Code

2y build targets#14

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trvrb merged 12 commits intomasternextstrain/avian-flu:masterfrom 2y-build-targetsnextstrain/avian-flu:2y-build-targetsCopy head branch name to clipboardApr 23, 2024

+55,990-40

Commits

Commits on Apr 3, 2024

• starting to stub out an h5nx build that is subsetted to the past 2 years

  

  lhmoncla

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• adding in wildcard arguments that differ for all time and 2 year builds

  

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Commits on Apr 8, 2024

• adding new config, clades, and reference files for 2 year and all time h5nx builds

  

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• updating time for 2 year build to '2Y', and adding a function to output the clock rate and clock rate standard deviation for the 2 year build

  

  lhmoncla

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Commits on Apr 17, 2024

• adding another dairy cow and cat samples to include file

  

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Commits on Apr 22, 2024

• adding a time wildcard to allow for automatic building of a 3 year build and an all-time build. This commit introduces this new wildcard structure, as well as new functions for assigning strict clo…

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• fixing cleavage site export to include wildcards

  

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  94b2641

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• adding in James's suggested syntax and function to specify that only h5nx and h5n1 should get 3 year builds

  

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• Switch from --sequences-per-group to --subsample-max-sequences

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  trvrb

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  85d9e42

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• Update from "3-year" target to "2y" target

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• Update CI target

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Commits on Apr 23, 2024

• Pull in changes from master into 2y branch

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