Added Java Bayesian Gaussian Mixture Model backend to new annotation-based filtering tools.

[samuelklee]

No description provided.

[gatk-bot]

Github actions tests reported job failures from actions build 3706238005
Failures in the following jobs:

Test Type	JDK	Job ID	Logs
conda	8	3706238005.3	logs

[samuelklee]

Hmm, an interesting test failure—seems like serialization of Guava ImmutableList might not be cross compatible between Java 8 and 11 (the test file attempting to be deserialized here was generated using Java 11). @cmnbroad what’s the timeline for getting rid of Java 8?

[gatk-bot]

Github actions tests reported job failures from actions build 3832724030
Failures in the following jobs:

Test Type	JDK	Job ID	Logs
conda	8	3832724030.3	logs

[codecov]

Codecov Report

Merging #8132 (28ff856) into master (757112f) will increase coverage by 0.020%.
The diff coverage is 85.791%.

Additional details and impacted files

@@               Coverage Diff               @@
##              master     #8132       +/-   ##
===============================================
+ Coverage     86.642%   86.662%   +0.020%     
- Complexity     38963     39097      +134     
===============================================
  Files           2336      2341        +5     
  Lines         182730    183522      +792     
  Branches       20066     20117       +51     
===============================================
+ Hits          158321    159043      +722     
- Misses         17366     17399       +33     
- Partials        7043      7080       +37     

Impacted Files	Coverage Δ
...lkers/vqsr/scalable/ExtractVariantAnnotations.java	89.062% <ø> (-3.125%)	⬇️
.../scalable/data/LabeledVariantAnnotationsDatum.java	63.158% <ø> (-5.263%)	⬇️
...lable/modeling/VariantAnnotationsModelBackend.java	100.000% <ø> (ø)
...sr/scalable/modeling/VariantAnnotationsScorer.java	64.706% <ø> (-13.072%)	⬇️
...able/ExtractVariantAnnotationsIntegrationTest.java	98.214% <ø> (+1.548%)	⬆️
...rs/vqsr/scalable/TrainVariantAnnotationsModel.java	73.529% <45.161%> (-4.248%)	⬇️
...stering/BayesianGaussianMixtureModelPosterior.java	58.333% <58.333%> (ø)
...walkers/vqsr/scalable/ScoreVariantAnnotations.java	82.667% <66.667%> (+6.417%)	⬆️
...alable/modeling/PythonVariantAnnotationsModel.java	68.421% <66.667%> (ø)
...calable/modeling/BGMMVariantAnnotationsScorer.java	76.667% <72.000%> (+76.667%)	⬆️
... and 69 more

[gatk-bot]

Github actions tests reported job failures from actions build 3833183091
Failures in the following jobs:

Test Type	JDK	Job ID	Logs
conda	8	3833183091.3	logs