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align-DNA v7.1.0

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@zhuchcn zhuchcn released this 29 Jul 23:52
v7.1.0
e4696b6
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CHANGELOG

Added

  • HISAT2 aligner functionality and the option to run either BWA-MEM2/HISAT2 or both at once. The default aligner is BWA-MEM2.
  • A python script to generate config files from command line.

Changed

  • Update config file to process inputs for each aligner separately. Old config files still work and BWA-MEM2 will be run as usual.
  • #112 Update BWA-MEM2 and SAMtools docker to SAMtools 1.12
  • #121 Update version information in the main script
  • #126 Update output directory structure
  • Process names standardized
  • #128 Use explicit tab delimiters to ensure proper program tagging
  • Updated validation docker image to v2.1.5

Removed

  • Dockerfiles for BWA-MEM2, jvarkit-cmpbams, and Picard removed and moved to their own separate repositories (docker-BWA-MEM2, docker-jvarkit-cmpbams, and docker-Picard, respectively).
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