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Integrate SPRTA of CMAPLE into IQ-TREE #414

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trongnhanuit
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Integrate SPRTA of CMAPLE into IQ-TREE

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  • Please add help message for SPRTA and aLRT
  • also print .nexus file for aLRT.
  • Fix the nexus file as discussed.

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change --zero-branch-supp to --sprta-zero-branch or something simpler
change --out-alter-spr to --sprta-other-places
change .nexus to .nex
make sure that the bracket notations in nexus file follow other features in IQ-TREE such as concordance factor.
remove all help usages in usage() function, you only need to keep them in usage_iqtree

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bqminh commented Apr 15, 2025

Am I right that this is now merged into iqtree3 instead?

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trongnhanuit commented Apr 15, 2025 via email

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bqminh commented Apr 21, 2025

ok then I close this pull request without merging

@bqminh bqminh closed this Apr 21, 2025
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