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||["VizMapUI"] Redesign ||UCSD - Kei ||Code is checked in, need to implement some continuous mapping editors ||Pre-alpha status. Continuous editor is not fully functional || || | ||["VizMapUI"] Redesign ||UCSD - Kei ||Code is checked in, need to implement some continuous mapping editors ||Pre-alpha status. Continuous editor is not fully functional || || |
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||Automatic Plugin Download || ISB - Sarah || || PluginManager API and dialog code in place, writing documentation || testing || | ||Automatic Plugin Download ||ISB - Sarah || ||PluginManager API and dialog code in place, writing documentation ||testing || |
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||Peformance (speed + memory) profiling ||UCSD - Mike, AMC - Piet ||1 week || Framework complete, just need to add a few more events ||1 week || ||Pathway Commons Connectivity ||MSKCC, Gary ||ETA, May 7. || Plugin and webservices API in progress. || 1.5 weeks || ||["Filters UI Redesign"] ||MSKCC - Ethan, UCSD - Mike, Peng || ||RFC is in progress || || ||Library Reduction / Cleanup ||ISB - Sarah ||1 week || ongoing || finished || ||Web Services / Database Connectivity Guidelines ||ISB - Sarah, UCSF - Alex ||RFC started, discussions ongoing ||ongoing || Planning for 2.6|| |
||Peformance (speed + memory) profiling ||UCSD - Mike, AMC - Piet ||1 week ||Framework complete, just need to add a few more events ||1 week || ||Pathway Commons Connectivity ||MSKCC, Gary ||ETA, May 7. ||Plugin and webservices API in progress. ||1.5 weeks || ||["Filters UI Redesign"] ||MSKCC - Ethan, UCSD - Mike, Peng || ||Implementation is in progress ||4 weeks || ||Library Reduction / Cleanup ||ISB - Sarah ||1 week ||ongoing ||finished || ||Web Services / Database Connectivity Guidelines ||ISB - Sarah, UCSF - Alex ||RFC started, discussions ongoing ||ongoing ||Planning for 2.6 || |
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||Testing ||AMC - Piet, Pasteur - Tero || || ||1 week|| ||Undo Manager ||AMC - Piet, UCSD - Mike || || Checked in/awaiting feedback || testing || ||Interactive Layout (Bubble, Snap-To) ||UCSF - Alex, Agilent - Allan K, MSKCC - Ben ||1-2 weeks ||bubble-router mostly implemented, nearing internal release to core developers ||Plan to release as plugin with 2.5|| ||Layers / Annotation / UI for custom nodes ||UCSF - Alex, Agilent - Allan K, MSKCC - Ben ||TBD (requires further study of renderer) ||some initial functionality implemented, and utilized in bubble router prototype ||Planning for 2.6|| |
||Testing ||AMC - Piet, Pasteur - Tero || || ||1 week || ||Undo Manager ||AMC - Piet, UCSD - Mike || ||Checked in/awaiting feedback ||testing || ||Interactive Layout (Bubble, Snap-To) ||UCSF - Alex, Agilent - Allan K, MSKCC - Ben ||1-2 weeks ||bubble-router mostly implemented, nearing internal release to core developers ||Plan to release as plugin with 2.5 || ||Layers / Annotation / UI for custom nodes ||UCSF - Alex, Agilent - Allan K, MSKCC - Ben ||TBD (requires further study of renderer) ||some initial functionality implemented, and utilized in bubble router prototype ||Planning for 2.6 || |
Release 2.5 Use Cases / Overall Themes
- Pathway / Annnotation
- Usability
- Navigation / Find
Timeline
Target Release Date: June 1, 2007
Release 2.5 Features
TODO
Name |
Lead Group |
Time Required |
Status |
Remaining Development Time |
Layout Manager / Broker |
UCSF - Scooter |
|
checked in/awaiting feedback |
testing |
Groups (formerly known as metanodes |
UCSF, Agilent |
|
Completed API and two client plugins (namedSelectionPlugin, metanodePlugin2) |
testing |
Hyperedges |
Agilent |
1-2 weeks |
finalizing documentation, testing |
|
Document Event Handling (preliminary work to event handling refactoring, write Doclets) |
Everyone |
|
|
|
["VizMapUI"] Redesign |
UCSD - Kei |
Code is checked in, need to implement some continuous mapping editors |
Pre-alpha status. Continuous editor is not fully functional |
|
Plugin Website |
UCSD - Peng |
10 weeks |
|
|
Automatic Plugin Download |
ISB - Sarah |
|
PluginManager API and dialog code in place, writing documentation |
testing |
Linkout from Attribute Browser |
UCSD - Kei |
1-2 weeks |
Prototype is already there, but need to integrate it with Linkout plugin. |
|
Create cytoscape-helpdesk |
UCSD - Peng |
2 weeks |
FAQ is in progress |
|
Peformance (speed + memory) profiling |
UCSD - Mike, AMC - Piet |
1 week |
Framework complete, just need to add a few more events |
1 week |
Pathway Commons Connectivity |
MSKCC, Gary |
ETA, May 7. |
Plugin and webservices API in progress. |
1.5 weeks |
["Filters UI Redesign"] |
MSKCC - Ethan, UCSD - Mike, Peng |
|
Implementation is in progress |
4 weeks |
Library Reduction / Cleanup |
ISB - Sarah |
1 week |
ongoing |
finished |
Web Services / Database Connectivity Guidelines |
ISB - Sarah, UCSF - Alex |
RFC started, discussions ongoing |
ongoing |
Planning for 2.6 |
Usability Assessment |
Pasteur, ISB - Sarah |
ongoing |
ongoing |
|
Testing |
AMC - Piet, Pasteur - Tero |
|
|
1 week |
Undo Manager |
AMC - Piet, UCSD - Mike |
|
Checked in/awaiting feedback |
testing |
Interactive Layout (Bubble, Snap-To) |
UCSF - Alex, Agilent - Allan K, MSKCC - Ben |
1-2 weeks |
bubble-router mostly implemented, nearing internal release to core developers |
Plan to release as plugin with 2.5 |
Layers / Annotation / UI for custom nodes |
UCSF - Alex, Agilent - Allan K, MSKCC - Ben |
TBD (requires further study of renderer) |
some initial functionality implemented, and utilized in bubble router prototype |
Planning for 2.6 |
Papers |
Everyone |
|
|
|
Tutorials |
Unassigned |
|
|
|
Bug Fixing |
Everyone |
|
|
|
Remove Deprecation Warnings |
Everyone |
ongoing |
ongoing |
|
Postponed
Name |
Lead Group |
Time Required |
Status |
Custom Node / Edge Graphics (MIMS) |
UCSF - Alex, Agilent - Allan K, MSKCC - Ben |
|
|
Cytoscape Class Cleanup |
MSKCC - Ethan |
|
|
Combining Attributes / Formulas |
MSKCC - Ethan, UCSF - Scooter, Alex |
|
|
GINY Refactoring |
UCSD - Mike |
|
|
Properties / XML Config |
UCSD,UCSF - Scooter |
1 month (? Depends on the goal) |
Planning |
CyAttributes Name Clashes |
MSKCC - Ethan |
|
Lower priority; will be completed if there is time, after Pathway Commons and Filters. |