mk_nifti_hdr(1)

📦
version 3.3.1p2 · 7 versions
, in ubuntu stonking

💖 mk_nifti_hdr(1) — the CMTK girlie's guide 💖

okay so bestie, we're in the Computational Morphology Toolkit (CMTK for the girlies who abbreviate) and this one? this one is mk_nifti_hdr. no cap. it makes a NIFTI header file and honestly it eats. 🎀

✨ NAME ✨

mk_nifti_hdr — Make NIFTI header file. that's it, that's the whole vibe. 💅

🌸 SYNOPSIS 🌸

mk_nifti_hdr [options] [output.nii]

see how clean that is? options, then the output file, slay. ✨

🦋 DESCRIPTION 🦋

so here's the tea: this little icon makes a header file according to the NIFTI file format, and it builds it out of whatever parameters you hand it — geometry, data type, orientation, all of it. you tell it, it writes it. main character energy fr fr. 💜

👑 OPTIONS 👑

🌈 Global Toolkit Options (these are shared by all CMTK tools)

not to be dramatic but these are the communal girlies — every CMTK tool has them. it's giving "group chat rules". 🫶

  • --help — dumps the list of basic command line options to standard output. your starter pack, bestie.
  • --help-all — dumps the complete list, basic AND advanced, to standard output. the full lore. 😭
  • --wiki — writes the list of command line options to standard output in MediaWiki markup. for the wiki girlies.
  • --man — writes man page source in nroff markup to standard output. meta? a little. iconic? absolutely.
  • --version — writes the toolkit version to standard output. know your era.
  • --echo — writes the current command line to standard output. receipts. 💅
  • --verbose-level <integer> — set the verbosity level. how much do you want it to talk.
  • --verbose, -v — increments verbosity level by 1. ⚠️ lowkey deprecated but still supported for backward compatibility, so don't come for it.
  • --threads <integer> — set the maximum number of parallel threads (for POSIX threads and OpenMP). multitasking queen. 👑

🍓 Main Options

this is where the actual ✨content✨ lives. buckle up.

  • --dims <string>, -D <string> — set the dimensions in voxels. you give it like 'DimsX,DimsY,DimsZ' and you're done. 📏
  • --voxel <string>, -V <string> — set the voxel size. give it 'PixX,PixY,PixZ' — and that's [in mm] btw. measurements matter.
  • --offset <float>, -O <float> — binary data file offset. [Default: disabled] — so it's just vibing, off, until you say otherwise.
  • --byte, -b — 8 bits, unsigned. and psst — this is the default. the moment. ⭐
  • --char, -c — 8 bits, signed.
  • --short, -s — 16 bits, signed.
  • --ushort, -u — 16 bits, unsigned.
  • --int, -i — 32 bits signed.
  • --float, -f — 32 bits floating point.
  • --double, -d — 64 bits floating point. go big or go home. 🔥
  • --reset-coordinates — in an imported header, reset the image-to-physical coordinate mapping to an identity matrix. factory reset but make it geometry.
  • --attached — create an attached header for use in single-file images. 🚨 heads up: the image data must be concatenated directly onto the created header file. no skipping that step, bestie.
  • --import <string>, -I <string> — import data from the given header file. [Default: NONE] — starts off with nothing, as she should.
  • --description <string> — set the description string. [max. 80 characters] [Default: NONE] — so keep it cute but keep it under 80. 💀

💜 AUTHORS 💜

Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko. the whole squad cooked. 🫶

📜 LICENSE 📜

http://www.fsf.org/licensing/licenses/gpl.html — yeah it's the GPL, go read it, it's important. 🎀

🐛 BUGS 🐛

found a bug? report it at http://nitrc.org/projects/cmtk/. don't suffer in silence bestie, that's not the vibe. 😭

🌟 ACKNOWLEDGMENTS 🌟

CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. and from April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381. funding girls stay winning. 👑

okay bestie that's the whole page!! this was CMTK 3.3.1p2, dated Jun 24 2026 — yes that date is real, no I will not be elaborating. go make some headers, you're gonna ate. 💅✨🦋🎀💖

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