Refactor com.intel.genomicsdb package references to org.genomicsdb

[nalinigans]

See Issue 5277 - Migrate to org.genomicsdb fork.

The first genomicsdb 1.0.0.beta jar consists of only a refactoring of all the packages to org.genomicsdb. Note that this pass should have no performance implications compared to the last Intel release as there is no change other than refactoring.

Issues 5568-buffer resizing excessive logging and 5342-file synching error will both be addressed in the next release.

[codecov-io]

Codecov Report

Merging #5587 into master will increase coverage by 0.002%.
The diff coverage is n/a.

@@              Coverage Diff               @@
##             master     #5587       +/-   ##
==============================================
+ Coverage     87.04%   87.042%   +0.002%     
- Complexity    31490     31491        +1     
==============================================
  Files          1924      1924               
  Lines        145189    145189               
  Branches      16082     16082               
==============================================
+ Hits         126373    126376        +3     
+ Misses        12958     12955        -3     
  Partials       5858      5858

Impacted Files	Coverage Δ	Complexity Δ
...e/hellbender/tools/genomicsdb/GenomicsDBUtils.java	86.047% <ø> (ø)	8 <0> (ø)	⬇️
...ls/genomicsdb/GenomicsDBImportIntegrationTest.java	88.47% <ø> (ø)	82 <0> (ø)	⬇️
...institute/hellbender/engine/FeatureDataSource.java	76.471% <ø> (ø)	42 <0> (ø)	⬇️
.../hellbender/tools/genomicsdb/GenomicsDBImport.java	78.195% <ø> (ø)	53 <0> (ø)	⬇️
...e/hellbender/engine/GenomicsDBIntegrationTest.java	97.959% <ø> (ø)	11 <0> (ø)	⬇️
...der/tools/genomicsdb/GenomicsDBImportUnitTest.java	86.207% <ø> (ø)	9 <0> (ø)	⬇️
...lotypecaller/readthreading/ReadThreadingGraph.java	88.608% <0%> (-0.253%)	144% <0%> (-1%)
...ithwaterman/SmithWatermanIntelAlignerUnitTest.java	60% <0%> (ø)	2% <0%> (ø)	⬇️
...nder/utils/runtime/StreamingProcessController.java	67.773% <0%> (+0.474%)	33% <0%> (ø)	⬇️
...utils/smithwaterman/SmithWatermanIntelAligner.java	80% <0%> (+30%)	3% <0%> (+2%)	⬆️

[droazen]

👍 looks good -- merging