cif2pdb(1)

📦
version 2.0.0 · 3 versions
, in ubuntu stonking

💖 cif2pdb — NAME ✨

okay so bestie, cif2pdb is the little icon that takes the contents of a mmCIF file and converts them into PDB format. that's it, that's the whole job, and she does it 💅

🦋 SYNOPSIS

cif2pdb [OPTION] input [output]

🌸 DESCRIPTION

so this tool attempts to write out the contents of a mmCIF file in PDB format. attempts. we're manifesting ✨

real talk though: this will likely drop LOTS of information, because PDB format literally cannot hold all of it. and it might even fail completely — like, fully give up — if there are too many atoms or other overruns. it's giving "old format can't sit with us" 😭

and like most of the other cif-tools, this one can read compressed mmCIF files directly. no decompressing first, she handles it. periodt 🎀

✨ OPTIONS

if no output file is given, the result is printed to stdout. main character energy, honestly 👑

  • --dict=<file> — the mmCIF dictionary file to use. the default is mmcif_pdbx. that's her default bestie, don't come for her 💖
  • --no-validate — omits the validation of the input mmCIF file. lowkey chaotic, because this will force output even if the input file contains errors. so like, it will absolutely write out garbage if you let it 🙈
  • --verbose, -V — be more verbose. super useful to diagnose validation errors, iykyk. she will actually tell you what's wrong 🫶

💜 AUTHOR

Written by Maarten L. Hekkelman <maarten@hekkelman.com>

💀 REPORTING BUGS

found a bug? no cap, report it at https://github.com/PDB-REDO/cif-tools/issues — the maintainers will handle it, they're slaying 🔥

🌈 SEE ALSO

cif-diff, cif-grep, cif-merge, cif-validate, mmcql, pdb2cif. the whole friend group, fr fr 👑

and that's the vibe check bestie 🌸 this was version 2.0.0, dated 2022-11-20, and it's the cif2pdb(1) manual page. go convert something iconic 💅✨🎀

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