Bio::D...eatureI(3pm)

📦
version 1.7.5 · 4 versions
, in ubuntu resolute, ubuntu stonking

✨ NAME ✨

Bio::DB::SeqFeature::NormalizedFeatureI — the interface for normalized features, bestie 💖

(also, hi, the header up top is all shy and truncated like Bio::D...eatureI(3pm) — that's this page, and it lives in the User Contributed Perl Documentation, iykyk 🎀)

🌸 SYNOPSIS 🌸

none

That's it. That's the whole synopsis. No cap, there is genuinely nothing to instantiate here. 💀

🦋 DESCRIPTION 🦋

Okay so listen. This is an extremely simple interface. Like, so simple. It has exactly one method and that method is subfeatures_are_normalized(). And what does it do? It returns a true value. That's the whole job. She's a flag, she's an icon, she's a one-method queen 👑

Here's the lore: the feature classes over in Bio::DB::SeqFeature::Store will inherit this interface to flag that they're able to store subfeatures in a normalized way. And what does "normalized" mean here? It means the subfeature is actually contained in the Bio::DB::SeqFeature::Store database itself, and the parent feature is out here holding onto literally nothing but the subfeature's primary ID. Parent said "I don't carry baggage, I carry references." 💅

So if a class inherits this and subfeatures_are_normalized() comes back true, that's the vibe check passing: normalized storage, subfeatures in the database, parent holding the primary ID only. Slay. ✨

🙈 BUGS 🙈

None! 🎉

...but also, and I cannot stress this enough, the whole class design might be flawed. 😭 Not a documented bug, just a little existential crisis the author left in the docs for us. Respect the honesty fr fr.

🔥 SEE ALSO 🔥

  • bioperl
  • Bio::DB::SeqFeature
  • Bio::DB::SeqFeature::Store
  • Bio::DB::SeqFeature::Segment
  • Bio::DB::SeqFeature::GFF3Loader
  • Bio::DB::SeqFeature::Store::DBI::mysql
  • Bio::DB::SeqFeature::Store::bdb

Go read those if you want the full picture, bestie 🫶 the whole squad is linked up.

👑 AUTHOR 👑

Lincoln Stein <lstein@cshl.org>.

Copyright (c) 2006 Cold Spring Harbor Laboratory.

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself. 🌈

okay that's the whole page!! thanks for reading my little interface rant, ily, go normalize some features responsibly 💜🌸

sign-off time: this one came to you from perl v5.40.0, dated 2024-10-11, and the page was filed under the manual name Bio::D...eatureI(3pm) (yes the truncated lil header, she's doing her best). bye bestie!! 🎀✨🦋

📦 where this page comes from