1198 efficient differentiable bilateral filter#1375

Merged

charliebudd merged 57 commits into

Project-MONAI:masterfrom

charliebudd:1198-efficient-differentiable-bilateral-filter

Dec 18, 2020

Commits on Dec 17, 2020

Initial cpu implementation
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hue speed increase moving away from torch tensors
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allowing generic channel dimension size
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allowing generic dimensionality
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manual testing script for bilateral filter
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Initial commit of CRF using permutohedral lattice to optimise message passing, implementation from https://github.com/SamuelJoutard/Permutohedral_attention_module
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temporary example scripts demonstrating the usage of crf and phl, and some data to process
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alternate phl implementation using a more efficient cuda hashtable, code currently untested due to windows build issues, implementation from https://github.com/SamuelJoutard/Permutohedral_attention…
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c++ cpu permutohedral lattice implementation
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comparison script
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REVERSE THIS COMMIT
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cleaning
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backwards pass
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initial cuda brute force kernel
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reverting setup.py
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working cuda kernel for brute force 2d kernel
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fixing unresolved symbols when compiling without cuda
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removing macros file
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placeholder cuda phl implementation
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changing test case color sigma
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Initial import of reference cuda phl implementation
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fixing cuda kernel color weight error
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initial edits to cuda phl code
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fixing errors in cuda phl implementation
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removing logging from cuda phl
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using template data_ptr function
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fixed cpu phl implementation
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updating cpu phl to run on arbitrary input dimensions and channles
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2d and 3d testing scripts
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Generalising permutohedral implementation to remove independance on width and height
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removing width and height from permutohedral filter function and implementing templated feature creation
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fixed typo
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exteneding 3d testing script
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generalising bruteforce cuda implementation
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updating testing scripts
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file organisiation
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fixing weight error in cpu bruteforce implementation, also inlineing functions
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some refactoring and introducing proper batch handling
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fixing indexing error at border
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fixing some artifacts in cuda phl for high color sigmas
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fixing gaussian kernel function for cpu and cuda bruteforce
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ensuring kernel is an odd numbered size
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adding tests for precised implementation
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adding approximate imlpementation test
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templating implementations based on scalar_type
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cleaning up
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Merge branch 'master' of https://github.com/charliebudd/MONAI into 1198-efficient-differentiable-bilateral-filter
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code formatting
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Commits on Dec 18, 2020

removing half precision implementation for permutohedral due to errors caused on windows
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skipping cuda tests if cuda missing
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Merge branch 'master' into 1198-efficient-differentiable-bilateral-filter
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reformating
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adding unit test skip based on cpp extention availablility
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removing unused import
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changing to use of THCatomic add
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adding missing licenses
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clang reformat
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