Revert "Upgrade htsjdk to v3.0.0. (#7867)"

[jamesemery]

This reverts commit ace7821. This is a necessary step in order for #7876 to be merged. We will re-instate this branch after that is merged.

[droazen]

👍 merge when tests pass

[codecov]

Codecov Report

Merging #7960 (ec9d1b6) into master (ace7821) will decrease coverage by 0.026%.
The diff coverage is 85.714%.

@@               Coverage Diff               @@
##              master     #7960       +/-   ##
===============================================
- Coverage     87.089%   87.063%   -0.026%     
- Complexity     36993     37013       +20     
===============================================
  Files           2217      2218        +1     
  Lines         173847    173760       -87     
  Branches       18791     18769       -22     
===============================================
- Hits          151402    151281      -121     
- Misses         15816     15893       +77     
+ Partials        6629      6586       -43     

Impacted Files	Coverage Δ
...bender/tools/funcotator/StrandCorrectedAllele.java	0.000% <ø> (ø)
...nstitute/hellbender/utils/haplotype/Haplotype.java	90.244% <ø> (ø)
...kers/haplotypecaller/AssemblyBasedCallerUtils.java	90.558% <80.000%> (+0.041%)	⬆️
...itute/hellbender/engine/spark/GATKRegistrator.java	100.000% <100.000%> (ø)
...er/tools/spark/sv/evidence/BreakpointEvidence.java	66.822% <0.000%> (-12.383%)	⬇️
...ute/hellbender/utils/reference/ReferenceUtils.java	73.529% <0.000%> (-5.418%)	⬇️
...on/FindBreakpointEvidenceSparkIntegrationTest.java	96.296% <0.000%> (-3.704%)	⬇️
.../hellbender/utils/python/PythonUnitTestRunner.java	75.410% <0.000%> (-3.279%)	⬇️
...rg/broadinstitute/hellbender/utils/SVInterval.java	90.000% <0.000%> (-2.857%)	⬇️
...ute/hellbender/tools/spark/utils/IntHistogram.java	86.335% <0.000%> (-2.484%)	⬇️
... and 18 more