MBFA(1)

📦 version 1.68.6, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💅 MBFA(1) — the mbfa manual, but make it make sense 💅

hii bestie 🫶 you've landed in the User Contributed Perl Documentation section, and this is the page for mbfa(1). it's giving "niche but powerful" and honestly? obsessed. let's go 💖

✨ NAME ✨

mbfa — Murasaki Binary FASTA format converter 🦋

that's it, that's the whole elevator pitch, periodt.

🌸 SYNOPSIS 🌸

mbfa [options...] [input] [input2 ...] #convert [input] and [input2 ...] to Muraaski Binary FASTA files

so the way this works is: you feed it [options...] if you want, then one or more [input] files ([input2 ...] and friends are extremely welcome), and it converts every single one of them into Murasaki Binary FASTA files. no cap. 🔥

🎀 DESCPRIPTION 🎀

(fr fr it's spelled <DESCPRIPTION> up there in the original and I'm not gonna fix it, we love her 👑)

okay so here's the tea, bestie. ☕

Murasaki processes sequence data using a 2-bit format, where each base is represented using 2 bits. lowkey genius. and yeah, there are a number of pre-existing formats that do similar things — but here's the catch: in particular, Murasaki needs to know about the metadata that can't be expressed in just 2 bits (eg. where sequences of NNNNs are, sequence breaks when multiple sequences are included in a FASTA file, etc.). so instead of just vibing on 2 bits and hoping for the best, the MBFA format includes this data as well. 💅

Ordinarily? these files are generated automatically by Murasaki when it's first run on a new sequence. so if you're here manually converting stuff, you're the main character today. ✨

Because the file format is designed to mesh closely with Murasaki, the actual file extension will vary to reflect your architecture. so it'll generally be some form of .mbfa[48][48] — e.g. ".mbfa88" (that's the default gcc build on an amd64). architecture said "I'm different" and we respect it. 🧚

🔥 OPTIONS 🔥

  • --info / -i — shows metadata about each MBFA you specify. the receipts, basically. 🔍
  • --force / -f — by default mbfa will skip files that already have recent .mbfa files. this option forces the regeneration of those files, no matter how recent they are. yes ma'am, do it again. 💅
  • --fatal / -F — makes errors fatal. ordinarily, if you specify multiple files, mbfa will try to convert all of them even if one fails, emitting a warning. with --fatal it will stop and exit with an error if there's a problem. so like... dramatic mode. 💀
  • --fasta / -A — generates FASTA output corresponding based on the MBFA data, straight to stdout. going backwards, iconic behaviour honestly. 🌈
  • --help / -h, --version / -V, --verbose / -V — literally what you'd expect. no notes. 🙈

📜 LICENSE 📜

GNU General Public License, version 3 (GPLv3) — free software, as she should be. 🫶

🌈 AVAILABILITY 🌈

<http://murasaki.sourceforge.net> — go say hi. ✨

👑 AUTHOR 👑

Kris Popendorf <krisp@dna.bio.keio.ac.jp> — thank you for your service, legend. 🎀

🫶 SEE ALSO 🫶

aaaand that's the page!! this manual was brought to you by perl v5.10.1, dated 2010-05-31 — yes, she's an elder but she still ate, and the information is still undefeated. slay. 💖✨🦋

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