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ENH,WIP: New transforms module#656

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oesteban wants to merge 36 commits intonipy:masternipy/nibabel:masterfrom oesteban:enh/transformsoesteban/nibabel:enh/transformsCopy head branch name to clipboard

+966-3

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Commits on Sep 20, 2019

• ENH: Add an utility to calculate obliquity of affines

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• enh(tests): add not-oblique test, move tests to test_affines.py

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Commits on Sep 22, 2019

• enh: return radians unless degrees=True

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Commits on Sep 23, 2019

• enh: address @matthew-brett's comments

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Commits on Sep 24, 2019

• doc: add link to AFNI's documentation about *obliquity* [skip ci]

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Commits on Sep 27, 2019

• Initial commit

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• add TransformBase

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• add new module

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• add documentation, core functionality

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• add a deformation field transform

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• optimize deformation field

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• pre-cache transformed indexes

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• used cached field

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• add caching of deltas in voxel coordinates

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• add bspline cython extension

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• a smarter ImageSpace

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• add comment

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• remove cython module

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• cleanup

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• starting with bspline transform

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• finishing b-spline interpolation

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• Add base implementation of transforms and change base implementation of linear and nonlinear transforms

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• export to hdf5

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• corrections to adhere the current x5 format draft

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• fix coordinates translation in affines, import itk affines

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• wip: reads & writes ITK's MatrixOffsetTransformBase transforms, with and without FixedParameters

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• fix: print warnings to stderr, sty: minimal fixes

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• enh(affines): write out AFNI 12-parameters files

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• enh(transforms): finish up a x5-to-fsl writer of affines

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• enh(transforms): improve generation of x5 structures of reference spaces

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• fix(transforms): string formating forgotten when writing ITK transforms

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• wip(transforms): writing up some linear transform readers

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• enh(transform): HDF5 - set values as attributes; generalize affines to N transforms (through time axis)

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• enh: apply some early comments from @effigies.

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• fix: add a first battery of tests

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• enh: add tests for affines stored in AFNI format (non-oblique images)

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