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@daviesrob daviesrob released this 07 Apr 16:44
· 452 commits to develop since this release
1.15.1
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daviesrob
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Download the source code here: htslib-1.15.1.tar.bz2.(The "Source code" downloads are generated by GitHub and are incomplete as they are missing some generated files.)

  • Security fix: Fixed broken error reporting in the sam_cap_mapq() function, due to a missing hts_log() parameter. Prior to this fix it was possible to abuse the log message format string by passing a specially crafted alignment record to this function. (PR#1406)

  • HTSlib now uses libhtscodecs release 1.2.2. This fixes a number of bugs where invalid compressed data could trigger usage of uninitialised values. (PR#1416)

  • Fixed excessive memory used by multi-threaded SAM output on long reads. (Part of PR#1384)

  • Fixed a bug where tabix would misinterpret region specifiers starting at position 0. It will also now warn if the file being indexed is supposed to be 1-based but has positions less than or equal to 0. (PR#1411)

  • The VCF header parser will now issue a warning if it finds an INFO header with Type=Flag but Number not equal to 0. It will also ignore the incorrect Number so the flag can be used. (PR#1415)

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