mia-2dsegshift(1)

✨ mia-2dsegshift ✨

okay bestie, welcome to the mia-2dsegshift page from the General Commands Manual — this is the little tool that goes translate a segmentation by the given amount, and I'm gonna walk you through it like we're texting at 2am 💅

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🌸 NAME 🌸

mia-2dsegshift — translate a segmentation by the given amount, periodt.

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🦋 SYNOPSIS 🦋

mia-2dsegshift -i <in-file> -o <out-file> [options]

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💖 DESCRIPTION 💖

so like. mia-2dsegshift moves the segmentation(s) of an image series by using a shift that is equal for all slices — one shift, every slice, no favorites. 🫶

the program also may remove images from the begin of the series. and the whole point of it? it can be used to correct the segmentation of the images if the images where cropped. (yes, the original says "where", we're keeping it, it's iconic 😭)

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✨ OPTIONS ✨

• -i, --in-file=(required, input); io — input segmentation set. for supported file types see PLUGINS:2dimage/io 💫
• -o, --out-file=(output, required); io — input segmentation set. (yes it says "input" here too, we're not touching it, no cap.) for supported file types see PLUGINS:2dimage/io 💫
• -g, --image-file=crop — output image filename base 🎀
• -S, --shift=[0,0] — shift of segmentation 🦋
• -k, --skip=2 — skip frames at the beginning ⭐

🧚 Help & Info

• -V, --verbose=warning — verbosity of output, print messages of given level and higher priorities. supported priorities starting at lowest level are:
  • trace ‐ Function call trace
  • debug ‐ Debug output
  • info ‐ Low level messages
  • message ‐ Normal messages
  • warning ‐ Warnings
  • fail ‐ Report test failures
  • error ‐ Report errors
  • fatal ‐ Report only fatal errors
• --copyright — print copyright information 👑
• -h, --help — print this help
• -?, --usage — print a short help
• --version — print the version number and exit

🌈 Processing

• --threads=-1 — Maxiumum number of threads to use for processing, This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation). 🔥

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🔌 PLUGINS: 2dimage/io 🔌

the supported file types live here, bestie. read it, know it, love it. 💜

• bmp — BMP 2D-image input/output support. The plug-in supports reading and writing of binary images and 8-bit gray scale images. read-only support is provided for 4-bit gray scale images. The color table is ignored and the pixel values are taken as literal gray scale values.
  • Recognized file extensions: .BMP, .bmp
  • Supported element types:
    • binary data, unsigned 8 bit
• datapool — Virtual IO to and from the internal data pool
  • Recognized file extensions: .@
• dicom — 2D image io for DICOM
  • Recognized file extensions: .DCM, .dcm
  • Supported element types:
    • signed 16 bit, unsigned 16 bit
• exr — a 2dimage io plugin for OpenEXR images
  • Recognized file extensions: .EXR, .exr
  • Supported element types:
    • unsigned 32 bit, floating point 32 bit
• jpg — a 2dimage io plugin for jpeg gray scale images
  • Recognized file extensions: .JPEG, .JPG, .jpeg, .jpg
  • Supported element types:
    • unsigned 8 bit
• png — a 2dimage io plugin for png images
  • Recognized file extensions: .PNG, .png
  • Supported element types:
    • binary data, unsigned 8 bit, unsigned 16 bit
• raw — RAW 2D-image output support
  • Recognized file extensions: .RAW, .raw
  • Supported element types:
    • binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit
• tif — TIFF 2D-image input/output support
  • Recognized file extensions: .TIF, .TIFF, .tif, .tiff
  • Supported element types:
    • binary data, unsigned 8 bit, unsigned 16 bit, unsigned 32 bit
• vista — a 2dimage io plugin for vista images
  • Recognized file extensions: .-, .V, .VISTA, .v, .vista
  • Supported element types:
    • binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

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🍓 EXAMPLE 🍓

shift the segmentations of a set segement.set by -20 pixels in horizontal direction and -30 pixels in vertical direction (as if the images where cropped starting at (20,30) and store it in translate.set. The shiftes files are named translatedXXXX.png

mia-2dsegshift -i segment.set -o translate.set -g translated -S
       "<20,30>"

(yes the set is called segement.set in the example and the shift is <20,30> while the prose says -20 and -30. that's the original, we keep it exactly, it's giving ✨lore✨)

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💜 AUTHOR(s) 💜

Gert Wollny 👑

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🎀 COPYRIGHT 🎀

This software is Copyright (c) 1999‐2015 Leipzig, Germany and Madrid, Spain. It comes with ABSOLUTELY NO WARRANTY and you may redistribute it under the terms of the GNU GENERAL PUBLIC LICENSE Version 3 (or later). For more information run the program with the option '--copyright'.

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and that's the whole page bestie!! 🫶 this was the USER COMMANDS of mia-2dsegshift, version v2.4.7, dated mia-2dsegshift(1) — slay, go shift some segmentations, ily, bye!! 💖✨🎀🦋🌸💅