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make_viewframe takes forever on 100_000 entries #114

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sergpolly opened this issue Mar 18, 2022 · 1 comment
Open

make_viewframe takes forever on 100_000 entries #114

sergpolly opened this issue Mar 18, 2022 · 1 comment
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enhancement

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@sergpolly
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make_viewframe takes a very long time to create a viewframe out of "chromsizes"-like object when there are too many entries (>>10_000).
While underlying bioframe.from_any function is very quick ...

Probably worth looking into

PS context >100_000 chromsizes are nanopore reads, not a genome assembly
@gfudenberg
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hi @sergpolly -- to clarify is this from dictionary of chromsizes or a pd.Series ?

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@sergpolly @gfudenberg