sdouglas / cadnanojs Goto Github PK

1. Paint tool needs to apply to other items connected to the StrandItem. (e.g. EndPointItem, another StrandItem connected by XoverItem)
2. When a staple strand is not in recommended length, its StrandItem's connection is bolded. However, the length used right now is only the length of strand itself and not the full oligos.
3. Seq tool needs to be applied to complementary strands as well as the whole oligo.

Steps to reproduce:

1. create new strand
2. sequence the strand
3. zoom

on an undo, the render function of pathhelixitemset does not delete old helices, it only adds new ones.

Another potential bug here is that if a different helix is assigned the same id, then how does the render function handle it.

• Errors crop up when holding down the alt key, and moving the red box.
• Once you create the red box however, the errors stop.

• ability to select, move, and delete multiple items
• currently, deletion via pressing DEL while choosing the item is missing

When hovering over EmptyHelixItems, sometimes a VirtualHelixItem is created as if we clicked even though the mouse just moves around.

No file should have any hardcoded colours. All colours being used must be named, and stored in the file utils/constants.js

the pencil tool currently does not draw on mousemove, and only draws when 3' and 5' endpointitems are clicked on sequentially. It should however replicate behaviour in cadnano2, and draw intermediate crossover items on mousemove.

from the code, it seems like PathBaseChangeItem is being redrawn each time on calling PathHelixSetItem.render(), while it needs to be drawn only at initialization?

• To comment all public methods in partitem.
• To indent code properly.

Currently, there is no constraints on moving XoverItem, unlike StrandItem and EndPointItem.

Currently, a single undo or redo only supports a single undo command. We need to add the ability to the undo library to perform multiple undo commands.

• The model object is changed, but the views are not updated correctly.

• graphics for strand-strand pencil tool
• strand-endpoint pencil tool is missing
• in cadnano2, xoveritem changes as you move your mouse after choosing an endpoint

The first attempt in opening jQuery dialog often results in a dialog that has only OK/Cancel and without the actual webpage.

When a strand with crossover at one end is broken, the XoverItem sometimes disappear and EndPointItems are shown when they should be hidden.

When you click on a strand of a helix, the prexover items do not get updated.

Buttons whose functionality is not implemented:

• new ,open, save, SVG, square, autostaple, autobreak
• RNum

Need to make a new button to allow row and column modification.