Fix read vs ref dotplot view

[cmdcolin]

The read vs ref dotplot view was broken on main since probably about #2746 which added more ref name renaming to dotplot

This fixes the read vs ref dotplot view by using the waitForAssembly utility function in the ref name renaming instead re-implementing it, and the base utility function does not go into infinite waiting if it doesn't find the assembly in the list as is the case with the assemblies used in the dotplot (they are not part of the assemblymanager)

[cmdcolin]

adds integration test for this workflow also

[codecov]

Codecov Report

Merging #3007 (5504771) into main (ec78642) will increase coverage by 0.53%.
The diff coverage is 50.00%.

@@            Coverage Diff             @@
##             main    #3007      +/-   ##
==========================================
+ Coverage   60.79%   61.33%   +0.53%     
==========================================
  Files         584      584              
  Lines       26584    26584              
  Branches     6437     6437              
==========================================
+ Hits        16163    16305     +142     
+ Misses      10114     9972     -142     
  Partials      307      307              

Impacted Files	Coverage Δ
packages/core/assemblyManager/assemblyManager.ts	71.62% <50.00%> (ø)
packages/core/util/when.ts	40.54% <0.00%> (-2.71%)	⬇️
.../linear-genome-view/src/LinearGenomeView/index.tsx	84.93% <0.00%> (-0.35%)	⬇️
plugins/dotplot-view/src/DotplotView/model.ts	58.29% <0.00%> (+0.85%)	⬆️
plugins/dotplot-view/src/index.ts	100.00% <0.00%> (+3.57%)	⬆️
...otplot-view/src/DotplotRenderer/DotplotRenderer.ts	75.59% <0.00%> (+14.17%)	⬆️
...s/dotplot-view/src/DotplotView/components/Axes.tsx	87.69% <0.00%> (+32.30%)	⬆️
plugins/dotplot-view/src/util.ts	61.01% <0.00%> (+59.32%)	⬆️
...ns/dotplot-view/src/DotplotView/components/util.ts	83.33% <0.00%> (+60.60%)	⬆️
plugins/dotplot-view/src/DotplotReadVsRef.ts	71.79% <0.00%> (+71.79%)	⬆️

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