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revert nio sam file merger#2333

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lbergelson wants to merge 3 commits intomasterbroadinstitute/gatk:masterfrom lb_revert_nio_sam_file_mergerbroadinstitute/gatk:lb_revert_nio_sam_file_mergerCopy head branch name to clipboard

+125-21

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Commits on Jan 10, 2017

• Revert "Use SAMFileMerger from Hadoop-BAM."

  Show description for 0ebd4e2
  

  tomwhite

  authored and

  lbergelson

  committed
  0ebd4e2

• Revert "Write splitting-bai files when writing (non-sharded) BAM files from Spark. (#2169)"

  Show description for 40d3684
  

  tomwhite

  authored and

  lbergelson

  committed
  40d3684

• changing the way writing a single bam file works

  Show description for e78330b
  lbergelson

  committed
  e78330b