General Overview / Requirements

[lpalbou]

Here is a Mockup Presentation of the workflow

User requirements:

• [ ] creating activity node
• [ ] edit activity node (on Noctua Form)
• [ ] adding causal relationship between two activity nodes
• [ ] removing causal relationship between two activity nodes
• [ ] edit causal relationship (on Noctua Form)
• [ ] keep activity node positions so the display stays the same after reload
• [ ] activity nodes label first thought as gene product names but we may want to aim for consistency, possibly using Activity + GP names (action item: try both)
• [x] (require more discussion on the Noctua Form side) abstract "Molecular Machine" as being either a "Gene Product" or "Complex", to enable the pattern "Activity" enabled_by "Molecular Machine"
• [ ] keep the look and feel of noctua graph editor, as much as possible

Also: do we want a collaborative feature on this ? (multiple persons editing the same model at the same time - @tmushayahama I don't think Noctua Form allows that at the moment, correct ?)

Technical requirements:

• [x] intended integration (see home page)
• [ ] be reusable
• [ ] reuse bbop-manager-minerva, bbop-response-barista, bbop-client-barista and check with noctua-repl
• [ ] check with @tmushayahama if a refresh() method is required
• [ ] get @kltm feedback for possible use of StencilJS to create this widget as a reusable vanilla web components
• [ ] weigh pros/cons on Cytoscape, SBGN viz, D3 for the actual visualization (fairly simple at this stage) or reuse the Noctua graph editor, removing many features

[lpalbou]

@pgaudet @vanaukenk please check the user requirements above when you have time

@tmushayahama @cmungall @kltm same thing for the technical requirements

[huaiyumi]

SBGN has an activity flow diagram format. SBGNViz is probably the best developed tool out there to create such type of diagram.