PROKKA-CDD_TO_HMM(1)

💅 prokka-cdd_to_hmm — bestie's guide to rapid annotation of prokaryotic genomes

okay so picture this: it's prokka-cdd_to_hmm, a User Commands girlie from the prokka fam, and she's here to do rapid annotation of prokaryotic genomes. that's the whole NAME vibe. she takes your CDD download and turns it into HMM goodness. no cap. 🧚✨

✨ SYNOPSIS ✨

prokka-cdd_to_hmm [options]  # will write LIB.aln and LIB.hmm

like, you run her, and she will write LIB.aln and LIB.hmm. that's not a maybe, that's a promise. 💖

🌸 DESCRIPTION 🌸

okay so the options are lowkey living in this section, which is a choice, but we respect it. here's the whole menu, no skips, no skips, we don't gatekeep here 🫶

• --help — shows you This help. that's it. that's the whole thing. she's helpful like that.
• --verbose! — Verbose output, and the default is '0'. so she's quiet by default, but if you want her to spill the tea about everything she's doing, hit this and she will talk. 🗣️
• --srcdir=s — the CDD download dir. default is '/bio/data/cdd/latest/'. so that's where she goes looking for the goods unless you tell her otherwise.
• --lib=s — the Subset of CDD to create. default is 'COG'. she's making you a COG unless you say otherwise, bestie.
• --force! — Force overwrite of output files: LIB.aln LIB.hmm, and the default is '0'. so normally she will NOT stomp on your existing files — you gotta ask. and when you do, she goes full main character and overwrites both of them. 💀 so be sure, okay? be so sure.

ngl, --force! is giving "i said what i said" energy. it does not hesitate. it does not check in. it just replaces LIB.aln and LIB.hmm. protect your files accordingly 🙈

and that's the whole page, periodt. 💅

this icon was brought to you by prokka-cdd_to_hmm 1.11, dated February 2015, living her best life under User Commands. mwah. 🎀💜