TableOfContents([2])

Oct. 2007 Architecture Meeting - Seattle

Participants: Mike Smoot, John Boyle, Alex Pico, Allan Kuchinsky, Sarah Killcoyne, Scooter Morris, Ilya Shmulevich

Slides or documents that were presented have been uploaded as attachments throughout the agenda list.

Goal

To put together a “shopping list” of ideas to present to the board regarding re-architecting Cytoscape. To accomplish this we kept the discussion high level, avoiding discussion of code or specific releases directly as those details would continue to be handled by the core development group as a whole.

Agenda

Lee Hood - Welcome Ilya Shmulevich - Notes from the Board attachment:Focus.ppt

Product Assessments

Powerpoint presentations for each package linked (except PathwayArchitect as requested):

Packages:

Discussion: Due diligence What do we like about these applications? Specifically look at the write-ups What have they done well, what might be useful to our users? attachment:DueDiligence.doc

ISB User Experiences

Discussion: Capture problems with Cytoscape Based on user experience and application discussions from the morning session attachment:UserExperience.doc

Discussion (for lead in to Friday) Review identified problems Discuss potential solutions attachment:DevPoints.doc

Practicalities of the Cytoscape Development Culture

Mike Smoot attachment:Practicalities.doc

Overview RFC’s

Break down the available RFCs into functional sets attachment:FunctionalSets.doc

Review the relevant RFCs and relate to identified problems

Match problems identified with RFCs Highlight problems which are not discussed in RFCs attachment:OrganizedProblems.doc

Planning based on problems and grouped RFC’s

Present high level ideas for solving the problems: including strategies for implementation, preliminary timelines, problems and dependencies Establish groups to work on adapting old (or producing new) RFCs Put together “shopping list” of ideas to present to board

RFC's In Progress

These RFC's were identified as those most important to the "shopping list" for the board. Some of these may have RFC's already and may be added to or rewritten, others are new. A new RFC template will be used that will include a project plan for each with some idea of the time it will take and the project dependencies. Each of these will be used as the "shopping list" of ideas for re-architecting that will be presented to the board in November 2007.

New RFC’s:

Missing in Current RFC’s:

Plugin Refactor

Relayering

Allan: note that Web front end also has compelling use case of support for collaboration via sharing of networks and data. I can add a small description to this RFC.

Funding for Cytoscape is provided by a federal grant from the U.S. National Institute of General Medical Sciences (NIGMS) of the Na tional Institutes of Health (NIH) under award number GM070743-01. Corporate funding is provided through a contract from Unilever PLC.

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