Bio-SamTools

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Version 1.12
    * Fixed the padded_alignments() method to correct "method not found"
      bug introduced in version 1.11.

Version 1.11
    * Fixed the padded alignments returned for hard-clipped alignments.

Version 1.10
    * Added a new Bio::DB::Bam method for caching remote files' indices in the
      temp directory. This is used by default by high-level API.
    * Fixed bug in soft and hard clipping code; query endpoints should be
      correct now.
    * Fixed bug in get_all_tags() which was choking on "Z" style tags and giving
      scrambled results.
    * $feature->query now reports the DNA query in canonical (ref)
      coordinates; only $feature->target reverse complements the query
      DNA to give the data actually read; cigar string is always in
      canonical coordinates

Version 1.09
    * Disabled checks for file readability when path is a remote BAM

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