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[WIP] CLI and init improvements#509

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groutr wants to merge 14 commits intonextstrain:masternextstrain/augur:masterfrom groutr:fast_cligroutr/augur:fast_cliCopy head branch name to clipboard

+532-536

Commits

Commits on Mar 31, 2020

• Remove logic from __init__

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  deff026

• New fast cli.

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  8bdc6be

• Remove register_arguments functions.

  Show description for f7d9abe
  groutr

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  f7d9abe

• Add version_info tuple

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  dc87410

• Finish adding options

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  4102116

• Make single-use imports local

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  d98b4df

• Remove unused nthreads_value imports

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  a47293c

• Fix module import name.

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  e33e82c

• Fix sequences option

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  e53f124

• Remove unnecessary recursion limit.

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  1836c43

• Merge branch 'master' into fast_cli

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  753a31e

• Add missing precision option.

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  49f4be5

• Fix bin/augur for new cli.

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  93c1484

• Rename function to main()

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