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Created with Raphaël 2.2.023Jul171654325Jun2413121031May2621148213Apr1211129Mar191314Feb86514Jan11107421Dec94330Nov2823221816431Oct242221201918171121Sep1413119715Aug32131Jul181713109824Jun31May302827ENH: New function to apply a deformation field. Easier than anticipated.ENH: parse_data.Image allows additional Image.__init__ arguments to beENH: resampleToReference now accepts a custom matrix, allowing us to apply aTEST: Update convert_x5 testsRF: Update convert_x5 scriptTEST: Update transform testsRF,BF: Refactored x5/fnirt modules for new specs - I think the refactoring isRF: Update x5 i/o code to adhere to new spec; fix bug inRF: Minor refactorings; the only real change is that a deformation fieldRF,BK: Change nomenclature in nonlinear module. More to come.DOC: Update documentation. Code is now brokenDOC: stub for convert scriptDOC: Additions/fixesDOC: Tweak x5 figuresDOC: Allow line-wrapping in tablesDOC: More images, referenced in x5.py. Will add more detailsDOC: Images for X5 documentation. WIP.BF: Incorrect importTEST: Test coefficient field affineBF: Transform->affine changes. Make sure we don't generate an empty affine forBF: Fix transform/affine importsTEST: Test convertx5 scriptRF,BF: Clean up convertx5 script; fix to fnirtTEST: Tests for x5 moduleBF: Small fixesTEST: Add srcToRef testRF: toFnirt will not convert coefficient fields to displacement fields if itDOC: Minor tweaksBF,RF: FIxes to fnirt/x5TEST: Test identifyAffineRF: Moved affine.identify to staticmethod Nifti.identifyAffineENH: Fleshed out x5 implementationDOC,RF: Still fleshing out spec. Needs a bit more workENH: New affine.identify function, for figuring out what an affineTEST: Fix importsRF: Remove fsl.transform package imports, to remove circular dependencyRF: Push srcToRefMat up to the NonLinearTransform class, so it can also beDOC: Fixes to docsDOC: Fix rstDOC: Notes on X5 formats. Not finished. Other minor doc additions