INDEX-EXTRAS(1)

✨ index-extras — the manual page bestie 💖

okay so this is index-extras(1) from the NCBI Entrez Direct User's Manual, and it's literally the girl who sets up your whole local data situation. let's get into it 🫶

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🌸 NAME 🌸

index-extras — populate and index local BioConcepts, GeneRifs, and theme data 💅

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🎀 SYNOPSIS 🎀

index-extras [[-path] dir [[-temp|-work|-working] dir]]

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🦋 DESCRIPTION 🦋

so basically index-extras gets a directory all cute and ready to hold local BioConcepts, GeneRifs, and Percha-Altman theme data ✨ then it goes and downloads full dumps from the NCBI and Zenodo servers, organizes all that data into an rchive(1) trie, and fully indexes the resulting archive. that's it. that's the whole main character arc 👑

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💅 OPTIONS 💅

• [-path] dir — puts the local archive in dir. that's where your stuff lives now 🏠
• [-temp|-work|-working] dir — puts intermediate subtrees in dir. the in-between mess goes here, not in your main archive 💖

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🌈 ENVIRONMENT 🌈

• EDIRECT_PUBMED_MASTER — the local archive directory to use when there's no -path. it's expected to hold an absolute path, and ngl it's mandatory when you're not supplying a path on the command line. so like, pick one, bestie, no cap 😭
• EDIRECT_PUBMED_WORKING — the directory that holds intermediate subtrees when there's no -temp|-work|-working. also expected to hold an absolute path. defaults to the primary local archive directory when it's not set 🎀

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⭐ SEE ALSO ⭐

custom-index(1), download-ncbi-data(1), index-pubmed(1), rchive(1), theme-aliases(1), xtract(1).

the whole friend group fr fr 🫶

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and that's the page, babes 💜 this one came from NCBI, dated 2023-01-30, and it's the INDEX-EXTRAS(1) page from the NCBI Entrez Direct User's Manual. slay, stay indexed, mwah 🎀✨