SCOPPARSE(1e)

💖 SCOPPARSE — the scopparse(1e) glow-up 💖

okay bestie, welcome to the EMBOSS Manual for Debian page for scopparse(1e), and no cap this one is a whole vibe. sit down, hydrate, let's parse some SCOP ✨

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✨ NAME ✨

scopparse — generate a DCF file from raw SCOP files. that's the whole job. she's simple, she's iconic. 💅

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🦋 SYNOPSIS 🦋

scopparse -classfile infile -desinfile infile -nosegments boolean
          -nomultichain boolean [-nominor boolean] -dcffile outfile

scopparse -help

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🌸 DESCRIPTION 🌸

so scopparse is a command line program straight outta EMBOSS ("the European Molecular Biology Open Software Suite", she's European, she's molecular, she's everything 🧚). she lives in the "Utils:Database creation" command group(s), which is giving backstage-pass energy ngl.

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🎀 OPTIONS 🎀

💜 Input section

• -classfile infile — this one tells her the name of the raw SCOP classification file dir.cla.scop.txt_X.XX (input). it's the raw SCOP classification file you can grab at http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.cla.scop.txt_1.57 🫶
• -desinfile infile — and this one is the name of the raw SCOP description file dir.des.scop.txt_X.XX (input). the raw SCOP description file lives at http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.des.scop.txt_1.57 ✨

💖 Required section

these two? not optional, bestie. periodt.

• -nosegments boolean — says whether to omit domains comprising of more than one segment. this is necessary if a continuous residue sequence is required. default value: N
• -nomultichain boolean — says whether to omit domains comprising segments from more than one chain. this is necessary if a continuous residue sequence is required. default value: N

🌈 Additional section

• -nominor boolean — says whether to omit domains from minor classes, where minor classes are defined as anything not in class 'All alpha proteins', 'All beta proteins', 'Alpha and beta proteins (a/b)' or 'Alpha and beta proteins (a+b)'. this is necessary or appropriate for many analyses. default value: N

👑 Output section

• -dcffile outfile — the name of the SCOP DCF file (domain classification file) (output). a 'domain classification file' contains classification and other data for domains from the SCOP or CATH databases. the file is generated by using DOMAINER and is in DCF format (EMBL-like). domain sequence information can be added to the file by using DOMAINSEQS. default value: test.scop 🍓

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💀 BUGS 💀

found a bug? not the cute kind, sadly. bugs can be reported to the Debian Bug Tracking system at http://bugs.debian.org/emboss, or directly to the EMBOSS developers at http://sourceforge.net/tracker/?group_id=93650&atid=605031. go off, report her 🫡

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🔥 SEE ALSO 🔥

scopparse is fully documented via the tfm(1) system. iykyk 💅

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⭐ AUTHOR ⭐

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

• wrote the script used to autogenerate this manual page. the way that she autogenerated the whole thing?? main character energy fr fr.

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🌟 COPYRIGHT 🌟

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. 🫶

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lowkey a whole legend, highkey still just a manual page. treat her right and she'll give you a DCF file bestie 💖

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DOMAINATRIX 0.1.0+20100721 · dated 08/11/2010 · that's the SCOPPARSE(1e) source and version, mwah, bye bestie 💅✨🦋