WOSSINPUT(1e)

📦 version 6.6.0, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 WOSSINPUT(1e) 💖

okay bestie, welcome to the EMBOSS Manual for Debian page for wossinput, and no I will not be normal about it. this is a 1e manual, it's giving "reference docs but make it fashion", and we are gonna get through every single flag together. grab a boba. 🧋

✨ NAME ✨

wossinput — Finds programs by EDAM input data 🦋

like literally, you tell it what kind of input data you're holding, and it goes "oh bet, here are the programs that eat that." obsessed.

✨ SYNOPSIS ✨

wossinput -identifier string [-explode boolean] [-showkeywords boolean]
          -sensitive boolean -subclasses boolean -obsolete boolean
          -emboss boolean -embassy boolean -showembassy string
          -colon boolean -gui boolean [-outfile outfile] [-html toggle]
          [-groups boolean] [-alphabetic boolean]

wossinput -help
💅 notice how some of these are in [brackets] and some are NOT? the bracketless ones are the mandatory squad, the bracketed ones are optional. iykyk.

✨ DESCRIPTION ✨

so wossinput is a command line program from EMBOSS — that's "the European Molecular Biology Open Software Suite", and yes it spells EMBOSS, we love a backronym 💖.

it lives in the "Ontology:EDAM,Documentation" command group(s). that's its little neighborhood. 🏘️

✨ OPTIONS ✨

🌸 Input section 🌸

  • -identifier string — the thing you're searching with, bestie. this is your input data identifier and it's the whole point of the program. 🎯

🎀 Additional section 🎀

  • -explode boolean — so the groups that EMBOSS applications belong to come in two flavors: exploded and not exploded. the exploded names are more numerous and honestly kind of vaguely phrased compared to the non-exploded ones. the exploded names get built from definitions of the group names that start like NAME1:NAME2, and then those get expanded into a whole bunch of combinations of the names, like this:

'NAME1', 'NAME2', 'NAME1 NAME2', NAME2 NAME1'

and the non-expanded names are just simply like 'NAME1 NAME2'. that's it, that's the whole vibe.

Default value: N

  • -showkeywords boolean — Default value: N

(yes bestie the manpage really gives us nothing else here, that's all she wrote, we respect the mystery 🫶)

💜 Advanced section 💜

  • -sensitive boolean — by default the query keywords only get matched against the EDAM term names (and synonyms). turn this on and it ALSO matches your keywords against the EDAM term definitions, which means it will (typically) report more matches. more matches more problems more slay. Default value: N
  • -subclasses boolean — extends the query matches to include all the terms that are specialisations (EDAM sub-classes) of whatever type got matched. Default value: Y
  • -obsolete boolean — default behavior is to NOT use or return obsolete terms, periodt. set this and it will include all terms, obsolete ones included. Default value: N
  • -emboss boolean — use this and EMBOSS program documentation gets searched. if you set this to false, then only the EMBASSY programs get searched (as long as -embassy is true). EMBASSY programs are not strictly part of EMBOSS, but they use the same code libraries and share the same look and feel — they're generally developed by people who want the programs to be outside of the GNU General Public License scheme. Default value: Y
  • -embassy boolean — use this and EMBASSY program documentation gets searched. if you set this to false, then only the EMBOSS programs get searched (as long as -emboss is true). EMBASSY programs are not strictly part of EMBOSS, but they use the same code libraries and share the same look and feel — they're generally developed by people who want the programs to be outside of the GNU General Public License scheme. Default value: Y
  • -showembassy string — use this and this specific EMBASSY package program documentation gets searched. EMBASSY programs are not strictly part of EMBOSS, but they use the same code libraries and share the same look and feel — they're generally developed by people who want the programs to be outside of the GNU General Public License scheme.
  • -colon boolean — the groups EMBOSS applications belong to go up to two levels. for example the primary group 'ALIGNMENT' has several sub-groups, or second-level groups, like: CONSENSUS, DIFFERENCES, DOT PLOTS, GLOBAL, LOCAL, MULTIPLE. to help out the programs that parse the output of wossname and need the names of these subgroups, a colon ':' gets placed between the first and second level of the group name if this option is true.
⚠️ note: this does not apply if the group names have been exploded with the 'explode' option. no cap.

Default value: N

  • -gui boolean — this one is for the people designing Graphical User Interfaces to EMBOSS applications 🖥️✨. some EMBOSS programs are just inappropriate for running in a GUI — those include other menu programs and interactive editors. this option lets you only report the programs that can actually be run from a GUI. Default value: N

🦋 Output section 🦋

  • -outfile outfile — Default value: stdout

🌈 Html section 🌈

  • -html toggle — if you're sending the output to a file, this formats it for displaying as a table in a WWW document. Default value: N
  • -groups boolean — use this and only the group names get output to the file. just the names. nothing else. Default value: N
  • -alphabetic boolean — use this and you get a single list of the program names and descriptions instead of the programs being listed in their functional groups. one list to rule them all 👑. Default value: N

🐛 BUGS 🐛

found a bug? tragic. iconic of you to report it tho 💅. bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

👀 SEE ALSO 👀

wossinput is fully documented via the tfm(1) system. go read that if you want the deep lore.

🌟 AUTHOR 🌟

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

  • Wrote the script used to autogenerate this manual page. (the script ate, honestly 🫶)

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself.

okay that's the whole page, you're a wossinput expert now, no notes 💖✨

this was EMBOSS 6.4.0, dated 05/11/2012, and yeah she's an old queen but she still serves. go find your programs bestie, mwah 🎀🦋💜

📦 where this page comes from