httomo-backends 2.1__py3-none-any.whl → 2.1.1__py3-none-any.whl

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Files changed (77) hide show
  1. httomo_backends/yaml_templates/httomolib/httomolib.misc.images/save_to_images.yaml +13 -0
  2. httomo_backends/yaml_templates/httomolib/httomolib.misc.morph/data_reducer.yaml +5 -0
  3. httomo_backends/yaml_templates/httomolib/httomolib.misc.segm/binary_thresholding.yaml +7 -0
  4. httomo_backends/yaml_templates/httomolib/httomolib.prep.phase/paganin_filter.yaml +7 -0
  5. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.corr/median_filter.yaml +5 -0
  6. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.corr/remove_outlier.yaml +5 -0
  7. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.morph/data_resampler.yaml +6 -0
  8. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.morph/sino_360_to_180.yaml +5 -0
  9. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.rescale/rescale_to_int.yaml +7 -0
  10. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.alignment/distortion_correction_proj_discorpy.yaml +7 -0
  11. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.normalize/normalize.yaml +7 -0
  12. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.phase/paganin_filter_savu.yaml +11 -0
  13. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.phase/paganin_filter_tomopy.yaml +7 -0
  14. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.stripe/remove_all_stripe.yaml +7 -0
  15. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.stripe/remove_stripe_based_sorting.yaml +5 -0
  16. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.prep.stripe/remove_stripe_ti.yaml +4 -0
  17. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/CGLS.yaml +7 -0
  18. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/FBP.yaml +7 -0
  19. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/LPRec.yaml +6 -0
  20. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/SIRT.yaml +7 -0
  21. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.rotation/find_center_360.yaml +15 -0
  22. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.rotation/find_center_pc.yaml +10 -0
  23. httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.rotation/find_center_vo.yaml +13 -0
  24. httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/downsample.yaml +5 -0
  25. httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/pad.yaml +6 -0
  26. httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/sino_360_to_180.yaml +5 -0
  27. httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/trim_sinogram.yaml +7 -0
  28. httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/upsample.yaml +5 -0
  29. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/add_jitter.yaml +5 -0
  30. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/add_noise.yaml +4 -0
  31. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/align_joint.yaml +16 -0
  32. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/align_seq.yaml +16 -0
  33. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/blur_edges.yaml +5 -0
  34. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/distortion_correction_proj.yaml +6 -0
  35. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/distortion_correction_sino.yaml +7 -0
  36. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/scale.yaml +3 -0
  37. httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/shift_images.yaml +5 -0
  38. httomo_backends/yaml_templates/tomopy/tomopy.prep.normalize/minus_log.yaml +3 -0
  39. httomo_backends/yaml_templates/tomopy/tomopy.prep.normalize/normalize.yaml +5 -0
  40. httomo_backends/yaml_templates/tomopy/tomopy.prep.normalize/normalize_bg.yaml +4 -0
  41. httomo_backends/yaml_templates/tomopy/tomopy.prep.normalize/normalize_nf.yaml +6 -0
  42. httomo_backends/yaml_templates/tomopy/tomopy.prep.normalize/normalize_roi.yaml +8 -0
  43. httomo_backends/yaml_templates/tomopy/tomopy.prep.phase/retrieve_phase.yaml +8 -0
  44. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_all_stripe.yaml +7 -0
  45. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_dead_stripe.yaml +6 -0
  46. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_large_stripe.yaml +7 -0
  47. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_based_filtering.yaml +6 -0
  48. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_based_fitting.yaml +7 -0
  49. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_based_interpolation.yaml +7 -0
  50. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_based_sorting.yaml +5 -0
  51. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_fw.yaml +7 -0
  52. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_sf.yaml +4 -0
  53. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/remove_stripe_ti.yaml +5 -0
  54. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/stripes_detect3d.yaml +5 -0
  55. httomo_backends/yaml_templates/tomopy/tomopy.prep.stripe/stripes_mask3d.yaml +9 -0
  56. httomo_backends/yaml_templates/tomopy/tomopy.recon.algorithm/recon.yaml +7 -0
  57. httomo_backends/yaml_templates/tomopy/tomopy.recon.rotation/find_center.yaml +15 -0
  58. httomo_backends/yaml_templates/tomopy/tomopy.recon.rotation/find_center_pc.yaml +10 -0
  59. httomo_backends/yaml_templates/tomopy/tomopy.recon.rotation/find_center_vo.yaml +13 -0
  60. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_drift.yaml +6 -0
  61. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_focal_spot_blur.yaml +4 -0
  62. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_gaussian.yaml +5 -0
  63. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_poisson.yaml +3 -0
  64. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_rings.yaml +4 -0
  65. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_salt_pepper.yaml +5 -0
  66. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/add_zingers.yaml +5 -0
  67. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/project.yaml +8 -0
  68. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/project2.yaml +10 -0
  69. httomo_backends/yaml_templates/tomopy/tomopy.sim.project/project3.yaml +11 -0
  70. {httomo_backends-2.1.dist-info → httomo_backends-2.1.1.dist-info}/METADATA +1 -1
  71. httomo_backends-2.1.1.dist-info/RECORD +101 -0
  72. httomo_backends-2.1.dist-info/RECORD +0 -32
  73. /httomo_backends/methods_database/{__init__.py → backends/httomolibgpu/__init__.py} +0 -0
  74. /httomo_backends/{yaml_templates → methods_database/backends/tomopy}/__init__.py +0 -0
  75. {httomo_backends-2.1.dist-info → httomo_backends-2.1.1.dist-info}/LICENSE +0 -0
  76. {httomo_backends-2.1.dist-info → httomo_backends-2.1.1.dist-info}/WHEEL +0 -0
  77. {httomo_backends-2.1.dist-info → httomo_backends-2.1.1.dist-info}/top_level.txt +0 -0
@@ -0,0 +1,13 @@
1
+ - method: save_to_images
2
+ module_path: httomolib.misc.images
3
+ parameters:
4
+ subfolder_name: images
5
+ axis: auto
6
+ file_format: tif
7
+ bits: 8
8
+ perc_range_min: 0.0
9
+ perc_range_max: 100.0
10
+ jpeg_quality: 95
11
+ glob_stats: ${{statistics.side_outputs.glob_stats}}
12
+ watermark_vals: null
13
+ asynchronous: true
@@ -0,0 +1,5 @@
1
+ - method: data_reducer
2
+ module_path: httomolib.misc.morph
3
+ parameters:
4
+ axis: auto
5
+ method: mean
@@ -0,0 +1,7 @@
1
+ - method: binary_thresholding
2
+ module_path: httomolib.misc.segm
3
+ parameters:
4
+ val_intensity: 0.1
5
+ otsu: false
6
+ foreground: true
7
+ axis: auto
@@ -0,0 +1,7 @@
1
+ - method: paganin_filter
2
+ module_path: httomolib.prep.phase
3
+ parameters:
4
+ pixel_size: 0.0001
5
+ dist: 50.0
6
+ energy: 53.0
7
+ alpha: 0.001
@@ -0,0 +1,5 @@
1
+ - method: median_filter
2
+ module_path: httomolibgpu.misc.corr
3
+ parameters:
4
+ kernel_size: 3
5
+ dif: 0.0
@@ -0,0 +1,5 @@
1
+ - method: remove_outlier
2
+ module_path: httomolibgpu.misc.corr
3
+ parameters:
4
+ kernel_size: 3
5
+ dif: 0.1
@@ -0,0 +1,6 @@
1
+ - method: data_resampler
2
+ module_path: httomolibgpu.misc.morph
3
+ parameters:
4
+ newshape: REQUIRED
5
+ axis: auto
6
+ interpolation: linear
@@ -0,0 +1,5 @@
1
+ - method: sino_360_to_180
2
+ module_path: httomolibgpu.misc.morph
3
+ parameters:
4
+ overlap: ${{centering.side_outputs.overlap}}
5
+ rotation: left
@@ -0,0 +1,7 @@
1
+ - method: rescale_to_int
2
+ module_path: httomolibgpu.misc.rescale
3
+ parameters:
4
+ perc_range_min: 0.0
5
+ perc_range_max: 100.0
6
+ bits: 8
7
+ glob_stats: ${{statistics.side_outputs.glob_stats}}
@@ -0,0 +1,7 @@
1
+ - method: distortion_correction_proj_discorpy
2
+ module_path: httomolibgpu.prep.alignment
3
+ parameters:
4
+ metadata_path: REQUIRED
5
+ preview: REQUIRED
6
+ order: 1
7
+ mode: reflect
@@ -0,0 +1,7 @@
1
+ - method: normalize
2
+ module_path: httomolibgpu.prep.normalize
3
+ parameters:
4
+ cutoff: 10.0
5
+ minus_log: true
6
+ nonnegativity: false
7
+ remove_nans: false
@@ -0,0 +1,11 @@
1
+ - method: paganin_filter_savu
2
+ module_path: httomolibgpu.prep.phase
3
+ parameters:
4
+ ratio: 250.0
5
+ energy: 53.0
6
+ distance: 1.0
7
+ resolution: 1.28
8
+ pad_y: 100
9
+ pad_x: 100
10
+ pad_method: edge
11
+ increment: 0.0
@@ -0,0 +1,7 @@
1
+ - method: paganin_filter_tomopy
2
+ module_path: httomolibgpu.prep.phase
3
+ parameters:
4
+ pixel_size: 0.0001
5
+ dist: 50.0
6
+ energy: 53.0
7
+ alpha: 0.001
@@ -0,0 +1,7 @@
1
+ - method: remove_all_stripe
2
+ module_path: httomolibgpu.prep.stripe
3
+ parameters:
4
+ snr: 3.0
5
+ la_size: 61
6
+ sm_size: 21
7
+ dim: 1
@@ -0,0 +1,5 @@
1
+ - method: remove_stripe_based_sorting
2
+ module_path: httomolibgpu.prep.stripe
3
+ parameters:
4
+ size: 11
5
+ dim: 1
@@ -0,0 +1,4 @@
1
+ - method: remove_stripe_ti
2
+ module_path: httomolibgpu.prep.stripe
3
+ parameters:
4
+ beta: 0.1
@@ -0,0 +1,7 @@
1
+ - method: CGLS
2
+ module_path: httomolibgpu.recon.algorithm
3
+ parameters:
4
+ center: ${{centering.side_outputs.centre_of_rotation}}
5
+ recon_size: null
6
+ iterations: 20
7
+ nonnegativity: true
@@ -0,0 +1,7 @@
1
+ - method: FBP
2
+ module_path: httomolibgpu.recon.algorithm
3
+ parameters:
4
+ center: ${{centering.side_outputs.centre_of_rotation}}
5
+ filter_freq_cutoff: 1.1
6
+ recon_size: null
7
+ recon_mask_radius: null
@@ -0,0 +1,6 @@
1
+ - method: LPRec
2
+ module_path: httomolibgpu.recon.algorithm
3
+ parameters:
4
+ center: ${{centering.side_outputs.centre_of_rotation}}
5
+ recon_size: null
6
+ recon_mask_radius: null
@@ -0,0 +1,7 @@
1
+ - method: SIRT
2
+ module_path: httomolibgpu.recon.algorithm
3
+ parameters:
4
+ center: ${{centering.side_outputs.centre_of_rotation}}
5
+ recon_size: null
6
+ iterations: 300
7
+ nonnegativity: true
@@ -0,0 +1,15 @@
1
+ - method: find_center_360
2
+ module_path: httomolibgpu.recon.rotation
3
+ parameters:
4
+ ind: null
5
+ win_width: 10
6
+ side: null
7
+ denoise: true
8
+ norm: false
9
+ use_overlap: false
10
+ id: centering
11
+ side_outputs:
12
+ cor: centre_of_rotation
13
+ overlap: overlap
14
+ side: side
15
+ overlap_position: overlap_position
@@ -0,0 +1,10 @@
1
+ - method: find_center_pc
2
+ module_path: httomolibgpu.recon.rotation
3
+ parameters:
4
+ proj1: auto
5
+ proj2: auto
6
+ tol: 0.5
7
+ rotc_guess: null
8
+ id: centering
9
+ side_outputs:
10
+ cor: centre_of_rotation
@@ -0,0 +1,13 @@
1
+ - method: find_center_vo
2
+ module_path: httomolibgpu.recon.rotation
3
+ parameters:
4
+ ind: null
5
+ smin: -50
6
+ smax: 50
7
+ srad: 6.0
8
+ step: 0.25
9
+ ratio: 0.5
10
+ drop: 20
11
+ id: centering
12
+ side_outputs:
13
+ cor: centre_of_rotation
@@ -0,0 +1,5 @@
1
+ - method: downsample
2
+ module_path: tomopy.misc.morph
3
+ parameters:
4
+ level: 1
5
+ axis: auto
@@ -0,0 +1,6 @@
1
+ - method: pad
2
+ module_path: tomopy.misc.morph
3
+ parameters:
4
+ axis: REQUIRED
5
+ npad: null
6
+ mode: constant
@@ -0,0 +1,5 @@
1
+ - method: sino_360_to_180
2
+ module_path: tomopy.misc.morph
3
+ parameters:
4
+ overlap: ${{centering.side_outputs.overlap}}
5
+ rotation: left
@@ -0,0 +1,7 @@
1
+ - method: trim_sinogram
2
+ module_path: tomopy.misc.morph
3
+ parameters:
4
+ center: REQUIRED
5
+ x: REQUIRED
6
+ y: REQUIRED
7
+ diameter: REQUIRED
@@ -0,0 +1,5 @@
1
+ - method: upsample
2
+ module_path: tomopy.misc.morph
3
+ parameters:
4
+ level: 1
5
+ axis: auto
@@ -0,0 +1,5 @@
1
+ - method: add_jitter
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ low: 0
5
+ high: 1
@@ -0,0 +1,4 @@
1
+ - method: add_noise
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ ratio: 0.05
@@ -0,0 +1,16 @@
1
+ - method: align_joint
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ fdir: ./
5
+ iters: 10
6
+ pad: !!python/tuple
7
+ - 0
8
+ - 0
9
+ blur: true
10
+ center: ${{centering.side_outputs.centre_of_rotation}}
11
+ algorithm: sirt
12
+ upsample_factor: 10
13
+ rin: 0.5
14
+ rout: 0.8
15
+ save: false
16
+ debug: true
@@ -0,0 +1,16 @@
1
+ - method: align_seq
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ fdir: .
5
+ iters: 10
6
+ pad: !!python/tuple
7
+ - 0
8
+ - 0
9
+ blur: true
10
+ center: ${{centering.side_outputs.centre_of_rotation}}
11
+ algorithm: sirt
12
+ upsample_factor: 10
13
+ rin: 0.5
14
+ rout: 0.8
15
+ save: false
16
+ debug: true
@@ -0,0 +1,5 @@
1
+ - method: blur_edges
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ low: 0
5
+ high: 0.8
@@ -0,0 +1,6 @@
1
+ - method: distortion_correction_proj
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ xcenter: REQUIRED
5
+ ycenter: REQUIRED
6
+ list_fact: REQUIRED
@@ -0,0 +1,7 @@
1
+ - method: distortion_correction_sino
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ ind: REQUIRED
5
+ xcenter: REQUIRED
6
+ ycenter: REQUIRED
7
+ list_fact: REQUIRED
@@ -0,0 +1,3 @@
1
+ - method: scale
2
+ module_path: tomopy.prep.alignment
3
+ parameters: {}
@@ -0,0 +1,5 @@
1
+ - method: shift_images
2
+ module_path: tomopy.prep.alignment
3
+ parameters:
4
+ sx: REQUIRED
5
+ sy: REQUIRED
@@ -0,0 +1,3 @@
1
+ - method: minus_log
2
+ module_path: tomopy.prep.normalize
3
+ parameters: {}
@@ -0,0 +1,5 @@
1
+ - method: normalize
2
+ module_path: tomopy.prep.normalize
3
+ parameters:
4
+ cutoff: null
5
+ averaging: mean
@@ -0,0 +1,4 @@
1
+ - method: normalize_bg
2
+ module_path: tomopy.prep.normalize
3
+ parameters:
4
+ air: 1
@@ -0,0 +1,6 @@
1
+ - method: normalize_nf
2
+ module_path: tomopy.prep.normalize
3
+ parameters:
4
+ flat_loc: REQUIRED
5
+ cutoff: null
6
+ averaging: mean
@@ -0,0 +1,8 @@
1
+ - method: normalize_roi
2
+ module_path: tomopy.prep.normalize
3
+ parameters:
4
+ roi:
5
+ - 0
6
+ - 0
7
+ - 10
8
+ - 10
@@ -0,0 +1,8 @@
1
+ - method: retrieve_phase
2
+ module_path: tomopy.prep.phase
3
+ parameters:
4
+ pixel_size: 0.0001
5
+ dist: 50
6
+ energy: 20
7
+ alpha: 0.001
8
+ pad: true
@@ -0,0 +1,7 @@
1
+ - method: remove_all_stripe
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ snr: 3
5
+ la_size: 61
6
+ sm_size: 21
7
+ dim: 1
@@ -0,0 +1,6 @@
1
+ - method: remove_dead_stripe
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ snr: 3
5
+ size: 51
6
+ norm: true
@@ -0,0 +1,7 @@
1
+ - method: remove_large_stripe
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ snr: 3
5
+ size: 51
6
+ drop_ratio: 0.1
7
+ norm: true
@@ -0,0 +1,6 @@
1
+ - method: remove_stripe_based_filtering
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ sigma: 3
5
+ size: null
6
+ dim: 1
@@ -0,0 +1,7 @@
1
+ - method: remove_stripe_based_fitting
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ order: 3
5
+ sigma: !!python/tuple
6
+ - 5
7
+ - 20
@@ -0,0 +1,7 @@
1
+ - method: remove_stripe_based_interpolation
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ snr: 3
5
+ size: 31
6
+ drop_ratio: 0.1
7
+ norm: true
@@ -0,0 +1,5 @@
1
+ - method: remove_stripe_based_sorting
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ size: null
5
+ dim: 1
@@ -0,0 +1,7 @@
1
+ - method: remove_stripe_fw
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ level: null
5
+ wname: db5
6
+ sigma: 2
7
+ pad: true
@@ -0,0 +1,4 @@
1
+ - method: remove_stripe_sf
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ size: 5
@@ -0,0 +1,5 @@
1
+ - method: remove_stripe_ti
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ nblock: 0
5
+ alpha: 1.5
@@ -0,0 +1,5 @@
1
+ - method: stripes_detect3d
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ size: 10
5
+ radius: 3
@@ -0,0 +1,9 @@
1
+ - method: stripes_mask3d
2
+ module_path: tomopy.prep.stripe
3
+ parameters:
4
+ weights: REQUIRED
5
+ threshold: 0.6
6
+ min_stripe_length: 20
7
+ min_stripe_depth: 10
8
+ min_stripe_width: 5
9
+ sensitivity_perc: 85.0
@@ -0,0 +1,7 @@
1
+ - method: recon
2
+ module_path: tomopy.recon.algorithm
3
+ parameters:
4
+ center: ${{centering.side_outputs.centre_of_rotation}}
5
+ sinogram_order: false
6
+ algorithm: null
7
+ init_recon: null
@@ -0,0 +1,15 @@
1
+ - method: find_center
2
+ module_path: tomopy.recon.rotation
3
+ parameters:
4
+ ind: null
5
+ init: null
6
+ tol: 0.5
7
+ mask: true
8
+ ratio: 1.0
9
+ sinogram_order: false
10
+ id: centering
11
+ side_outputs:
12
+ cor: centre_of_rotation
13
+ overlap: overlap
14
+ side: side
15
+ overlap_position: overlap_position
@@ -0,0 +1,10 @@
1
+ - method: find_center_pc
2
+ module_path: tomopy.recon.rotation
3
+ parameters:
4
+ proj1: auto
5
+ proj2: auto
6
+ tol: 0.5
7
+ rotc_guess: null
8
+ id: centering
9
+ side_outputs:
10
+ cor: centre_of_rotation
@@ -0,0 +1,13 @@
1
+ - method: find_center_vo
2
+ module_path: tomopy.recon.rotation
3
+ parameters:
4
+ ind: null
5
+ smin: -50
6
+ smax: 50
7
+ srad: 6
8
+ step: 0.25
9
+ ratio: 0.5
10
+ drop: 20
11
+ id: centering
12
+ side_outputs:
13
+ cor: centre_of_rotation
@@ -0,0 +1,6 @@
1
+ - method: add_drift
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ amp: 0.2
5
+ period: 50
6
+ mean: 1
@@ -0,0 +1,4 @@
1
+ - method: add_focal_spot_blur
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ spotsize: REQUIRED
@@ -0,0 +1,5 @@
1
+ - method: add_gaussian
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ mean: 0
5
+ std: null
@@ -0,0 +1,3 @@
1
+ - method: add_poisson
2
+ module_path: tomopy.sim.project
3
+ parameters: {}
@@ -0,0 +1,4 @@
1
+ - method: add_rings
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ std: 0.05
@@ -0,0 +1,5 @@
1
+ - method: add_salt_pepper
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ prob: 0.01
5
+ val: null
@@ -0,0 +1,5 @@
1
+ - method: add_zingers
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ f: 0.01
5
+ sat: 65536
@@ -0,0 +1,8 @@
1
+ - method: project
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ obj: REQUIRED
5
+ center: ${{centering.side_outputs.centre_of_rotation}}
6
+ emission: true
7
+ pad: true
8
+ sinogram_order: false
@@ -0,0 +1,10 @@
1
+ - method: project2
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ objx: REQUIRED
5
+ objy: REQUIRED
6
+ center: ${{centering.side_outputs.centre_of_rotation}}
7
+ emission: true
8
+ pad: true
9
+ sinogram_order: false
10
+ axis: auto
@@ -0,0 +1,11 @@
1
+ - method: project3
2
+ module_path: tomopy.sim.project
3
+ parameters:
4
+ objx: REQUIRED
5
+ objy: REQUIRED
6
+ objz: REQUIRED
7
+ center: ${{centering.side_outputs.centre_of_rotation}}
8
+ emission: true
9
+ pad: true
10
+ sinogram_order: false
11
+ axis: auto
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: httomo-backends
3
- Version: 2.1
3
+ Version: 2.1.1
4
4
  Summary: Supplementary files for HTTomo backends.
5
5
  Author: Garry ODonnell, Jacob Williamson
6
6
  Author-email: Daniil Kazantsev <daniil.kazantsev@diamond.ac.uk>, Yousef Moazzam <yousef.moazzam@diamond.ac.uk>, Jessica Verschoyle <jessica.verschoyle@diamond.ac.uk>, Naman Gera <naman.gera@diamond.ac.uk>, scientificsoftware@diamond.ac.uk
@@ -0,0 +1,101 @@
1
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5
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+ httomo_backends/methods_database/backends/tomopy/tomopy.yaml,sha256=URe18BAV1EbGLil53t88T42BuKSiUHz6r3uzs_wo8Ug,11215
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+ httomo_backends/methods_database/backends/tomopy/tomopy_modules.yaml,sha256=5w93laHYw-vjcMi-28rPvrDY6vvIQ7ccKWegvmdGrRI,199
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+ httomo_backends/scripts/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+ httomo_backends/scripts/yaml_unsupported_tomopy_remove.py,sha256=R3ZAfFgpVsBWS7zBjLlU83-66nawo7EBegFsIAHBWmQ,3715
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+ httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.misc.rescale/rescale_to_int.yaml,sha256=WR_exoyowYnXgDOUH5JYGPQ17-MfUayuVkNwMQTHzac,198
24
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28
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30
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31
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33
+ httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/LPRec.yaml,sha256=lbO4NPdItzp7SUjLQiEjXGMZWXX1wPcxn0Wvh0ubl4o,182
34
+ httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.algorithm/SIRT.yaml,sha256=kolEzGdqLtbHLbEOHsmPEZhmBqJO6-rImwfQwpoKoGk,197
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36
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37
+ httomo_backends/yaml_templates/httomolibgpu/httomolibgpu.recon.rotation/find_center_vo.yaml,sha256=XU3wRjxPVtlS__Eh-fNSGpeg9Rv0CU_FAkaf7QhSG5Y,240
38
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/adjust_range.yaml,sha256=Gl0kOFTBZbSPjtqCx7R8e6xv9T1NU7rWSTBLuZvBwzs,99
39
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/circ_mask.yaml,sha256=QFNnrue97oBEzxYBfq2lKEXtAHi7M909FOwt7uSKSNo,111
40
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/gaussian_filter.yaml,sha256=e4PSOLW_XcK_bfGN1LXOj41XFNdMtrDO6lOBDDW29KI,113
41
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42
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43
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/median_filter_nonfinite.yaml,sha256=vsFr2kgmgB9BGXdsV-ue5wTWml1k5hUmPtaYxkrf5Xw,111
44
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45
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46
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47
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48
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/remove_outlier3d.yaml,sha256=Ts0FCen7aeQJliD1SU25CAjOl258hbifIr1xRdxyN4k,103
49
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/remove_ring.yaml,sha256=bHHBTX5Pvlx_FZ3LhaCA5moZzVs4_HHfVFbcZYN5UE4,239
50
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/sobel_filter.yaml,sha256=7Mp7raiUXqzAnn5TaWc-1NkPQ_A0y_XA-D2YNe3sbjQ,84
51
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/downsample.yaml,sha256=0yzF8HK20CdV9AglzlDLLvIpxI1i8oHT765bM4y13pk,96
52
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/pad.yaml,sha256=3xq-OnYBZDCLmSYp55QEonGm_eji9Hb8n8lZ0kDAUQE,114
53
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/sino_360_to_180.yaml,sha256=Q7rtbe31_D_NuoTMcJkaWZrbaymdDAcV0hZE6IDzZBk,141
54
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/trim_sinogram.yaml,sha256=DMIlTzNWeNYIdByAN5Az2uGt1C3qHYDWAhl4CRWPrks,147
55
+ httomo_backends/yaml_templates/tomopy/tomopy.misc.morph/upsample.yaml,sha256=vCOpsmDju2XAkhQCQr6RhlcUl4EClpmntd6x3R4IYO8,94
56
+ httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/add_jitter.yaml,sha256=GLV52c9tPwCPVqNP78LX-pu_nudNTsV5IyWLfOpRjUI,95
57
+ httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/add_noise.yaml,sha256=kJNzP1d8U61N33rPWTrsFIEBikWrUtbviTQtSmzA3Aw,87
58
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59
+ httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/align_seq.yaml,sha256=5Azph-dLEwnGdSOFPl4_RYLlvU-5cx-ouOhywRrVpdI,314
60
+ httomo_backends/yaml_templates/tomopy/tomopy.prep.alignment/blur_edges.yaml,sha256=sGjasrqZl4kKPoZ3SHVc3KvYcA8adGQQX5qwM5Txm9E,97
61
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62
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63
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64
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66
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67
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68
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69
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71
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72
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74
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75
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77
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78
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79
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82
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83
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84
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85
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86
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88
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89
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92
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93
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94
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95
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96
+ httomo_backends/yaml_templates/tomopy/tomopy.sim.project/project3.yaml,sha256=oyofKSMi-_dSpfjrKVMNDqoBhBCCSYbEVRz2Lsc8uTI,257
97
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101
+ httomo_backends-2.1.1.dist-info/RECORD,,
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4
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5
- httomo_backends/methods_database/backends/httomolibgpu/httomolibgpu_modules.yaml,sha256=iZpVLZvT-ZyR4kjC4cCHFGaci5T2cFxgXbPkHeLCXlw,254
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17
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25
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27
- httomo_backends/yaml_templates/tomopy/tomopy.misc.corr/sobel_filter.yaml,sha256=7Mp7raiUXqzAnn5TaWc-1NkPQ_A0y_XA-D2YNe3sbjQ,84
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- httomo_backends-2.1.dist-info/RECORD,,