting non-article content such as lab  
> protocols or reagent lists up on a pre-print archive.  I would like  
> to brainstorm with you possible uses of pre-print archives.  In  
> particular:
>
> * Would you consider using a pre-print archive as a way to turn a  
> wiki document into a journal article (wiki -> pre-print -> paper)?
> ** If so, are you ready to try this out, or do you know of anyone  
> that is ready?  I would like to walk whoever is ready through the  
> process with them and see how it goes.  I can also facilitate  
> submission to arXiv.org's quantitative biology section if that is  
> necessary.
>
> * What other types of documents do you imagine posting on a pre- 
> print archive?  (protocols, reagent lists, etc.)
> ** For each type of document, it would be great to know why the wiki  
> page is insufficient for your purposes.  For example, Barry  
> mentioned that reviewers were hesitant to honor a wiki link as a  
> citeable document.
>
> * What is the best way to ask the OWW community outside the SC these  
> questions?
>
> I would appreciate ALL of your comments.  I think arXiv.org is  
> already prepared to handle traditional journal-article-like  
> submissions, but might be more hesitant for other types of  
> submissions.  I would like to get a list of ideas to before I  
> discuss this with them.
>
> Thanks for your help,
>
> Cheers,
>
> Julius
>
>
> ---------------------------------------------------------------------------------------
> Please Reply to My Permanent Address: julius at younglucks.com
> http://www.openwetware.org/wiki/User:Julius_B._Lucks
> ----------------------------------------------------------------------------------------
>
>
>
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc

-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071207/575c6cd2/attachment.htm

From jasonk at MIT.EDU  Sat Dec  8 13:29:04 2007
From: jasonk at MIT.EDU (Jason Kelly)
Date: Sat, 8 Dec 2007 13:29:04 -0500
Subject: [OWW-SC] December SC meeting notes & lab notebook
Message-ID: <7c085c480712081029u55100727mff90ce504fb762ee@mail.gmail.com>

Hi SC,

Thanks everyone for calling in to the meeting last week.  For those
who couldn't make it,
notes are here:
http://openwetware.org/wiki/OpenWetWare:Steering_committee/Meeting_-_December_2007

action list here:
http://openwetware.org/wiki/OpenWetWare:Steering_committee_actions

Bill will be releasing an alpha version of our new lab notebook
extension this month, and we could really use volunteers to try it
out.  It should make the process of keeping an organized electronic
lab notebook on OWW much easier, and we'll need a lot of feedback to
make sure we get it right.   Please email me or bill if you would like
to help out.

thanks!
jason


From austin at csail.mit.edu  Mon Dec 10 10:31:27 2007
From: austin at csail.mit.edu (Austin Che)
Date: Mon, 10 Dec 2007 10:31:27 -0500
Subject: [OWW-SC] wiki pages history visualization
Message-ID: <87d4teva5s.fsf@nitsua.mit.edu>


    This is really neat visualization of page histories and could be a
    mechanism for assigning credit for pages (or maybe authorship for
    articles).

    It's like 'svn blame' which tells you who wrote each line but is
    much prettier. Here's a screenshot of the main page history
    http://openwetware.org/images/d/de/Oww-main-page-history.png
    
    You need to download the java application from:
    http://www.alphaworks.ibm.com/tech/historyflow/download
    then install jtidy from:
    http://prdownloads.sourceforge.net/jtidy/jtidy-04aug2000r7-dev.zip?download
    Go under the file menu to 'install Jtidy' restart, and you'll see
    an option for loading mediawiki articles. Replace the export url with
    http://openwetware.org/wiki/Special:Export
    and put in the page you care about.
    
-- 
Austin Che           <austin at csail.mit.edu>          (617)253-5899


From austin at csail.mit.edu  Wed Dec 12 09:47:23 2007
From: austin at csail.mit.edu (Austin Che)
Date: Wed, 12 Dec 2007 09:47:23 -0500
Subject: [OWW-SC] Fwd: MIT Wiki Service Release Announcement
Message-ID: <871w9snf5w.fsf@nitsua.mit.edu>


    I think it's interesting to see how MIT is handling the wiki
    problem. They use Confluence
    http://www.atlassian.com/software/confluence/ which is an
    enterprise wiki. I don't know what advantages it has over
    mediawiki. But it appears to come with wysiwig editing by default
    and it seems to handle many wikis pretty well.
    
    Here's the list of MIT wikis
    https://wikis.mit.edu/confluence/dashboard.action
    You can see a list of recent changes across all wikis.
    
    I've only quickly looked through to see some of the features it
    has. It handles things like permissions and other things like
    that. You can tag pages. It also can export any page as either PDF
    or word and the exported page really looks pretty! The wiki syntax
    is similar to mediawiki's with some noticeable differences with
    headings.

    Anyway, perhaps it's cheaper to buy a commercial wiki solution
    that provides many of the features we want rather than
    implementing it all in mediawiki. I think it's a one-time(?) $4000
    fee for unlimited users
    
> Effective immediately, IS&T will launch an enterprise wiki service for
> MIT using the Confluence technology that we have been using for our
> internal wikis. This service will be announced to the community via
> email, in Digitalk and in the IS&T newsletter.
>
> For those who are unfamiliar with wikis, they are web-based
> collaboration sites whose content can be edited by anyone who has
> permission. Wikipedia, the free encyclopedia at wikipedia.org, is the
> largest and most famous example of a wiki.
>
> The MIT Wiki Service offers simplified page editing and basic
> versioning of page content and attachments. Supplemental features,
> like the ability to pull in Google Maps and to post informal surveys
> are also available. Integrated with MIT web certificates, Moira group
> management, and Stellar class lists, the service features a wide range
> of permission options, including access for non-MIT users. The Wiki
> Service is also piloting the MIT Touchstone single sign on service.
>
> IS&T, the iLabs Project, MIT Press, and several courses are already
> using the service.
>
> Getting Started:
>
> For details about the service, go to
> web.mit.edu/ist/topics/webpublishing/wiki
> <http://web.mit.edu/ist/topics/webpublishing/wiki>
>
> IS&T has several wiki pages. To see what's on the current IS&T staff
> wiki space go to https://wikis.mit.edu/confluence/display/ISTSTAFF/Home
>
> A wiki space request form is available at
> https://wikis.mit.edu/request/wiki/

-- 
Austin Che           <austin at csail.mit.edu>          (617)253-5899


From bill.altmail at gmail.com  Wed Dec 12 10:31:03 2007
From: bill.altmail at gmail.com (Bill F)
Date: Wed, 12 Dec 2007 10:31:03 -0500
Subject: [OWW-SC] Fwd: MIT Wiki Service Release Announcement
In-Reply-To: <871w9snf5w.fsf@nitsua.mit.edu>
References: <871w9snf5w.fsf@nitsua.mit.edu>
Message-ID: <26428aaa0712120731h14f1bbd8ta18d5cfba48beafe@mail.gmail.com>

I think it's a good idea to consider. The one feature that Confluence seems
to lack is an automated mediawiki importer. I may have missed it but I
didn't see one.

Also, they  do have a Word importer. But it's implemented as a macro within
Word itself rather than as a gateway.

So let's say we found there was a way to import and we could use it. How
would we go about surfacing this to the board and bringing it up for
consideration? I'm talking of the requirements rather than the technical
issues. How can we state what a $4k investment in SW and a continuing $600
(15%) maintenance contract would provide?

B.


On Dec 12, 2007 9:47 AM, Austin Che <austin at csail.mit.edu> wrote:

>
>    I think it's interesting to see how MIT is handling the wiki
>    problem. They use Confluence
>    http://www.atlassian.com/software/confluence/ which is an
>    enterprise wiki. I don't know what advantages it has over
>    mediawiki. But it appears to come with wysiwig editing by default
>    and it seems to handle many wikis pretty well.
>
>    Here's the list of MIT wikis
>    https://wikis.mit.edu/confluence/dashboard.action
>    You can see a list of recent changes across all wikis.
>
>    I've only quickly looked through to see some of the features it
>    has. It handles things like permissions and other things like
>    that. You can tag pages. It also can export any page as either PDF
>    or word and the exported page really looks pretty! The wiki syntax
>    is similar to mediawiki's with some noticeable differences with
>    headings.
>
>    Anyway, perhaps it's cheaper to buy a commercial wiki solution
>    that provides many of the features we want rather than
>    implementing it all in mediawiki. I think it's a one-time(?) $4000
>    fee for unlimited users
>
> > Effective immediately, IS&T will launch an enterprise wiki service for
> > MIT using the Confluence technology that we have been using for our
> > internal wikis. This service will be announced to the community via
> > email, in Digitalk and in the IS&T newsletter.
> >
> > For those who are unfamiliar with wikis, they are web-based
> > collaboration sites whose content can be edited by anyone who has
> > permission. Wikipedia, the free encyclopedia at wikipedia.org, is the
> > largest and most famous example of a wiki.
> >
> > The MIT Wiki Service offers simplified page editing and basic
> > versioning of page content and attachments. Supplemental features,
> > like the ability to pull in Google Maps and to post informal surveys
> > are also available. Integrated with MIT web certificates, Moira group
> > management, and Stellar class lists, the service features a wide range
> > of permission options, including access for non-MIT users. The Wiki
> > Service is also piloting the MIT Touchstone single sign on service.
> >
> > IS&T, the iLabs Project, MIT Press, and several courses are already
> > using the service.
> >
> > Getting Started:
> >
> > For details about the service, go to
> > web.mit.edu/ist/topics/webpublishing/wiki
> > <http://web.mit.edu/ist/topics/webpublishing/wiki>
> >
> > IS&T has several wiki pages. To see what's on the current IS&T staff
> > wiki space go to https://wikis.mit.edu/confluence/display/ISTSTAFF/Home
> >
> > A wiki space request form is available at
> > https://wikis.mit.edu/request/wiki/
>
> --
> Austin Che           <austin at csail.mit.edu>          (617)253-5899
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071212/5664b593/attachment.htm

From macowell at gmail.com  Wed Dec 12 13:10:39 2007
From: macowell at gmail.com (Mackenzie Cowell)
Date: Wed, 12 Dec 2007 13:10:39 -0500
Subject: [OWW-SC] Fwd: MIT Wiki Service Release Announcement
In-Reply-To: <26428aaa0712120731h14f1bbd8ta18d5cfba48beafe@mail.gmail.com>
References: <871w9snf5w.fsf@nitsua.mit.edu>
	<26428aaa0712120731h14f1bbd8ta18d5cfba48beafe@mail.gmail.com>
Message-ID: <0D2A2ED4-A85B-49FB-82CD-DE97A4E42EBE@gmail.com>

I was talking with Austin about this and perhaps step 0 is to find out  
who / what committee surveyed the choices of wiki platforms for IS&T,  
explain OWW's mission & needs, and find out why they chose Confluence  
and what other platforms they were interested and which might be a  
good fit for OWW.

So at IS&T who is the person to talk to?

mac


On Dec 12, 2007, at 10:31 AM, Bill F wrote:

> I think it's a good idea to consider. The one feature that  
> Confluence seems to lack is an automated mediawiki importer. I may  
> have missed it but I didn't see one.
>
> Also, they  do have a Word importer. But it's implemented as a macro  
> within Word itself rather than as a gateway.
>
> So let's say we found there was a way to import and we could use it.  
> How would we go about surfacing this to the board and bringing it up  
> for consideration? I'm talking of the requirements rather than the  
> technical issues. How can we state what a $4k investment in SW and a  
> continuing $600 (15%) maintenance contract would provide?
>
> B.
>
>
> On Dec 12, 2007 9:47 AM, Austin Che <austin at csail.mit.edu> wrote:
>
>    I think it's interesting to see how MIT is handling the wiki
>    problem. They use Confluence
>    http://www.atlassian.com/software/confluence/ which is an
>    enterprise wiki. I don't know what advantages it has over
>    mediawiki. But it appears to come with wysiwig editing by default
>    and it seems to handle many wikis pretty well.
>
>    Here's the list of MIT wikis
>    https://wikis.mit.edu/confluence/dashboard.action
>    You can see a list of recent changes across all wikis.
>
>    I've only quickly looked through to see some of the features it
>    has. It handles things like permissions and other things like
>    that. You can tag pages. It also can export any page as either PDF
>    or word and the exported page really looks pretty! The wiki syntax
>    is similar to mediawiki's with some noticeable differences with
>    headings.
>
>    Anyway, perhaps it's cheaper to buy a commercial wiki solution
>    that provides many of the features we want rather than
>    implementing it all in mediawiki. I think it's a one-time(?) $4000
>    fee for unlimited users
>
> > Effective immediately, IS&T will launch an enterprise wiki service  
> for
> > MIT using the Confluence technology that we have been using for our
> > internal wikis. This service will be announced to the community via
> > email, in Digitalk and in the IS&T newsletter.
> >
> > For those who are unfamiliar with wikis, they are web-based
> > collaboration sites whose content can be edited by anyone who has
> > permission. Wikipedia, the free encyclopedia at wikipedia.org, is  
> the
> > largest and most famous example of a wiki.
> >
> > The MIT Wiki Service offers simplified page editing and basic
> > versioning of page content and attachments. Supplemental features,
> > like the ability to pull in Google Maps and to post informal surveys
> > are also available. Integrated with MIT web certificates, Moira  
> group
> > management, and Stellar class lists, the service features a wide  
> range
> > of permission options, including access for non-MIT users. The Wiki
> > Service is also piloting the MIT Touchstone single sign on service.
> >
> > IS&T, the iLabs Project, MIT Press, and several courses are already
> > using the service.
> >
> > Getting Started:
> >
> > For details about the service, go to
> > web.mit.edu/ist/topics/webpublishing/wiki
> > <http://web.mit.edu/ist/topics/webpublishing/wiki>
> >
> > IS&T has several wiki pages. To see what's on the current IS&T staff
> > wiki space go to https://wikis.mit.edu/confluence/display/ISTSTAFF/Home
> >
> > A wiki space request form is available at
> > https://wikis.mit.edu/request/wiki/
>
> --
> Austin Che           <austin at csail.mit.edu >          (617)253-5899
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc
>
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc

-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071212/9bd740e0/attachment.htm

From bill.altmail at gmail.com  Fri Dec 14 17:04:32 2007
From: bill.altmail at gmail.com (Bill F)
Date: Fri, 14 Dec 2007 17:04:32 -0500
Subject: [OWW-SC] OWW Sticker idea from feedburner...
Message-ID: <26428aaa0712141404p6d124859w4601811ba34d5139@mail.gmail.com>

*I know we're running out of stickers but this is a cute idea to get people
involved.
*

*
*

*This is from Feedburner.
*

*(http://blogs.feedburner.com/feedburner/archives/001415.html*
*If nobody applies, no work for anyone. Otherwise, it's a no-cost (OWW
time-only) way to deliver brand recognition content to the people most
likely to want it. *


______________________________________________________________



*IMPORTANT UPDATE: We've moved! Please send your sticker requests to our new
Googlified mailing
address<http://blogs.feedburner.com/feedburner/archives/2007/07/flameemblazoned_swag_still_ava.php>
.*


Can't get enough of that FeedBurner flame? Feed your need with the first in
what we hope to be a long line of logo-emblazoned shmoogies: The Laptop
Sticker. It's round. It's colorful. It's precisely the size of something you
need to cover with it.

How to get one, you ask? The old skool snail mail way, of course. Send us a
self-addressed stamped envelope and the sticker is yours. It's that easy.
We're taking a page<http://blog.flickr.com/flickrblog/2005/06/fickr_schwag_sa.html>from
our friends at Flickr so you can expect an actual FeedBurner staffer
to
package up your flame-o-con. If you want to include a note or shout-out,
feel free. It may even get posted on the office fridge.

To claim your sticker, send a self-addressed stamped envelope to:
FeedBurner
Attn: I Want A Sticker
549 W. Randolph, 6th Floor
Chicago, IL USA 60661-2208
 Posted by *Traci* at 04:54 PM
Permalink<http://blogs.feedburner.com/feedburner/archives/2005/09/the_wait_for_fe.php>?
Comments
(64)<http://blogs.feedburner.com/feedburner/archives/2005/09/the_wait_for_fe.php#comments>?
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071214/a8126451/attachment.htm

From jasonk at MIT.EDU  Fri Dec 14 17:17:51 2007
From: jasonk at MIT.EDU (Jason Kelly)
Date: Fri, 14 Dec 2007 17:17:51 -0500
Subject: [OWW-SC] OWW Sticker idea from feedburner...
In-Reply-To: <26428aaa0712141404p6d124859w4601811ba34d5139@mail.gmail.com>
References: <26428aaa0712141404p6d124859w4601811ba34d5139@mail.gmail.com>
Message-ID: <7c085c480712141417w775d4b14ndc2fb1a00f60aff6@mail.gmail.com>

actually, we recently got 1,000 new stickers.  so if anyone needs a
fresh batch to hand out, email bill ;)

thanks,
jason

On Dec 14, 2007 5:04 PM, Bill F <bill.altmail at gmail.com> wrote:
>
>
> I know we're running out of stickers but this is a cute idea to get people
> involved.
>
>
>
>
>
> This is from Feedburner.
>
>
> ( http://blogs.feedburner.com/feedburner/archives/001415.htmlIf nobody
> applies, no work for anyone. Otherwise, it's a no-cost (OWW time-only) way
> to deliver brand recognition content to the people most likely to want it.
>
>
>
>
>
> ______________________________________________________________
>
>
>
>
>
>
> IMPORTANT UPDATE: We've moved! Please send your sticker requests to our new
> Googlified mailing address.
>
>
>  Can't get enough of that FeedBurner flame? Feed your need with the first in
> what we hope to be a long line of logo-emblazoned shmoogies: The Laptop
> Sticker. It's round. It's colorful. It's precisely the size of something you
> need to cover with it.
>
> How to get one, you ask? The old skool snail mail way, of course. Send us a
> self-addressed stamped envelope and the sticker is yours. It's that easy.
> We're taking a page from our friends at Flickr so you can expect an actual
> FeedBurner staffer to package up your flame-o-con. If you want to include a
> note or shout-out, feel free. It may even get posted on the office fridge.
>
> To claim your sticker, send a self-addressed stamped envelope to:
>  FeedBurner
>  Attn: I Want A Sticker
>  549 W. Randolph, 6th Floor
>  Chicago, IL USA 60661-2208 Posted by Traci at 04:54 PM
>  Permalink ? Comments (64) ?
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc
>
>



From bill.altmail at gmail.com  Fri Dec 14 18:17:13 2007
From: bill.altmail at gmail.com (Bill F)
Date: Fri, 14 Dec 2007 18:17:13 -0500
Subject: [OWW-SC] Rotating new videos on the OpenWetWare home page
Message-ID: <26428aaa0712141517k7cacf1ffi338886323a19532a@mail.gmail.com>

Hey Steering Committee...

We've had the same video clip on the OpenWetWare home page for a LONG time.

Does anyone have any suggestions about other lab-science related video clips
that you would like to see?

If there are several different choices provided, we can rotate them on a
daily, weekly, or a random basis. I'll set up a page where the list of
available videos is maintained.

These videos can come from YouTube or other web video sites. Th only
requirement is that they be licensed to allow us to play them and that,
preferably, they should be located on someone else's server besides
OpenWetWare.org.

If you have a video to contribute, we can simply upload it to YouTube and
play it from there. Nobody should have to pay for video file download time
when YouTube will gladly do it for free.

Thanks.

Bill Flanagan
OpenWetWare.org
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071214/eba8867c/attachment.htm

From wjf42 at MIT.EDU  Fri Dec 14 19:00:39 2007
From: wjf42 at MIT.EDU (Bill Flanagan)
Date: Fri, 14 Dec 2007 19:00:39 -0500
Subject: [OWW-SC] Wikiomics and Tregwiki
Message-ID: <26428aaa0712141600m39900a6gbdb017bc4bb23dc3@mail.gmail.com>

Weve pulled the contents of 2 websites, Wikiomics and Tregwiki, into OWW.
Now we need to tell people about it.

If you want to see the content, take a look at any pages starting with
Wikiomics: and Tregwiki:. These are not separate namespaces but part of the
page titles. There is a lot of fantastic content that we now have as part of
OpenWetWare.

Any suggestions as to how to mention this on the front page?


Thanks

Bill Flanagan
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071214/9e3d1db5/attachment.htm

From endy at MIT.EDU  Fri Dec 14 19:58:56 2007
From: endy at MIT.EDU (Drew Endy)
Date: Fri, 14 Dec 2007 19:58:56 -0500
Subject: [OWW-SC] Rotating new videos on the OpenWetWare home page
In-Reply-To: <26428aaa0712141517k7cacf1ffi338886323a19532a@mail.gmail.com>
References: <26428aaa0712141517k7cacf1ffi338886323a19532a@mail.gmail.com>
Message-ID: <3D169955-918E-4927-8FC1-FFD92EF8EE4F@mit.edu>

We should rotate presentations from igem unless / until there are  
better videos available. This would provide 80 movies to start (from  
2007 and 2006)

Drew

On Dec 14, 2007, at 6:17 PM, "Bill F" <bill.altmail at gmail.com> wrote:

> Hey Steering Committee...
>
> We've had the same video clip on the OpenWetWare home page for a  
> LONG time.
>
> Does anyone have any suggestions about other lab-science related  
> video clips that you would like to see?
>
> If there are several different choices provided, we can rotate them  
> on a daily, weekly, or a random basis. I'll set up a page where the  
> list of available videos is maintained.
>
> These videos can come from YouTube or other web video sites. Th only  
> requirement is that they be licensed to allow us to play them and  
> that, preferably, they should be located on someone else's server  
> besides OpenWetWare.org.
>
> If you have a video to contribute, we can simply upload it to  
> YouTube and play it from there. Nobody should have to pay for video  
> file download time when YouTube will gladly do it for free.
>
> Thanks.
>
> Bill Flanagan
> OpenWetWare.org
>
>
> _______________________________________________
> OpenWetWare Steering Committee Mailing List
> sc at openwetware.org
> http://mailman.mit.edu/mailman/listinfo/oww-sc


From tk at csail.mit.edu  Fri Dec 21 16:31:36 2007
From: tk at csail.mit.edu (Tom Knight)
Date: Fri, 21 Dec 2007 16:31:36 -0500
Subject: [OWW-SC] Open access in the new funding bill
Message-ID: <eb32aae50cd9f76ae7b19702a54c03f2@csail.mit.edu>

Open-Access Provision Tucked Into Omnibus Spending Bill
December 21, 2007
By a GenomeWeb staff reporter
-------------- next part --------------
A non-text attachment was scrubbed...
Name: not available
Type: text/enriched
Size: 476 bytes
Desc: not available
Url : http://mailman.mit.edu/pipermail/oww-sc/attachments/20071221/a9abd3f2/attachment.bin
-------------- next part --------------
A non-text attachment was scrubbed...
Name: clearpixel.gif
Type: image/gif
Size: 43 bytes
Desc: not available
Url : http://mailman.mit.edu/pipermail/oww-sc/attachments/20071221/a9abd3f2/attachment.gif
-------------- next part --------------


NEW YORK (GenomeWeb News) ? Tucked away in a small section of the 
massive omnibus budget bill that bounced around Capitol Hill this week, 
as members of the House and Senate fought over funding for wars in Iraq 
and in Afghanistan, is a very brief paragraph that would require 
research findings from studies funded by the National Institutes of 
Health to be made publicly available within a year.
?
The language of the law is summed up in only about 70 words of the 
roughly 1,400 page fiscal spending bill, which folds together the 2008 
budgets for much of the US Federal Government, and is little more than 
an afterthought politically as the White House scans the bill for 
places to trim what it has termed ?irresponsible? spending.
?
While the debates in Washington this week have been about war funding, 
fiscal discipline, and taxes, for academics and other scientists 
looking to keep abreast of federally funded biomedical research, and 
for the publishers of academic journals, this little mandate may hit 
closest to home.
?
The law states that NIH-funded investigators submit electronic versions 
of their final, peer-reviewed manuscripts to the National Library of 
Medicine?s PubMed Central so that the studies may be made publicly 
available no later than twelve months after publication.
?
The legislation has been revived several times. It was introduced in 
2006 by Senator John Cornyn (R - Tex.) and by Senator Joseph Lieberman 
(I-Conn.), and it has received strong support from interest groups, 
academics, and those lobbying for greater openness for tax-funded 
enterprises. But it has been opposed by groups representing the 
publishers of academic journals.
?
The Federal Research Public Access Act of 2006 originally went farther 
than the current law would, as it aimed to make all taxpayer-funded 
research from agencies spending over $100 million that is not stamped 
classified available to the public. Another bill, which was focused on 
the NIH, had a six-month deadline for public availability.
?
The added six months in the new legislation was meant to be an 
accommodation to the publishing industry, which had fought the 
legislation.
?
But the new waiting period of up to one year is consistent with current 
NIH policy, which encourages researchers to deposit their articles with 
PubMed no later than twelve months after publication.
?
?The public is entitled to fast and free access to the scientific 
articles reporting on the results of research conducted using public 
funds,? Heather Joseph, executive director of the Scholarly Publishing 
and Academic Resources Coalition, wrote in an e-mail interview with 
GenomeWeb Daily News.
?
Public access increases the usage of research publications, Joseph 
added, which in turn ?accelerates the return on the public's investment 
in research ? by stimulating further discovery and innovation, and 
advancing the translation of this knowledge into direct public 
benefits.?
?
President Bush said yesterday he has asked his budget director, Jim 
Nussle, to review the omnibus bill to look for areas where spending can 
be trimmed. That hunt for cost cuts may not have any effect on the 
open-access law, as the bill does not budget any specific funds to 
support the legislation.

-------------- next part --------------
A non-text attachment was scrubbed...
Name: not available
Type: text/enriched
Size: 3583 bytes
Desc: not available
Url : http://mailman.mit.edu/pipermail/oww-sc/attachments/20071221/a9abd3f2/attachment-0001.bin
-------------- next part --------------
A non-text attachment was scrubbed...
Name: clearpixel.gif
Type: image/gif
Size: 43 bytes
Desc: not available
Url : http://mailman.mit.edu/pipermail/oww-sc/attachments/20071221/a9abd3f2/attachment-0001.gif

From vincent.rouilly at gmail.com  Sat Dec 29 06:44:48 2007
From: vincent.rouilly at gmail.com (Vincent Rouilly)
Date: Sat, 29 Dec 2007 12:44:48 +0100
Subject: [OWW-SC] Laboratory and Video Web Site Awards organised by The
	Scientist
Message-ID: <9be702ce0712290344w2da8b22bxfc5f546bfffe554b@mail.gmail.com>

Hi,

Awards organised by The Scientist to promote a better scientific
communication on the web. We should try to get some OWW Labs nominated next
year:
http://www.the-scientist.com/winners/index/

Open Science and daily blogging at Rosie Redfield's Lab:
http://www.boingboing.net/2007/12/04/lab-requires-everyon.html

Source:
http://pimm.wordpress.com/2007/12/20/we-have-only-winners-at-the-laboratory-website-awards/

best,

Vincent.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071229/562f823a/attachment.htm

From wjf42 at MIT.EDU  Mon Dec 31 17:25:51 2007
From: wjf42 at MIT.EDU (Bill Flanagan)
Date: Mon, 31 Dec 2007 17:25:51 -0500
Subject: [OWW-SC] Happy New Years
Message-ID: <26428aaa0712311425p5330f4e5j381ba30602df0d57@mail.gmail.com>

To all,

Have a great New Year.


Sincerely,

Bill Flanagan
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.mit.edu/pipermail/oww-sc/attachments/20071231/2fd51a44/attachment.htm