EDIRUTIL(1)

📦 version 14.6.20210224, in ubuntu jammy

💖 EDIRUTIL(1) 💖

okay bestie, so this one lives in the NCBI Entrez Direct User's Manual and it's called edirutil — and before you get attached, lemme just say it's giving retired icon energy. 🫶

✨ NAME ✨

edirutil — synthesize NCBI ENTREZ_DIRECT XML (DEPRECATED)

like, yes, it's deprecated, we'll get there, breathe 🧘

🎀 SYNOPSIS 🎀

edirutil [-db name] [-web webenv] [-key N] [-count N] [-step N]
[-silent] [-verbose] [-debug]

🌸 DESCRIPTION 🌸

Note: edirutil will not appear in future releases of NCBI Entrez Direct. Instead, please supply explicit -web settings to individual commands. this is the part where we say our goodbyes fr fr 😭

okay so what does it even do, you ask. edirutil synthesizes ENTREZ_DIRECT XML records — and the way that several edirect commands read, write, or literally both, is so that you can get server-side transformation or filtering of your results before they get presented to you. ✨

and here's the main character move: edirutil makes it possible to bypass one or more edirect pipeline stages on the basis of state observed in browsers or other tools that don't natively produce ENTREZ_DIRECT XML. like, if your tool doesn't speak the language, edirutil is the translator bestie. 👑

💅 OPTIONS 💅

  • -db name — work with the named Entrez database. pick your database, slay 💖
  • -web webenv — pass the specified WebEnv cookie. 🍪 iconic, honestly
  • -key N — work with the *N*th result set associated with the specified WebEnv. count carefully bestie
  • -count N — expect N results. manifesting that exact number ✨
  • -step N — indicate the current pipeline depth. how deep are we? deep.
  • -silent — suppress connection failure retry messages. quiet luxury 🤫
  • -verbose — display the ENTREZ_DIRECT XML field values at each step. tell me EVERYTHING 🗣️
  • -debug — print the internal URL query and XML results of each step. full transparency era 🔥

🦋 SEE ALSO 🦋

and that's the whole page, no notes, you ate 💅✨

this lil masterpiece came from NCBI and it's dated 2021-03-07 — so yeah, vintage, but we still love her 🎀💖

📦 where this page comes from