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Contibutions #54

Merged
merged 196 commits into from
Oct 16, 2024
Merged

Contibutions #54

merged 196 commits into from
Oct 16, 2024

Commits on Oct 16, 2024

  1. Separate normalization for tags 

    Fix ResNet train model

Co-authored-by: RSaathof <r.saathof@tudelft.nl>
Co-authored-by: MagArvis <m.arvis@tudelft.nl>
    @SCiarella @RSaathof @MagArvis
    3 people committed Oct 16, 2024
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  2. Add readthedocs.yaml

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  3. Add docs

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  4. Refactor tests

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  5. Update gitignore

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  6. Fix action for testing on python3.11

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  7. Fix action for testing on python3.11

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  8. Fix action for testing on python3.11

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  9. Fix action for testing on python3.11

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  10. Fix action for testing on python3.11

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  11. Fix action for testing on python3.11

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  12. Fix action for testing on python3.11

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  13. Fix action for testing on python3.11

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  14. Fix action for testing on python3.11

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  15. Fix action for testing on python3.11

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  16. Cleanup build-test action

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  17. Add back PyYAML to requirements

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  18. Use Literate from typing

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  19. Add cn2 profile plots

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  20. Uniform normalization

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  21. Uniform normalization

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  22. Uniform normalization

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  23. Multichannel

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  24. Fix repetitions in multichannel

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  25. Add MAEloss 

    Fix SCNN loading
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  26. Refactor scnn

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  27. Allow no centercrop

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  28. Fix equivariant shift and make it optional

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  29. Fix train_test_split import

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  30. Add equivariant C<8

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  31. Update readme

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  32. Refactor some functions

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  33. Add extra loss elements

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  34. Fix multiloss

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  35. up

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  36. Make original img optional

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  37. Add h5py to requirements

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  38. Loss to device

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  39. Fix Loss to device

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  40. Add histo of different losses

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  41. Normalize L1/L2 J/Cn loss

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  42. Normalize MSE/MAE per dataset and not per screen

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  43. Add histo of physical parameters 

    Co-authored-by: RSaathof <r.saathof@tudelft.nl>
Co-authored-by: MagArvis <m.arvis@tudelft.nl>
    @SCiarella @RSaathof @MagArvis
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  44. Fix args in normalize_img

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  45. Fix histogram axes and bins

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  46. Plot loss vs t on log-y

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  47. Histos on logscale

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  48. Add spider 

    Co-authored-by: RSaathof <r.saathof@tudelft.nl>
Co-authored-by: MagArvis <m.arvis@tudelft.nl>
    @SCiarella @RSaathof @MagArvis
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  49. Add screen tag MAE/MSE

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  50. Switch to pyproject.toml 

    Fix pre-commit
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  51. fix tests

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  52. Fix path examples

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  53. Fix path examples

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  54. Fix path examples

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  55. Fix path examples

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  56. Fix path examples

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  57. Update pip in action

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  58. python-dev in action

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  59. Fix dep

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  60. Fix dep

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  61. Lint

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  62. Add req

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  63. fix action

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  64. fix action

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  65. fix action

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  66. bump

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  67. Put back action publish on tag

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  68. Put back action publish on tag

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  69. bump

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  70. Add fortran compiler

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  71. Fix dependencies

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  72. Update python in bump

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  73. Update version counter

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  74. Add print statements in preprocessing

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  75. Update Citations

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  76. Updated requirements.txt files

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  77. Bump version to: 0.1.1

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  78. Update publish.yaml

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  79. Fix histo sum J plot

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  80. Bump version to: 0.1.3

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  81. Fix histo sum J plot

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  82. Add average ensemble mode

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  83. Use dictionary.get for default values

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  84. Fix dict

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  85. Fix init ensemble

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  86. Fix init ensemble

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  87. Fix init ensemble

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  88. Change loss units

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  89. Change loss units

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  90. Change loss units

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  91. Make errors relative

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  92. Make float32 img

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  93. A

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  94. Add target squeeze

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  95. Fix bug float h5

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  96. Fix histos

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  97. Scale MSE/MAE

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  98. Fix MAE loss

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  99. Add noise 

    Co-authored-by: RSaathof <r.saathof@tudelft.nl>
Co-authored-by: MagArvis <m.arvis@tudelft.nl>
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  100. Fix Spider 

    Implement signal-to-noise-ratio

Add histos of parameters
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  101. Fix noise

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  102. fix device bug for noise

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  103. fix device bug for mask

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  104. Add bars to histo params

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  105. Test remove sigmoid

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  106. Remove one dropout

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  107. Define final block from YAML

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  108. Mask into a function

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  109. Update README with citation info and link to license

    @luisaforozco @SCiarella
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  110. fix the dependencies (#35)

    @v1kko @SCiarella
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  111. Add realistic noise from Rudolf 

    Co-authored-by: RSaathof <r.saathof@tudelft.nl>
Co-authored-by: MagArvis <m.arvis@tudelft.nl>
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  112. Mkdocs (#40) 

    * Remove sphinx and add mkdocs skelethon

* fix 3.10 to 3.x in action

* Use python 3.10 for docs action so that it install lie_learn

* Update docs

---------

Co-authored-by: Luisa Orozco <l.orozco@esciencecenter.nl>
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  113. Clean

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  114. Lint

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  115. Update docstrings

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  116. Update docstrings

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  117. Update docs.yaml

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  118. Updated requirements.txt files

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  119. Bump version to: 0.1.4

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  120. Update CONTRIBUTING.md

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  121. Update CONTRIBUTING.md

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  122. Make compatible with new filenames

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  123. update submodules

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  124. Update coverbadge to v1.7

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  125. Fix typing in plots.py for mypy

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  126. test

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  127. test

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  128. remove print

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  129. Make spider-mask application optional

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  130. Make spider-mask application optional

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  131. Add debug print

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  132. Implement speckle averaging for testing

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  133. Add speckle averaging

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  134. Update submodules

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  135. Update submodules

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  136. Fix speckle-averaging on gpu tensors

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  137. Add detailed histograms per bin 

    Improve average plots
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  138. Update submodule

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  139. Improve histo details

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  140. remove local test data

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  141. reformat test data

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  142. add gitignore in test

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  143. update tests

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  144. Update README.md (#44)

    @v1kko @SCiarella
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  145. minor improvements to documentation (#45) 

    * Add instructions to updated submodules for developers

* FIx broken refence to gif, add docs banners
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  146. add check for presence of data

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  147. update submodule

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  148. typos and accesing cmap trough pyplot instead of cm

    @luisaforozco @SCiarella
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  149. update test

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  150. update submodule

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  151. update submodule

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  152. Add load_model_state to the exported functions

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  153. update submodule

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  154. update submodule

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  155. update tests

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  156. Add test img example

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  157. update test img example

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  158. Add test weights 

    update submodules
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  159. fix test

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  160. add cleanup before tests

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  161. upload artifacts in test action

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  162. upload artifacts in test action

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  163. upload artifacts in test action

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  164. Include detailed histos for J

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  165. fix gpu compatibility

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  166. Include detailed histos for Isoplanatic and Scintillation 

    Fix missing data for tests
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  167. Refactor figure test into multiple tests

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  168. Add trimmed mean as evaluator

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  169. Improve scoring and averaging plots

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  170. add J error plot

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  171. Fix histos

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  172. fix gpu

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  173. fix gpu

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  174. add test for random numbers generators

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  175. fix gpu

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  176. Skip test if python!=3.10

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  177. fix skip test if python!=3.10

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  178. Pin python3.10.12 for test

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  179. Pin environment for test

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  180. Update test env 

    fix pre-commit
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  181. temporarily remove docformatter 

    update requirements
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  182. update tests

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  183. clean pytest cache

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  184. use ubuntu22.04 for tests

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  185. Reformat plot folder structure

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  186. update submodules

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  187. Add extra test artifacts

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  188. Add extra test artifacts

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  189. Improve error plot visual 

    update submodules
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  190. Add extra test artifacts

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  191. Add extra test artifacts

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  192. Add create reference worklow

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  193. Add AI disclaimer

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  194. Upload artifacts only on fail

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  195. Set test baseline generator to run every month

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  196. Add workflow to check github runner update

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