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Minibwa-0.3 (r391)

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@lh3 lh3 released this 28 Jun 14:14
v0.3
a679d17

Notable changes:

  • New feature: added the mem subcommand to mimic the bwa-mem command-line
    interface (CLI). Most input/output options and commonly used options are
    retained; unsupported or incompatible bwa-mem options are silently ignored.
    For commonly used bwa-mem command lines, replacing "bwa mem" with "minibwa
    mem" often gives comparable outputs.

  • New feature: added option -H to inject arbitrary header lines.

  • New feature: added the XA tag to encode secondary alignments if there are
    not too many (#25).

  • Bugfix: SAM header was outputted to stdout even if an output file is
    specified.

  • Bugfix: seed sorting was incorrectly implemented (#39).

  • Bugfix: compiled mimalloc missed the aligned_alloc function in C11 (#30).

  • Bugfix: methylation index was incorrectly generated under the low-memory
    indexing mode (#42).

(0.3: 28 June 2026, r391)

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