TFF_VALIDATE_TRX.PY(1)

💖 TFF_VALIDATE_TRX.PY 💖

okay bestie, welcome to tff_validate_trx.py, section 1 of the User Commands manual, and no cap this little script is the vibe check your tractogram has been begging for 🦋

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✨ NAME ✨

tff_validate_trx.py — validate a TRX file 🌸

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🎀 DESCRIPTION 🎀

the usage line, literally verbatim, here she is:

usage: tff_validate_trx.py [-h] [--out_tractogram OUT_TRACTOGRAM]

[--remove_identical_streamlines]
       [--precision PRECISION] [--reference REFERENCE] [-f]
       in_tractogram

Validate TRX file. that's the whole job, that's the assignment 💅

so here's the tea: this script removes streamlines that are out of the volume bounding box. like, in voxel space, there is simply no such thing as a negative coordinate, and there's no coordinate chiller than the volume dimension. so any streamline that does not respect these two conditions? gone. removed. not invited to the function anymore 😭

it also removes streamlines with single or no point. one point is not a streamline, it's a cry for help, and it's getting yeeted.

and then the --remove_identical_streamlines option will remove identical streamlines, which is giving ✨deduplication✨. and 'identical' is defined as having the same number of points and the same points coordinates (to a specified precision, using a hash table). iykyk, hash table said "i got you girl" 🔥

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🌈 positional arguments:

• in_tractogram — Tractogram filename. Format must be one of trk, tck, vtk, fib, dpy, trx. pick your fighter, but it has to be one of those, periodt 👑

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💜 options:

• -h, --help — show this help message and exit. the classic. the icon. the "i forgot what i was doing" button 🫶
• --out_tractogram OUT_TRACTOGRAM — Filename of the tractogram after removing invalid streamlines. like, where does the cleaned-up glow-up version go? right here bestie 💖
• --remove_identical_streamlines — Remove identical streamlines from the set. duplicates found → duplicates destroyed 💀
• --precision PRECISION — Number of decimals to keep when hashing the points of streamlines [1]. that [1] is the default, fyi, so if you say nothing you get one decimal and she's fine with that 🍓
• --reference REFERENCE — Reference anatomy for tck/vtk/fib/dpy file support (.nii or .nii.gz). she needs a map of where we are, okay?? 🧚
• -f — Force overwriting of the output files. no asking, no warning, just send it. be careful with this one fr fr 🌸

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ok one tiny little note for the girlies: -f will straight up overwrite your output files. it's giving "main character energy" and main characters do not check twice. you have been warned 🙈

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and that's the whole page, you ate it, you understood it, you're basically a tractogram sommelier now 👑

this was tff_validate_trx.py version 0.3, dated July 2024, signing off with a little kiss 💖 mwah, go validate something gorgeous ✨