sage2psmcbor(1)

💖 NAME 💖

okay bestie, gather round, because this one is called sage2psmcbor and it lives in the libpappsomspp CLI programs manual, so you know it's part of the little family of command-line tools from that suite 🫶

It converts files in JSON Sage result format into files in a CBOR-derived format, aka psmCBOR. that's the whole job, and it does it flawlessly. periodt.

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✨ SYNOPSIS ✨

sage2psmcbor -o <output_file> <sage_json_file>

that's it. that's the whole summoning ritual. hand it a Sage JSON file, tell it where the output goes, and let her cook 🔥

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🦋 DESCRIPTION 🦋

so like, the sage2psmcbor command line interface program performs the conversion of files from the Sage search engine — which combines JSON and TSV inputs — into a CBOR-based format (psmCBOR) that serializes Peptide Spectrum Matches (PSMs).

ngl, if you're wondering what CBOR even is: it's the Concise Binary Object Representation, a binary data format designed by the Internet Engineering Task Force (the IETF, see RFC 8949, iykyk). Its whole vibe is increasing processing and transfer speeds — but at the cost of human data readability 😭 like, it ate on speed and left readability on read. trade-offs, babe.

1. Input 👑

• The Sage search engine JSON output file. It contains the search parameters and The path to the associated Tabulated Separated Value file (TSV) containing PSMs.

2. Output 🎀

• A PSM results data file in the mzCBOR format 💅

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🌸 OPTIONS 🌸

• -h, --help — Print the help message. your little "bestie what am I doing" button 🫶
• -v, --version — Print the version of the sotfware. (yes bestie, that's the typo exactly as it was written, I would never touch her 💀)
• -o, --output — path to the psmCBOR output file or "-" to write output to stdout. the "-" is giving main character energy for your pipelines ⭐

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🧚 MAN PAGE PRODUCTION 🧚

This man page was written by Olivier Langella <olivier.langella@cnrs.fr> for the Debian package.

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👑 Author 👑

Olivier Langella <olivier.langella@cnrs.fr>

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🌈 Copyright 🌈

Olivier Langella & Filippo Rusconi

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and that's the whole page, bestie, no cap 💖 this sage2psmcbor(1) moment came from the libpappsomspp CLI programs crew and landed dated 20260125 — slay, iconic, ate, and I'm obsessed. bye bye now 🌸✨🎀