Add .delta and .chain format adapters, fix ref name aliasing in synteny/dotplot views, and optimize very long CIGAR string in synteny view

[cmdcolin]

Fixes #1557
Fixes #2093

Adds a "comparative adapter" with PAFAdapter and DeltaAdapter. The PAFAdapter was in the dotplot plugin

Adapts some code from minimap2's paftools.js https://github.com/lh3/minimap2/blob/master/misc/paftools.js#L1853 (licensed MIT, cited in source code) to parse the delta file

[codecov]

Codecov Report

Merging #2746 (116b1d4) into main (ab41f01) will decrease coverage by 0.39%.
The diff coverage is 23.95%.

❗ Current head 116b1d4 differs from pull request most recent head b39d1b5. Consider uploading reports for the commit b39d1b5 to get more accurate results

@@            Coverage Diff             @@
##             main    #2746      +/-   ##
==========================================
- Coverage   60.63%   60.23%   -0.40%     
==========================================
  Files         566      571       +5     
  Lines       26348    26578     +230     
  Branches     6422     6472      +50     
==========================================
+ Hits        15976    16010      +34     
- Misses      10047    10243     +196     
  Partials      325      325              

Impacted Files	Coverage Δ
...pes/renderers/ComparativeServerSideRendererType.ts	62.50% <0.00%> (-4.17%)	⬇️
packages/core/util/types/mst.ts	84.37% <ø> (ø)
...parative-adapters/src/ChainAdapter/ChainAdapter.ts	0.00% <0.00%> (ø)
...parative-adapters/src/DeltaAdapter/DeltaAdapter.ts	0.00% <0.00%> (ø)
...ugins/comparative-adapters/src/PAFAdapter/index.ts	100.00% <ø> (ø)
plugins/dotplot-view/src/DotplotDisplay/index.ts	71.79% <ø> (ø)
...arative-view/src/LinearComparativeDisplay/index.ts	5.88% <ø> (ø)
...src/LinearSyntenyRenderer/LinearSyntenyRenderer.ts	0.00% <0.00%> (ø)
...tenyRenderer/components/LinearSyntenyRendering.tsx	1.28% <0.00%> (-0.07%)	⬇️
...ew/src/LinearSyntenyView/components/ImportForm.tsx	0.00% <0.00%> (ø)
... and 17 more

---

Continue to review full report at Codecov.

Legend - Click here to learn more
Δ = absolute <relative> (impact), ø = not affected, ? = missing data
Powered by Codecov. Last update ab41f01...b39d1b5. Read the comment docs.

[cmdcolin]

this PR has a couple of extra changes

now supports loading chain files (e.g. from UCSC) files to display synteny.

this combo of

• PAF (minimap)
• .delta (mummer)
• .chain (ucsc pipeline)

this covers a good amount of basic "whole genome alignment" formats

this PR also...

• adds refname renaming for all of these (fixes Add ref name renaming for synteny datasets #2093), which was needed to test a UCSC chain file (which has chr prefixes, while our code does not). it does this by adding assembly name to features on webworker, and then using assembly.getCanonicalRefName on the main thread
• adds an optimization for displaying very long chain file data which can have very large cigar strings, so it avoids drawing very small synteny rectangles less than 0.5px wide (e.g. drawing a single bp insertion or deletion when viewing whole chromosomes)

example screenshot showing this liftover file https://hgdownload.cse.ucsc.edu/goldenpath/hg19/liftOver/hg19ToHg38.over.chain.gz (reads it gzipped from the remote url)

the import form for the dotplot and linear synteny import forms is redesigned to allow .delta, .chain, .paf, and .out files (mashmap)