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CHANGELOG.md

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Changelog

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

3.1.0 2022-03-05

Changed

  • make_variants_table_v2 is now the default variant table builder
  • gzip --fast is used to compress the genome table to better balance compression and upload performance

3.0.0 2022-02-27

Changed

  • make_variants_table_v2 uses multiprocessing to parallelize reading the MSA and creating the daily variants table to significantly improve performance

2.1.0 2021-08-04

Added

  • CHANGELOG.md will now document notable changes to Asklepian
  • environment.yml provides a conda configuration for the Asklepian environment

Changed

  • datafunk has been replaced by gofasta to significantly improve performance
  • go.sh has been updated to better document the global variables required to run, and additionally checks for those variables (exiting if they are not present)
  • Genome and variant table generation and uploading subroutines have been moved to go_genome.sh and go_variant.sh respectively
  • go.sh now calls the two table subroutines and uses wait to run them in parallel instead of serial
  • Variables have been tweaked to allow for easier configuration of tests