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4.2.4.1 the log4j strikes back
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@lbergelson lbergelson released this 04 Jan 22:10
· 313 commits to master since this release
4.2.4.1
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lbergelson Louis Bergelson
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Learn about vigilant mode.
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Learn about vigilant mode.

Download release: gatk-4.2.4.1.zip
Docker image: https://hub.docker.com/r/broadinstitute/gatk/

Highlights of the 4.2.4.1 release:

  • Fix more newly discovered log4j2 vulnerabilities. Now that people are paying attention they are finding all sorts of things.

Full list of changes:

  • Build System

    • Upgrade our build from Gradle 5.6 to the newest 7.3.2 (#7609)
    • This fixes some gradle bugs which were blocking development

  • GenomicsDB

    • Update to genomicsdb 1.4.3 (#7613) which fixes #7598
    • Fix bug which caused --max_alternate_alleles to be ignored when using GenomicsDB (#7576)

  • Miscellaneous Changes

    • Update .dockstore.yml (#7595)
    • Fix developer doc in AS_RMSMappingQuality (#7607)

  • Dependencies

    • Update log4j to 2.17.1 (#7624)(#7615)
    • Upgrade to Barclay 4.0.2. (#7602)
    • Update to genomicsdb 1.4.3 (#7613)
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