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Fix shard ordering bug on some filesystems. #138

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Fix shard ordering bug on some filesystems. #138

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Commits on May 29, 2020

  1. Fix shard ordering bug on some filesystems. 

    * We were relying on the results of FileInputFormat.listStatus() returning a sorted set of statuses when loading multiple parts files.
  This is not a safe assumption on some files systems which return them in essentially random order.
  This corrects the problem by overriding listStatus in FileSplitInputFormat and sorting the results.
* See broadinstitute/gatk#5881 for additional information.
    @lbergelson
    lbergelson committed May 29, 2020
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Commits on Jun 2, 2020

  1. Improve read tests to check for content/order instead of just number … 

    …of reads
    @lbergelson
    lbergelson committed Jun 2, 2020
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Commits on Jun 3, 2020

  1. fix formatting

    @lbergelson
    lbergelson committed Jun 3, 2020
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