Cytoscape WikiCurrent state of DanielAbel's GSoC project.
Progress can also be tracked on the [http://daniel-abel.blogspot.com/ blog].
GSoC Project
For detailed description, etc., see the original project proposal at DanielAbel/GoogleSummerofCode2008.
TODO list
Before coding period:
- get svn account, checkout code, etc.
- wait for merge of cytoscape 2.6 to cytoscape 3.0 branch
Milestones
(not yet updated to reflect the two weeks of North America travel noted below)
- set up svn branches, eclipse, etc. (sometime before Maj. 26.)
- Maj. 28.: edge directionality unittests
- Maj. 30.: backend code needed for unittests to pass:
Jun. 6.: gui/plugins part of undirected edges (vizmapper, TableImport, etc.) (as these are gui-related things, I might not be able to create unittests for them, just as the rest of cytoscape's gui functionality is not really tested)
- Jun. 10.: unittests for local attributes
- Jun. 13.: local attributes unittests pass
- Jun. 20.: updates in some parts of cytoscape gui to use local attributes
Jun. 22-Jun.28.: NetSci 2008, no work during this week
Jul. 4.: local attributes usable everywhere in default installation of cytoscape (i.e. core & core plugins)
- Jul. 7: GSoC midterm. (although not milestone, important date)
- Jul. 11.: benchmarks for rendering speed
- Jul. 25.: backend changes needed for flexible line types
- Jul. 31.: saving / exporting custom line types (XGMML and .cys)
- Aug. 11.: vizmapper integration (using custom line types in preview dialog, etc.)
Implementation Plan
- write unittests
- merge changes from internal fork of earlier cytoscape
- for details, see text of proposal
Resources
- will set up branches in svn once cytoscape2.6 changes have been merged to the 3.0 branch
Contact Info
Personal Schedules
- start coding on Maj. 26.
Jun. 23th to Jun. 27th: I will be attending the NetSci 2008 conference
- July 14th to 20th: cytoscape retreat in Toronto
- July 20th to 26th: visiting relatives in Washington DC (and thus I won't be working on GSoC during this week)