nabu 2024.1.1__py3-none-any.whl → 2024.1.2__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- nabu/__init__.py +1 -1
- nabu/app/cast_volume.py +11 -2
- nabu/app/multicor.py +24 -2
- nabu/io/cast_volume.py +3 -3
- nabu/io/utils.py +2 -2
- nabu/stitching/tests/test_z_stitching.py +0 -1
- nabu/stitching/z_stitching.py +3 -3
- {nabu-2024.1.1.dist-info → nabu-2024.1.2.dist-info}/METADATA +2 -2
- nabu-2024.1.2.dist-info/RECORD +296 -0
- {nabu-2024.1.1.dist-info → nabu-2024.1.2.dist-info}/WHEEL +1 -1
- nabu-2024.1.2.dist-info/top_level.txt +2 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/doc/conf.py +0 -137
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/doc/create_conf_doc.py +0 -38
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/doc/get_mathjax.py +0 -34
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/__init__.py +0 -17
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/bootstrap.py +0 -88
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/bootstrap_stitching.py +0 -69
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/cast_volume.py +0 -272
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/cli_configs.py +0 -626
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/compare_volumes.py +0 -94
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/composite_cor.py +0 -144
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/correct_rot.py +0 -70
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/create_distortion_map_from_poly.py +0 -153
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/diag_to_pix.py +0 -358
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/diag_to_rot.py +0 -449
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/double_flatfield.py +0 -143
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/generate_header.py +0 -261
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/histogram.py +0 -197
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/multicor.py +0 -90
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/nx_z_splitter.py +0 -125
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/parse_reconstruction_log.py +0 -151
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/prepare_weights_double.py +0 -163
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/reconstruct.py +0 -120
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/reconstruct_helical.py +0 -116
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/reduce_dark_flat.py +0 -181
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/rotate.py +0 -162
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/shrink_dataset.py +0 -98
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/stitching.py +0 -85
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/tests/test_reduce_dark_flat.py +0 -78
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/utils.py +0 -33
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app/validator.py +0 -110
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/convolution.py +0 -8
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/fft.py +0 -4
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/kernel.py +0 -97
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/medfilt.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/padding.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/processing.py +0 -75
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/tests/__init__.py +0 -1
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/cuda/utils.py +0 -331
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/__init__.py +0 -12
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/alignment.py +0 -578
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/cor.py +0 -1621
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/cor_sino.py +0 -183
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/distortion.py +0 -112
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/focus.py +0 -362
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/test_alignment.py +0 -70
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/test_cor.py +0 -472
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/test_focus.py +0 -105
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/test_tilt.py +0 -41
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tests/test_translation.py +0 -78
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/tilt.py +0 -214
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/translation.py +0 -193
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/estimation/utils.py +0 -39
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/__init__.py +0 -2
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/cast_volume.py +0 -371
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/detector_distortion.py +0 -305
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/reader.py +0 -628
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/reader_helical.py +0 -114
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/tests/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/tests/test_cast_volume.py +0 -339
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/tests/test_detector_distortion.py +0 -178
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/tests/test_writers.py +0 -187
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/tiffwriter_zmm.py +0 -99
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/utils.py +0 -263
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/io/writer.py +0 -892
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/binning.py +0 -98
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/fftshift.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/filters.py +0 -24
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/fourier_filters.py +0 -152
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/histogram.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/histogram_cuda.py +0 -8
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/kernel_base.py +0 -4
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/padding.py +0 -83
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/padding_base.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/processing_base.py +0 -4
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/rotation.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/rotation_cuda.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/tests/__init__.py +0 -1
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/tests/test_binning.py +0 -48
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/tests/test_interpolation.py +0 -70
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/transpose.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/unsharp.py +0 -4
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/unsharp_cuda.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/unsharp_opencl.py +0 -8
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/misc/utils.py +0 -117
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/fft.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/kernel.py +0 -135
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/memcpy.py +0 -35
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/padding.py +0 -6
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/processing.py +0 -62
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/tests/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/opencl/utils.py +0 -292
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/config.py +0 -265
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/config_validators.py +0 -589
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/datadump.py +0 -164
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/dataset_validator.py +0 -211
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/detector_distortion_provider.py +0 -20
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/estimators.py +0 -1012
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fallback_utils.py +0 -149
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/chunked.py +0 -849
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/chunked_cuda.py +0 -152
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/computations.py +0 -260
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/dataset_validator.py +0 -63
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/nabu_config.py +0 -590
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/processconfig.py +0 -825
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/fullfield/reconstruction.py +0 -851
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/dataset_validator.py +0 -19
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/fbp.py +0 -147
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/filtering.py +0 -246
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/gridded_accumulator.py +0 -575
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/helical_chunked_regridded.py +0 -1670
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/helical_chunked_regridded_cuda.py +0 -119
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/helical_reconstruction.py +0 -598
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/helical_utils.py +0 -42
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/nabu_config.py +0 -175
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/processconfig.py +0 -62
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/span_strategy.py +0 -483
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/tests/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/tests/test_accumulator.py +0 -157
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/tests/test_pipeline_elements_full.py +0 -355
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/tests/test_strategy.py +0 -61
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/utils.py +0 -51
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/helical/weight_balancer.py +0 -101
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/params.py +0 -163
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/processconfig.py +0 -210
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/tests/test_chunk_reader.py +0 -78
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/tests/test_estimators.py +0 -149
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/utils.py +0 -116
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/writer.py +0 -193
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/pipeline/xrdct/__init__.py +0 -0
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/__init__.py +0 -7
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/alignment.py +0 -11
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/ccd.py +0 -161
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/ccd_cuda.py +0 -169
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/ctf.py +0 -361
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/ctf_cuda.py +0 -142
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/distortion.py +0 -92
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/double_flatfield.py +0 -212
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/double_flatfield_cuda.py +0 -174
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/double_flatfield_variable_region.py +0 -68
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/flatfield.py +0 -448
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/flatfield_cuda.py +0 -144
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/flatfield_variable_region.py +0 -79
- build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/preproc/phase.py +0 -425
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- build/lib/nabu/cuda/__init__.py +0 -0
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- build/lib/nabu/pipeline/helical/helical_utils.py +0 -42
- build/lib/nabu/pipeline/helical/nabu_config.py +0 -175
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- build/lib/nabu/reconstruction/projection.py +0 -240
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- build/lib/nabu/reconstruction/sinogram.py +0 -467
- build/lib/nabu/reconstruction/sinogram_cuda.py +0 -250
- build/lib/nabu/reconstruction/sinogram_opencl.py +0 -40
- build/lib/nabu/reconstruction/tests/__init__.py +0 -1
- build/lib/nabu/reconstruction/tests/test_cone.py +0 -308
- build/lib/nabu/reconstruction/tests/test_deringer.py +0 -220
- build/lib/nabu/reconstruction/tests/test_fbp.py +0 -252
- build/lib/nabu/reconstruction/tests/test_filtering.py +0 -133
- build/lib/nabu/reconstruction/tests/test_halftomo.py +0 -100
- build/lib/nabu/reconstruction/tests/test_projector.py +0 -164
- build/lib/nabu/reconstruction/tests/test_reconstructor.py +0 -93
- build/lib/nabu/reconstruction/tests/test_sino_normalization.py +0 -85
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- build/lib/nabu/resources/cli/__init__.py +0 -0
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- build/lib/nabu/resources/nxflatfield.py +0 -217
- build/lib/nabu/resources/templates/__init__.py +0 -0
- build/lib/nabu/resources/tests/__init__.py +0 -0
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- build/lib/nabu/stitching/z_stitching.py +0 -2279
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- build/lib/nabu/testutils.py +0 -375
- build/lib/nabu/thirdparty/__init__.py +0 -0
- build/lib/nabu/thirdparty/algotom_convert_sino.py +0 -276
- build/lib/nabu/thirdparty/pore3d_deringer_munch.py +0 -108
- build/lib/nabu/thirdparty/tomocupy_remove_stripe.py +0 -586
- build/lib/nabu/thirdparty/tomopy_phase.py +0 -239
- build/lib/nabu/thirdparty/tomwer_load_flats_darks.py +0 -162
- build/lib/nabu/utils.py +0 -836
- nabu-2024.1.1.dist-info/RECORD +0 -2375
- nabu-2024.1.1.dist-info/top_level.txt +0 -4
- {build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/build/lib/nabu/app → nabu/app/tests}/__init__.py +0 -0
- {nabu-2024.1.1.dist-info → nabu-2024.1.2.dist-info}/LICENSE +0 -0
- {nabu-2024.1.1.dist-info → nabu-2024.1.2.dist-info}/entry_points.txt +0 -0
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from nabu.pipeline.helical import gridded_accumulator, span_strategy
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import os
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import pytest
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from nabu.pipeline.helical import gridded_accumulator, span_strategy
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from nabu.pipeline.helical.weight_balancer import WeightBalancer
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from nabu.pipeline.helical.helical_utils import find_mirror_indexes
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from nabu.cuda.utils import get_cuda_context, __has_pycuda__, __pycuda_error_msg__, replace_array_memory
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@pytest.mark.skipif(not (__do_long_tests__), reason="need environment variable NABU_LONG_TESTS=1")
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@pytest.mark.skipif(not (__has_pycuda__), reason="Needs pycuda for this test")
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@pytest.mark.usefixtures("bootstrap")
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class TestGriddedAccumulator:
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"""
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Test the GriddedAccumulator.
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Rebuilds the sinogram for some selected slices of the crayon dataset
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"""
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def test_regridding(self):
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span_info = span_strategy.SpanStrategy(
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z_pix_per_proj=self.z_pix_per_proj,
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x_pix_per_proj=self.x_pix_per_proj,
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detector_shape_vh=self.detector_shape_vh,
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phase_margin_pix=self.phase_margin_pix,
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projection_angles_deg=self.projection_angles_deg,
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require_redundancy=True,
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pixel_size_mm=self.pixel_size_mm,
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logger=None,
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)
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# I would like to reconstruct from feaseable height 15 to feaseable height 18
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# relatively to the first doable slice in the vertical translation direction
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# I get the heights in the detector frame of the first and of the last
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self.reconstruction_space = gridded_accumulator.get_reconstruction_space(
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span_info=span_info, min_scanwise_z=15, end_scanwise_z=18, phase_margin_pix=self.phase_margin_pix
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)
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chunk_info = span_info.get_chunk_info((self.reconstruction_space.my_z_min, self.reconstruction_space.my_z_end))
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sub_region = (
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self.reconstruction_space.my_z_min - self.phase_margin_pix,
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self.reconstruction_space.my_z_end + self.phase_margin_pix,
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)
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# useful projections
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proj_num_start, proj_num_end = chunk_info.angle_index_span
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# the first of the chunk angular range
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my_first_pnum = proj_num_start
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self.accumulator = gridded_accumulator.GriddedAccumulator(
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gridded_radios=self.reconstruction_space.gridded_radios,
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gridded_weights=self.reconstruction_space.gridded_cumulated_weights,
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diagnostic_radios=self.reconstruction_space.diagnostic_radios,
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diagnostic_weights=self.reconstruction_space.diagnostic_weights,
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diagnostic_angles=self.reconstruction_space.diagnostic_proj_angle,
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dark=self.dark,
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flat_indexes=[0, 7501],
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flats=self.flats,
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weights=self.weights_field,
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double_flat=self.double_flat,
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)
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# splitting in sub ranges of 100 projections
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n_granularity = 100
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pnum_start_list = list(np.arange(proj_num_start, proj_num_end, n_granularity))
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pnum_end_list = pnum_start_list[1:] + [proj_num_end]
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for pnum_start, pnum_end in zip(pnum_start_list, pnum_end_list):
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start_in_chunk = pnum_start - my_first_pnum
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end_in_chunk = pnum_end - my_first_pnum
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self._read_data_and_apply_flats(
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slice(pnum_start, pnum_end), slice(start_in_chunk, end_in_chunk), chunk_info, sub_region, span_info
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)
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res_flatfielded = self.reconstruction_space.gridded_radios / self.reconstruction_space.gridded_cumulated_weights
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# but in real pipeline the radio_shape is obtained from the pipeline get_shape utility method
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self._init_ccd_corrections(res_flatfielded.shape[1:])
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# but in the actual pipeline the argument is not given, and the processed stack is the one internally
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# kept by the pipeline object ( self.gridded_radios in the pipeline )
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self._ccd_corrections(res_flatfielded)
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self._init_phase(res_flatfielded.shape[1:])
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processed_radios = self._retrieve_phase(res_flatfielded)
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self._init_mlog(processed_radios.shape)
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self._take_log(processed_radios)
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top_margin = -self.phase_margin_pix if self.phase_margin_pix else None
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processed_weights = self.reconstruction_space.gridded_cumulated_weights[
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:, self.phase_margin_pix : top_margin, :
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]
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self._init_weight_balancer()
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self._balance_weights(processed_weights)
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self._init_reconstructor(processed_radios.shape)
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i_slice = 0
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self.d_radios_slim.set(processed_radios[:, i_slice, :])
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self._filter()
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self._apply_weights(i_slice, processed_weights)
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res = self._reconstruct()
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test_slicing = slice(self.ref_start, self.ref_end)
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tested_inset = res[test_slicing, test_slicing]
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assert np.max(np.abs(tested_inset - self.rec_reference)) < self.ref_tol
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# uncomment the four following lines to get the slice image
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# import fabio
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# edf = fabio.edfimage.edfimage()
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# edf.data = res
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# edf.write("reconstructed_slice.edf")
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# put the test here
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def _reconstruct(self):
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axis_corrections = np.zeros_like(self.reconstruction_space.gridded_angles_rad)
|
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self.reconstruction.set_custom_angles_and_axis_corrections(
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self.reconstruction_space.gridded_angles_rad, axis_corrections
|
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)
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self.reconstruction.backprojection(self.d_radios_slim, output=self.d_rec_res)
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self.d_rec_res.get(self.rec_res)
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return self.rec_res
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def _apply_weights(self, i_slice, weights):
|
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"""d_radios_slim is on gpu"""
|
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n_provided_angles = self.d_radios_slim.shape[0]
|
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|
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for first_angle_index in range(0, n_provided_angles, self.num_weight_radios_per_app):
|
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end_angle_index = min(n_provided_angles, first_angle_index + self.num_weight_radios_per_app)
|
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self._d_radios_weights[: end_angle_index - first_angle_index].set(
|
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weights[first_angle_index:end_angle_index, i_slice]
|
225
|
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)
|
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self.d_radios_slim[first_angle_index:end_angle_index] *= self._d_radios_weights[
|
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|
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: end_angle_index - first_angle_index
|
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|
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]
|
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|
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|
230
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def _filter(self):
|
231
|
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self.mirror_angle_relative_indexes = find_mirror_indexes(self.reconstruction_space.gridded_angles_deg)
|
232
|
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|
233
|
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self.reconstruction.sino_filter.filter_sino(
|
234
|
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self.d_radios_slim,
|
235
|
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mirror_indexes=self.mirror_angle_relative_indexes,
|
236
|
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rot_center=self.rotation_axis_position,
|
237
|
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output=self.d_radios_slim,
|
238
|
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)
|
239
|
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|
240
|
-
def _init_reconstructor(self, processed_radios_shape):
|
241
|
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one_slice_data_shape = processed_radios_shape[:1] + processed_radios_shape[2:]
|
242
|
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|
243
|
-
self.d_radios_slim = garray.zeros(one_slice_data_shape, np.float32)
|
244
|
-
|
245
|
-
# let's make room for loading chunck of weights without necessarily doubling the memory footprint.
|
246
|
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# The weights will be used to multiplied the d_radios_slim.
|
247
|
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# We will proceed by bunches
|
248
|
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self.num_weight_radios_per_app = 200
|
249
|
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self._d_radios_weights = garray.zeros((self.num_weight_radios_per_app,) + one_slice_data_shape[1:], np.float32)
|
250
|
-
|
251
|
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pixel_size_cm = self.pixel_size_m * 100
|
252
|
-
|
253
|
-
radio_size_h = processed_radios_shape[-1]
|
254
|
-
|
255
|
-
assert (
|
256
|
-
2 * self.rotation_axis_position > radio_size_h
|
257
|
-
), """The code of this test is adapted for HA on the right. This seems to be a case
|
258
|
-
of HA on the left because self.rotation_axis_position={self.rotation_axis_position} and radio_size_h = {radio_size_h}
|
259
|
-
"""
|
260
|
-
|
261
|
-
rec_dim = int(round(2 * self.rotation_axis_position))
|
262
|
-
|
263
|
-
self.reconstruction = FBPClass(
|
264
|
-
one_slice_data_shape,
|
265
|
-
angles=np.zeros(processed_radios_shape[0], "f"),
|
266
|
-
rot_center=self.rotation_axis_position,
|
267
|
-
filter_name=None,
|
268
|
-
slice_roi=(0, rec_dim, 0, rec_dim),
|
269
|
-
extra_options={
|
270
|
-
"scale_factor": 1.0 / pixel_size_cm,
|
271
|
-
"axis_correction": np.zeros(processed_radios_shape[0], "f"),
|
272
|
-
"padding_mode": "edge",
|
273
|
-
},
|
274
|
-
)
|
275
|
-
self.reconstruction.fbp = self.reconstruction.backproj
|
276
|
-
|
277
|
-
self.d_rec_res = garray.zeros((rec_dim, rec_dim), np.float32)
|
278
|
-
self.rec_res = np.zeros((rec_dim, rec_dim), np.float32)
|
279
|
-
|
280
|
-
def _init_weight_balancer(self):
|
281
|
-
self.weight_balancer = WeightBalancer(self.rotation_axis_position, self.reconstruction_space.gridded_angles_rad)
|
282
|
-
|
283
|
-
def _balance_weights(self, weights):
|
284
|
-
self.weight_balancer.balance_weights(weights)
|
285
|
-
|
286
|
-
def _retrieve_phase(self, radios):
|
287
|
-
processed_radios = np.zeros(
|
288
|
-
(radios.shape[0],) + (radios.shape[1] - 2 * self.phase_margin_pix,) + (radios.shape[2],), radios.dtype
|
289
|
-
)
|
290
|
-
for i in range(radios.shape[0]):
|
291
|
-
processed_radios[i] = self.phase_retrieval.apply_filter(radios[i])
|
292
|
-
return processed_radios
|
293
|
-
|
294
|
-
def _read_data_and_apply_flats(self, sub_total_prange_slice, subchunk_slice, chunk_info, sub_region, span_info):
|
295
|
-
my_integer_shifts_v = chunk_info.integer_shift_v[subchunk_slice]
|
296
|
-
|
297
|
-
subr_start_z, subr_end_z = sub_region
|
298
|
-
|
299
|
-
subr_start_z_list = subr_start_z - my_integer_shifts_v
|
300
|
-
subr_end_z_list = subr_end_z - my_integer_shifts_v + 1
|
301
|
-
|
302
|
-
dtasrc_start_z = max(0, subr_start_z_list.min())
|
303
|
-
dtasrc_end_z = min(span_info.detector_shape_vh[0], subr_end_z_list.max())
|
304
|
-
|
305
|
-
data_raw = self.radios[sub_total_prange_slice, slice(dtasrc_start_z, dtasrc_end_z), :]
|
306
|
-
|
307
|
-
subsampling_file_slice = sub_total_prange_slice
|
308
|
-
|
309
|
-
# my_subsampled_indexes = self.chunk_reader._sorted_files_indices[subsampling_file_slice]
|
310
|
-
my_subsampled_indexes = (np.arange(10000))[subsampling_file_slice]
|
311
|
-
|
312
|
-
self.accumulator.extract_preprocess_with_flats(
|
313
|
-
subchunk_slice,
|
314
|
-
my_subsampled_indexes,
|
315
|
-
chunk_info,
|
316
|
-
np.array((subr_start_z, subr_end_z), "i"),
|
317
|
-
np.array((dtasrc_start_z, dtasrc_end_z), "i"),
|
318
|
-
data_raw,
|
319
|
-
)
|
320
|
-
|
321
|
-
def _init_ccd_corrections(self, radio_shape):
|
322
|
-
# but in real pipeline the radio_shape is obtained from the pipeline get_shape utility method
|
323
|
-
self.ccd_correction = CCDFilter(radio_shape, median_clip_thresh=self.median_clip_threshold)
|
324
|
-
|
325
|
-
def _ccd_corrections(self, radios):
|
326
|
-
_tmp_radio = np.empty_like(radios[0])
|
327
|
-
for i in range(radios.shape[0]):
|
328
|
-
self.ccd_correction.median_clip_correction(radios[i], output=_tmp_radio)
|
329
|
-
radios[i][:] = _tmp_radio[:]
|
330
|
-
|
331
|
-
def _take_log(self, radios):
|
332
|
-
self.mlog.take_logarithm(radios)
|
333
|
-
|
334
|
-
def _init_mlog(self, radios_shape):
|
335
|
-
log_shape = radios_shape
|
336
|
-
clip_min = 1.0e-6
|
337
|
-
clip_max = 1.1
|
338
|
-
self.mlog = Log(log_shape, clip_min=clip_min, clip_max=clip_max)
|
339
|
-
|
340
|
-
def _init_phase(self, raw_shape):
|
341
|
-
self.phase_retrieval = PaganinPhaseRetrieval(
|
342
|
-
raw_shape,
|
343
|
-
distance=self.distance_m,
|
344
|
-
energy=self.energy_kev,
|
345
|
-
delta_beta=self.delta_beta,
|
346
|
-
pixel_size=self.pixel_size_m,
|
347
|
-
padding=self.padding_type,
|
348
|
-
margin=((self.phase_margin_pix,) * 2, (0, 0)),
|
349
|
-
use_R2C=True,
|
350
|
-
fftw_num_threads=True, # TODO tune in advanced params of nabu config file
|
351
|
-
)
|
352
|
-
if self.phase_retrieval.use_fftw:
|
353
|
-
self.logger.debug(
|
354
|
-
"PaganinPhaseRetrieval using FFTW with %d threads" % self.phase_retrieval.fftw.num_threads
|
355
|
-
)
|
@@ -1,61 +0,0 @@
|
|
1
|
-
import pytest
|
2
|
-
import numpy as np
|
3
|
-
from nabu.testutils import get_data as nabu_get_data
|
4
|
-
from nabu.pipeline.helical.span_strategy import SpanStrategy
|
5
|
-
|
6
|
-
|
7
|
-
@pytest.fixture(scope="class")
|
8
|
-
def bootstrap_TestStrategy(request):
|
9
|
-
cls = request.cls
|
10
|
-
cls.abs_tol = 1.0e-6
|
11
|
-
|
12
|
-
# from the Paul telephone dataset
|
13
|
-
test_data = nabu_get_data("data_test_strategy.npz")
|
14
|
-
|
15
|
-
cls.z_pix_per_proj = test_data["z_pix_per_proj"]
|
16
|
-
cls.x_pix_per_proj = test_data["x_pix_per_proj"]
|
17
|
-
cls.detector_shape_vh = test_data["detector_shape_vh"]
|
18
|
-
cls.phase_margin_pix = test_data["phase_margin_pix"]
|
19
|
-
cls.projection_angles_deg = test_data["projection_angles_deg"]
|
20
|
-
cls.require_redundancy = test_data["require_redundancy"]
|
21
|
-
cls.pixel_size_mm = test_data["pixel_size_mm"]
|
22
|
-
|
23
|
-
cls.result_angle_index_span = test_data["result_angle_index_span"]
|
24
|
-
cls.result_angles_rad = test_data["result_angles_rad"]
|
25
|
-
cls.result_fract_complement_to_integer_shift_v = test_data["result_fract_complement_to_integer_shift_v"]
|
26
|
-
cls.result_integer_shift_v = test_data["result_integer_shift_v"]
|
27
|
-
cls.result_span_v = test_data["result_span_v"]
|
28
|
-
cls.result_x_pix_per_proj = test_data["result_x_pix_per_proj"]
|
29
|
-
cls.result_z_pix_per_proj = test_data["result_z_pix_per_proj"]
|
30
|
-
|
31
|
-
cls.test_data = test_data
|
32
|
-
|
33
|
-
|
34
|
-
@pytest.mark.usefixtures("bootstrap_TestStrategy")
|
35
|
-
class TestStrategy:
|
36
|
-
def test_strategy(self):
|
37
|
-
# the python implementation is slow. so we take only a p[art of the scan
|
38
|
-
limit = 4000
|
39
|
-
span_info = SpanStrategy(
|
40
|
-
z_pix_per_proj=self.z_pix_per_proj[:limit],
|
41
|
-
x_pix_per_proj=self.x_pix_per_proj[:limit],
|
42
|
-
detector_shape_vh=self.detector_shape_vh,
|
43
|
-
phase_margin_pix=self.phase_margin_pix,
|
44
|
-
projection_angles_deg=self.projection_angles_deg[:limit],
|
45
|
-
pixel_size_mm=self.pixel_size_mm,
|
46
|
-
require_redundancy=self.require_redundancy,
|
47
|
-
)
|
48
|
-
|
49
|
-
print(span_info.get_informative_string())
|
50
|
-
chunk_info = span_info.get_chunk_info(self.result_span_v)
|
51
|
-
|
52
|
-
for key, val in chunk_info.__dict__.items():
|
53
|
-
reference = getattr(self, "result_" + key)
|
54
|
-
ref_array = np.array(reference)
|
55
|
-
res_array = np.array(val)
|
56
|
-
if res_array.dtype in [bool, np.int32, np.int64]:
|
57
|
-
message = f" different result for {key} attribute in the chunk_info returned value "
|
58
|
-
assert np.array_equal(res_array, ref_array), message
|
59
|
-
elif res_array.dtype in [np.float32, np.float64]:
|
60
|
-
message = f" different result for {key} attribute in the chunk_info returned value "
|
61
|
-
assert np.all(np.isclose(res_array, ref_array, atol=self.abs_tol)), message
|
@@ -1,51 +0,0 @@
|
|
1
|
-
from ...utils import *
|
2
|
-
from ...io.writer import Writers, NXProcessWriter
|
3
|
-
from ...io.tiffwriter_zmm import TIFFWriter
|
4
|
-
from ...resources.logger import LoggerOrPrint
|
5
|
-
from ...resources.utils import is_hdf5_extension
|
6
|
-
from os import path, mkdir
|
7
|
-
from ...utils import check_supported
|
8
|
-
from ..fallback_utils import WriterConfigurator
|
9
|
-
from ..params import files_formats
|
10
|
-
|
11
|
-
Writers["tif"] = TIFFWriter
|
12
|
-
Writers["tiff"] = TIFFWriter
|
13
|
-
|
14
|
-
|
15
|
-
class WriterConfiguratorHelical(WriterConfigurator):
|
16
|
-
def _get_initial_writer_kwarg(self):
|
17
|
-
if self.file_format in ["tif", "tiff"]:
|
18
|
-
return {"heights_above_stage_mm": self.heights_above_stage_mm}
|
19
|
-
else:
|
20
|
-
return {}
|
21
|
-
|
22
|
-
def __init__(
|
23
|
-
self,
|
24
|
-
output_dir,
|
25
|
-
file_prefix,
|
26
|
-
file_format="hdf5",
|
27
|
-
overwrite=False,
|
28
|
-
start_index=None,
|
29
|
-
logger=None,
|
30
|
-
nx_info=None,
|
31
|
-
write_histogram=False,
|
32
|
-
histogram_entry="entry",
|
33
|
-
writer_options=None,
|
34
|
-
extra_options=None,
|
35
|
-
heights_above_stage_mm=None,
|
36
|
-
):
|
37
|
-
self.heights_above_stage_mm = heights_above_stage_mm
|
38
|
-
self.file_format = file_format
|
39
|
-
super().__init__(
|
40
|
-
output_dir,
|
41
|
-
file_prefix,
|
42
|
-
file_format=file_format,
|
43
|
-
overwrite=overwrite,
|
44
|
-
start_index=start_index,
|
45
|
-
logger=logger,
|
46
|
-
nx_info=nx_info,
|
47
|
-
write_histogram=write_histogram,
|
48
|
-
histogram_entry=histogram_entry,
|
49
|
-
writer_options=writer_options,
|
50
|
-
extra_options=extra_options,
|
51
|
-
)
|
@@ -1,101 +0,0 @@
|
|
1
|
-
import numpy as np
|
2
|
-
import math
|
3
|
-
|
4
|
-
|
5
|
-
class WeightBalancer:
|
6
|
-
def __init__(self, rot_center, angles_rad):
|
7
|
-
"""This class contains the method for rebalancing the weight prior to
|
8
|
-
backprojection. The weights of halfomo redundacy data ( the central part) are rebalanced.
|
9
|
-
In a pipeline, the weights rebalanced by the method balance_weight, have to be applied to the ramp-filtered
|
10
|
-
data prior to backprojection.
|
11
|
-
As a matter of fact the method balance_weights could be called as a function, but in order to be conformant
|
12
|
-
to Nabu, we create this class and follow the scheme initialisation + application.
|
13
|
-
|
14
|
-
Parameters
|
15
|
-
==========
|
16
|
-
|
17
|
-
rot_center : float
|
18
|
-
the center of rotation in pixel units
|
19
|
-
angles_rad :
|
20
|
-
the angles corresponding to the to be rebalanced projections
|
21
|
-
|
22
|
-
"""
|
23
|
-
self.rot_center = rot_center
|
24
|
-
self.my_angles_rad = angles_rad
|
25
|
-
|
26
|
-
def balance_weights(self, radios_weights):
|
27
|
-
"""
|
28
|
-
The parameter radios_weights is a stack having having the same weight as the stack of projections. It is modified in place, correcting
|
29
|
-
the value of overlapping data, so that the sum is always one
|
30
|
-
"""
|
31
|
-
radios_weights[:] = self._rebalance(radios_weights)
|
32
|
-
|
33
|
-
def _rebalance(self, radios_weights):
|
34
|
-
"""rebalance the weights, within groups of equivalent (up to multiple of 180), data pixels"""
|
35
|
-
|
36
|
-
balanced = np.zeros_like(radios_weights)
|
37
|
-
n_span = int(math.ceil(self.my_angles_rad[-1] - self.my_angles_rad[0]) / np.pi)
|
38
|
-
center = (radios_weights.shape[-1] - 1) / 2
|
39
|
-
nloop = balanced.shape[0]
|
40
|
-
|
41
|
-
for i in range(nloop):
|
42
|
-
w_res = balanced[i]
|
43
|
-
angle = self.my_angles_rad[i]
|
44
|
-
|
45
|
-
for i_half_turn in range(-n_span - 1, n_span + 2):
|
46
|
-
if i_half_turn == 0:
|
47
|
-
w_res[:] += radios_weights[i]
|
48
|
-
continue
|
49
|
-
|
50
|
-
shifted_angle = angle + i_half_turn * np.pi
|
51
|
-
|
52
|
-
insertion_index = np.searchsorted(self.my_angles_rad, shifted_angle)
|
53
|
-
|
54
|
-
if insertion_index in [0, self.my_angles_rad.shape[0]]:
|
55
|
-
if insertion_index == 0:
|
56
|
-
if abs(self.my_angles_rad[0] - shifted_angle) > np.pi / 100:
|
57
|
-
continue
|
58
|
-
myimage = radios_weights[0]
|
59
|
-
else:
|
60
|
-
if abs(self.my_angles_rad[-1] - shifted_angle) > np.pi / 100:
|
61
|
-
continue
|
62
|
-
myimage = radios_weights[-1]
|
63
|
-
else:
|
64
|
-
partition = shifted_angle - self.my_angles_rad[insertion_index - 1]
|
65
|
-
myimage = (1.0 - partition) * radios_weights[insertion_index - 1] + partition * radios_weights[
|
66
|
-
insertion_index
|
67
|
-
]
|
68
|
-
|
69
|
-
if i_half_turn % 2 == 0:
|
70
|
-
w_res[:] += myimage
|
71
|
-
else:
|
72
|
-
myimage = np.fliplr(myimage)
|
73
|
-
w_res[:] += shift(myimage, (2 * self.rot_center - 2 * center))
|
74
|
-
|
75
|
-
mask = np.equal(0, radios_weights)
|
76
|
-
balanced[:] = radios_weights / balanced
|
77
|
-
balanced[mask] = 0
|
78
|
-
return balanced
|
79
|
-
|
80
|
-
|
81
|
-
def shift(arr, shift, fill_value=0.0):
|
82
|
-
"""trivial horizontal shift.
|
83
|
-
Contrarily to scipy.ndimage.interpolation.shift, this shift does not cut the tails abruptly, but by interpolation
|
84
|
-
"""
|
85
|
-
result = np.zeros_like(arr)
|
86
|
-
|
87
|
-
num1 = int(math.floor(shift))
|
88
|
-
num2 = num1 + 1
|
89
|
-
partition = shift - num1
|
90
|
-
|
91
|
-
for num, factor in zip([num1, num2], [(1 - partition), partition]):
|
92
|
-
if num > 0:
|
93
|
-
result[:, :num] += fill_value * factor
|
94
|
-
result[:, num:] += arr[:, :-num] * factor
|
95
|
-
elif num < 0:
|
96
|
-
result[:, num:] += fill_value * factor
|
97
|
-
result[:, :num] += arr[:, -num:] * factor
|
98
|
-
else:
|
99
|
-
result[:] += arr * factor
|
100
|
-
|
101
|
-
return result
|