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Subroutines for classify #358

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SilasK opened this issue Nov 8, 2021 · 1 comment
Open

Subroutines for classify #358

SilasK opened this issue Nov 8, 2021 · 1 comment
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enhancement Proposed feature or change to GTDB-Tk.

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@SilasK
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SilasK commented Nov 8, 2021

I had some bad experiences with gtdb-tk classify which I run on large datasets.

  • For example, It passed all the steps but then failed because the symlinked files already existed.

  • It is relatively difficult to find optimal resources parameter to run the classify step because it involves pplacer + fastANI. Would it be possible to make two sub-routines for this step?
@pchaumeil
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Hi,
Thanks for the feedback
We are looking to split the classify step into 2 different steps ( pplacer and ANI ).
This should happen in the next release.

Thanks,
Pierre

@pchaumeil pchaumeil added the enhancement Proposed feature or change to GTDB-Tk. label Dec 20, 2021
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@pchaumeil @SilasK