70 lines
2.1 KiB
Bash
70 lines
2.1 KiB
Bash
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#!/usr/bin/env bash
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. "$(dirname "$0")/../test.sh"
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t() { test_command mri_synthmorph "$@" ; }
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# image interpolation
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t apply affine.lta moving.mgz out.mgz
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compare_vol out.mgz affine.mgz --thresh 0.02 --res-thresh 1e-3 --geo-thresh 1e-3
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# NIfTI format
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t apply affine.lta moving.mgz out.nii.gz
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compare_vol out.nii.gz affine.mgz --thresh 0.02 --res-thresh 1e-3 --geo-thresh 1e-3
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# dense transform
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t apply identity.mgz moving.mgz out.mgz -t uint8
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compare_vol out.mgz moving.mgz --res-thresh 1e-3 --geo-thresh 1e-3
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# matrix update
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t apply -H rigid.lta -t uint8 moving.mgz out.mgz
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compare_vol out.mgz header.mgz --res-thresh 1e-3 --geo-thresh 1e-3
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# label interpolation
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t apply -m nearest -t uint8 affine.lta labels.moving.mgz out.mgz
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compare_vol out.mgz labels.affine.mgz --res-thresh 1e-3 --geo-thresh 1e-3
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# multiple input pairs
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t apply rigid.lta moving.mgz out_1.mgz moving.mgz out_2.mgz
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compare_vol out_1.mgz rigid.mgz --thresh 0.02 --res-thresh 1e-3 --geo-thresh 1e-3
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compare_vol out_2.mgz rigid.mgz --thresh 0.02 --res-thresh 1e-3 --geo-thresh 1e-3
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# data types, command abbreviation
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t a -t uint8 rigid.lta moving.mgz out.mgz
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run_comparison mri_info --type out.mgz | grep -Fx uchar
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t ap -t uint16 rigid.lta moving.mgz out.mgz
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run_comparison mri_info --type out.mgz | grep -Fx ushrt
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t app -t int16 rigid.lta moving.mgz out.mgz
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run_comparison mri_info --type out.mgz | grep -Fx short
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t appl -t int32 rigid.lta moving.mgz out.mgz
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run_comparison mri_info --type out.mgz | grep -Fx int
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t apply -t float32 rigid.lta moving.mgz out.mgz
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run_comparison mri_info --type out.mgz | grep -Fx float
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# method abbreviation
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FSTEST_NO_DATA_RESET=1
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for method in l li lin line linea linear n ne nea near neare neares nearest; do
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t apply -m "$method" rigid.lta moving.mgz out.mgz
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done
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# usage, help
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t
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t -h
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t apply
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t apply -h
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# NIfTI warp
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FSTEST_NO_DATA_RESET=1
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mri_convert identity.mgz identity.nii.gz
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t apply identity.nii.gz moving.mgz out.mgz -t uint8
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compare_vol out.mgz moving.mgz --res-thresh 1e-3 --geo-thresh 1e-3
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# illegal arguments
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EXPECT_FAILURE=1
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t slice
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t apply -H identity.mgz moving.mgz fixed.mgz
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t apply affine.lta moving.mgz out.mgz odd-number-of-io-pairs.mgz
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