network enabled research - the role of open source and open thinking
DESCRIPTION
Keynote talk given at the Bioinformatics Open Source Conference at the ISMB in Berlin on 19 July 2013. Discussed from the perspective of Open Source and open definitions how to think about networks and the potential for discontinuities and phase transitions as places where the expansion of networks can lead to significant changes in scientific capacity.TRANSCRIPT
http://www.flickr.com/photos/small_realm/6898449633 CC BY
Network Ready ResearchThe role of Open Source and Open Thinking
BOSC - Berlin - 19 July 2013Cameron Neylon
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Networks.
Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
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ircuit_of_the_Globe,_1869.jpg
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Many networks
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What can we...
Here’s another...
27 January 2009
http://gowers.wordpress.com/
27 January 2009
February 1 2009
http://gowers.wordpress.com/
“It is not the case that the aim of the project is [...to solve the problem...] I think that the chances of success even for this more modest aim are substantially less than 100%.”Tim Gowershttp://gowers.wordpress.com/2009/02/01/a-combinatorial-approach-to-density-hales-jewett/
27 January 2009
February 1 2009
March 10 2009
http://gowers.wordpress.com/
“It feels as though this is to normal research as driving is to pushing a car.”Tim Gowershttp://gowers.wordpress.com/2009/02/01/questions-of-procedure/#comment-1701
Successful open projects...
...exploit order-disorder transitions
...or...
...network transitions can be exploited...
...by adopting open approaches
“Open”isWhat
about anyway?
http://www.flickr.com/photos/tawheedmanzoor/2309847575 CC BY
“Open”doesWhat
mean?
http://www.flickr.com/photos/yourdon/3088582622
...sharing what we already create
The license must not restrict anyone from making use of the program in a specific field of endeavor.Open Source Definition - http://opensource.org/osd
The license must not discriminate against any person or group of persons..Open Definition - http://opendefinition.org/okd
By Open Access we mean...permitting any users to read, download, copy, distribute,
print, search, or link to the full texts of these articles, crawl them for indexing, pass them as data to software, or use them for any other lawful purpose, without financial, legal, or
technical barriers other than those inseparable from gaining access to the internet itself.
Budapest Open Access Initiativehttp://www.budapestopenaccessinitiative.org/read
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For any
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“Open”does beingWhat
mean?
My work can help someone...
http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
P = InterestFriction
x N (help someone)
P = InterestFriction
x N (help someone)
Proportion that could use your work
Usability of your work
Number of people you can
reach
Someone out there can help...
http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
P = InterestFriction
x N (getting help)
P = InterestFriction
x N (getting help)
Proportion that create work that you can use
Ease of contributing
Number of people you can
reach
P = InterestFriction
x N (getting help)
Fixed
P = InterestFriction
x N (getting help)
As small as possible...
P = InterestFriction
x N (getting help)
As small as possible...
As large as possible...
Being open is acting to reduce friction and to maximize N...
...for both outgoing and incoming information...
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Enable forking..
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...and merging
What tools...?
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Repositories...
...documentation.
...VMs...
...continuous integration...
...unit tests...
...issue trackers...
...cloud.
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http://www.software.ac.uk/blog/2013-07-09-recomputation-manifesto
http://ivory.idyll.org/blog/vms-considered-harmful.html
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Different audiences...
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Different audiences...
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...different supports.
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...different supports.
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But how do you support the
unexpected...?
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http://www.flickr.com/photos/robbie73/3387189144 CC-BY-SA
http://www.flickr.com/photos/mukumbura/4052671706 CC-BY-SA
If it’s near zero cost...
http://www.flickr.com/photos/gaelx/6340466785 CC BY-SA
...and reduces
...or increases
http://www.flickr.com/photos/jennycu/4527765710 CC BY
...then do it.
If it costs...
http://www.flickr.com/photos/pagedooley/5000489105 CC BY
...but helps a known audience
http://www.flickr.com/photos/gaelx/6340466785 CC BY-SA
...and reduces
...or increases
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...for all...
...then do it.
Can move it upstream...
http://flickr.com/photos/jason_burmeister/2053139930 CC-BY
...use shared platforms
http://www.flickr.com/photos/37984062@N03/3495256118 CC-BY-SA
http://www.flickr.com/photos/mdpettitt/3455884055 CC-BY
...share the load
...then...
http://www.flickr.com/photos/mecklenburg/5026128169 CC BY-SA
Something is missing....
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No-one ever got...
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one of these...
...for infrastructure
http://www.flickr.com/photos/joshwept/5689555989/ CC BY
Hack the incentives system...?
More of the same...?
http://www.flickr.com/photos/levork/5026708729 CC BY-SA
http://www.flickr.com/photos/yakobusan/2436481628 CC-BY
Community architecture...
...open in the foundations
http://www.flickr.com/photos/56380734@N05/7852142720 CC-BY-SA
Reduce friction...
http://www.flickr.com/photos/g_kat26/3535474947 CC-BY-SA
...and support sharing...
http://www.flickr.com/photos/cogdog/5910598311 CC BY-SA
http://www.flickr.com/photos/dno1967b/6295812307 CC BY
...but also merging
Where are the opportunities?
Points of nucleation?
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Where are we close to a phase transition?
http://www.flickr.com/photos/mararie/2185487355 CC BY-SA
That’d be a problem for people who know networks...