[MOBY-l] Activity

[Vijay Narayanasamy]

Hi,

Regarding visualization I guess we can use "Graph Visualization" (Nodes and
Edges). After the database dump we need to have some script that extracts
all pairs of connected nodes. Once we have this we can feed that data as
parameter for Graph Visualization Applet. I even guess we can apply
transitive closure algorithm on this graph to decide the gaps. I have done
some work using graph visualization in the past.

Vijay

-----Original Message-----
From: Mark Wilkinson [mailto:markw at illuminae.com] 
Sent: Monday, August 18, 2003 7:15 PM
To: mobyl
Subject: [MOBY-l] Activity

Hi all, 

NEWS:  The object types text/plain, text/html, text/xml, ... and all
others that had a '/' character in them have been renamed to text-plain,
text-html, etc.  I designed the objects in an RDF design tool, and then
exported stuff to the database, but never considered what would happen
when these names were serialized into XML ('/' isn't a valid character
in an element name, for obvious reasons  :-) )  So, I had to go and
change the names.  Thanks to Vijay for spotting this error.  I know that
this change wont affect anyone because if anyone had been using these
objects your services would not have crashed immediately ;-)


Well, MOBY Central survived the move to mod_perl but my services did
not.  I just fixed them - the various sequence retrieval, blast, blast
parsing, and image retrieval services are back up and running.

Rebecca has asked for a "visualization tool" of sorts that will show the
possible connections between all extant services so that we can easily
see the "gaps" that need to be filled and work on those preferentially.
Does anyone have the time/motivation to work on this?  I certainly wont
get around to it for a while, and it is a non-trivial problem (beyond
just making a database dump to the screen and letting the user figure it
out for themselves...), but I agree that it is worth doing!  I even have
funding to pay for a student to work on things like this for a few
months if there are any takers...  :-)  :-)

Anyway, that's the news for the evening.

Cheers!

Mark

-- 
Mark Wilkinson <markw at illuminae.com>
Illuminae

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