sdouglas/cadnano2

cadnano2's Issues

Paint tool colors not saving

1. Set colors in paint tool
2. Switch back to select tool
3. Switch back to paint tool

The colors are reset back to Black and Red.

Slice View inconsistency with crossovers

1. Click Cadnano
2. Click Honeycomb
3. Add two adjacent scaffold strands
4. Add a crossover
5. Remove the non-crossed over scaffold strands

Note that the slice view thinks that the virtual helix is empty, and allows you to click and create another scaffold strand, even though it's already occupied.

Is this project still active/being maintained?

Paint tool color set to black on cancel

If you bring up the color picker and press cancel, the color gets set to Black, instead of not changing anything.

SyntaxError： invalid syntax

after execute “ python main.py" , Line 52 except Exception, e: SyntaxError invalid syntax

Error log, trying to delete wrong object number

1. Created 2 shaped:

• DNAShapeTransform_1
  • DNACylinderShape_1
• DNAShapeTransform_2
  • DNACylinderShape_2

2. Select both
   select -r DNAShapeTransform_1 DNAShapeTransform_2 ;

3. delete; (* please ignore the line numbers)

Traceback (most recent call last):
File "C:\cadnano2b\views\solidview\stranditem.py", line 171, in strandHasNewOligoSlot
self.updateColor(mID, strand.oligo().color())
File "C:\cadnano2b\views\solidview\stranditem.py", line 323, in updateColor
cmds.sets(meshName, forceElement="%sSG" % shaderName)
ValueError: No object matches name: DNACylinderShape_3

Is trying to delete the wrong object

Seems like inside file removeMsgCmd

def dagParentRemovedCallback(child, parent, clientData):

mom.removeIDMapping(mID, strand)

this line seems causing the issue in somehow.

thanks

Thiago

Undo delete crashes Maya

1. Create multiple strands.
2. Select in maya window.

1. Delete.
2. Undo.

1. Undo again.

About screen incomplete?

This is what I see when I open the about window:

Menu options don't do anything

In Maya,

View and File > Print... don't seem to do anything.

Endpoint doesn't track mouse on initial drag

Endpoint doesn't track the mouse when dragging an endpoint when it is not selected.
It's off by a few bases

Insertions and Skips get cleared on resizing

1. Create a strand and add some insertions.
2. Drag either endpoint to the right to resize. Insertion will disappear.

Remove redundant callbacks related to "click to Add" and selection

Bugs related to these are resolved, but they present a maintenance issue so the should be addressed sooner than later.

Deleting and reconstructing crossovers causes crash

1. Open Maya
2. Open Script Editor
3. Click CadNano
4. Click Honeycomb
5. Add 2 adjacent scaffold strands
6. Extend the strands all the way to the right
7. Add a crossover on the right (Creating a C with the right strands)
8. Delete the top left strand
9. Click on the crossover point on the top strand to break the crossover
10. Click again

// Warning: line 1: Nothing is selected. Select objects or components to delete. // 
# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 261, in itemChange
#     self.setParentItem(self.selectionbox.boxParent())
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 491, in boxParent
#     temp = self._itemGroup.childItems()[0].partItem()
#   File "c:\git\cadnano2\views\pathview\strand\stranditem.py", line 254, in partItem
#     return self._virtualHelixItem.partItem()
# AttributeError: 'NoneType' object has no attribute 'partItem'
# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 261, in itemChange
#     self.setParentItem(self.selectionbox.boxParent())
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 491, in boxParent
#     temp = self._itemGroup.childItems()[0].partItem()
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 130, in partItem
#     return self._strandItem.partItem()
#   File "c:\git\cadnano2\views\pathview\strand\stranditem.py", line 254, in partItem
#     return self._virtualHelixItem.partItem()
# AttributeError: 'NoneType' object has no attribute 'partItem'
# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 200, in mousePressEvent
#     getattr(self, toolMethodName)(modifiers, event, self.idx())  # call tool method
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 345, in selectToolMousePress
#     selectionGroup.processPendingToAddList()
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 123, in processPendingToAddList
#     item.modelSelect(doc)
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 488, in modelSelect
#     test = document.isModelStrandSelected(strand)
#   File "c:\git\cadnano2\model\document.py", line 147, in isModelStrandSelected
#     sS = strand.strandSet()
# AttributeError: 'NoneType' object has no attribute 'strandSet'
# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\customqgraphicsview.py", line 406, in mouseReleaseEvent
#     self._selectionLock.processPendingToAddList()
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 123, in processPendingToAddList
#     item.modelSelect(doc)
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 488, in modelSelect
#     test = document.isModelStrandSelected(strand)
#   File "c:\git\cadnano2\model\document.py", line 147, in isModelStrandSelected
#     sS = strand.strandSet()
# AttributeError: 'NoneType' object has no attribute 'strandSet'

Removing/Adding strand causes strandSet inconsistency

1. Open Maya
2. Open Script Editor
3. Click CadNano button
4. Add a scaffold strand
5. Delete the strand in 2D view
6. Add the scaffold strand back
7. Resize the strand

# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 200, in mousePressEvent
#     getattr(self, toolMethodName)(modifiers, event, self.idx())  # call tool method
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 345, in selectToolMousePress
#     selectionGroup.processPendingToAddList()
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 123, in processPendingToAddList
#     item.modelSelect(doc)
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 488, in modelSelect
#     test = document.isModelStrandSelected(strand)
#   File "c:\git\cadnano2\model\document.py", line 147, in isModelStrandSelected
#     sS = strand.strandSet()
# AttributeError: 'NoneType' object has no attribute 'strandSet'
# Traceback (most recent call last):
#   File "c:\git\cadnano2\views\customqgraphicsview.py", line 406, in mouseReleaseEvent
#     self._selectionLock.processPendingToAddList()
#   File "c:\git\cadnano2\views\pathview\pathselection.py", line 123, in processPendingToAddList
#     item.modelSelect(doc)
#   File "c:\git\cadnano2\views\pathview\strand\endpointitem.py", line 488, in modelSelect
#     test = document.isModelStrandSelected(strand)
#   File "c:\git\cadnano2\model\document.py", line 147, in isModelStrandSelected
#     sS = strand.strandSet()
# AttributeError: 'NoneType' object has no attribute 'strandSet'

Selection box missing when redoing after delete all

1. Create multiple strands.
2. Select all strands
3. Delete.
4. Undo until it's a blank document
5. Press and hold Ctrl+Shift+Z to redo

// Error: underlying C/C++ object has been deleted
Traceback (most recent call last):
File "c:/git/cadnano2/controllers/mayacontrollers/mayaSelectionContex.py", line 93, in selectionCallback
m.strandsSelected(helixList)
File "c:\git\cadnano2\controllers\mayacontrollers\mayaObjectManager.py", line 156, in strandsSelected
doc.win.pathroot.clearStrandSelections()
File "c:\git\cadnano2\views\pathview\pathrootitem.py", line 193, in clearStrandSelections
self._strandItemSelectionGroup.clearSelection(False)
File "c:\git\cadnano2\views\pathview\pathselection.py", line 237, in clearSelection
self.selectionbox.hide()
RuntimeError: underlying C/C++ object has been deleted //