FlowCyPy 0.5.13__tar.gz → 0.5.15__tar.gz

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.
Files changed (144) hide show
  1. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/_version.py +2 -2
  2. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/PKG-INFO +1 -1
  3. {flowcypy-0.5.13 → flowcypy-0.5.15}/PKG-INFO +1 -1
  4. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/flow_cytometer_signal.py +1 -1
  5. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/tutorials/workflow.py +1 -1
  6. {flowcypy-0.5.13 → flowcypy-0.5.15}/.flake8 +0 -0
  7. {flowcypy-0.5.13 → flowcypy-0.5.15}/.github/dependabot.yml +0 -0
  8. {flowcypy-0.5.13 → flowcypy-0.5.15}/.github/workflows/deploy_PyPi.yml +0 -0
  9. {flowcypy-0.5.13 → flowcypy-0.5.15}/.github/workflows/deploy_anaconda.yml +0 -0
  10. {flowcypy-0.5.13 → flowcypy-0.5.15}/.github/workflows/deploy_coverage.yml +0 -0
  11. {flowcypy-0.5.13 → flowcypy-0.5.15}/.github/workflows/deploy_documentation.yml +0 -0
  12. {flowcypy-0.5.13 → flowcypy-0.5.15}/.gitignore +0 -0
  13. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/__init__.py +0 -0
  14. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/classifier.py +0 -0
  15. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/coupling_mechanism/__init__.py +0 -0
  16. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/coupling_mechanism/empirical.py +0 -0
  17. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/coupling_mechanism/mie.py +0 -0
  18. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/coupling_mechanism/rayleigh.py +0 -0
  19. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/coupling_mechanism/uniform.py +0 -0
  20. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/cytometer.py +0 -0
  21. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/detector.py +0 -0
  22. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/directories.py +0 -0
  23. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/__init__.py +0 -0
  24. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/base_class.py +0 -0
  25. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/delta.py +0 -0
  26. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/lognormal.py +0 -0
  27. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/normal.py +0 -0
  28. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/particle_size_distribution.py +0 -0
  29. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/uniform.py +0 -0
  30. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/distribution/weibull.py +0 -0
  31. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/event_correlator.py +0 -0
  32. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/flow_cell.py +0 -0
  33. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/helper.py +0 -0
  34. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/logger.py +0 -0
  35. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/noises.py +0 -0
  36. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/particle_count.py +0 -0
  37. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/peak_locator/__init__.py +0 -0
  38. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/peak_locator/base_class.py +0 -0
  39. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/peak_locator/basic.py +0 -0
  40. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/peak_locator/derivative.py +0 -0
  41. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/peak_locator/moving_average.py +0 -0
  42. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/physical_constant.py +0 -0
  43. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/population.py +0 -0
  44. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/populations_instances.py +0 -0
  45. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/scatterer_collection.py +0 -0
  46. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/source.py +0 -0
  47. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/units.py +0 -0
  48. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/utils.py +0 -0
  49. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/SOURCES.txt +0 -0
  50. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/dependency_links.txt +0 -0
  51. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/requires.txt +0 -0
  52. {flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/top_level.txt +0 -0
  53. {flowcypy-0.5.13 → flowcypy-0.5.15}/LICENSE +0 -0
  54. {flowcypy-0.5.13 → flowcypy-0.5.15}/README.rst +0 -0
  55. {flowcypy-0.5.13 → flowcypy-0.5.15}/Untitled.ipynb +0 -0
  56. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/doc/internship.pdf +0 -0
  57. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/concentration_comparison.py +0 -0
  58. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/create_images.py +0 -0
  59. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/data_analysis.py +0 -0
  60. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_beads_analysis.py +0 -0
  61. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_canto.py +0 -0
  62. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_classifier.py +0 -0
  63. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_shot_noise_check.py +0 -0
  64. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_study_on_ri.py +0 -0
  65. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_study_on_size.py +0 -0
  66. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/dev_temp.py +0 -0
  67. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/mat2csv.py +0 -0
  68. {flowcypy-0.5.13 → flowcypy-0.5.15}/developments/scripts/profiler.py +0 -0
  69. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/Makefile +0 -0
  70. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/density_plots/1_populations.py +0 -0
  71. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/density_plots/2_populations.py +0 -0
  72. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/density_plots/3_populations.py +0 -0
  73. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/density_plots/README.rst +0 -0
  74. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/density_plots/custom_populations.py +0 -0
  75. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/README.rst +0 -0
  76. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/distributions.py +0 -0
  77. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/full_workflow.py +0 -0
  78. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/scatterer_distribution.py +0 -0
  79. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/noise_sources/README.rst +0 -0
  80. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/noise_sources/dark_current.py +0 -0
  81. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/noise_sources/shot_noise.py +0 -0
  82. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/noise_sources/thermal.py +0 -0
  83. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/tutorials/README.rst +0 -0
  84. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/tutorials/limit_of_detection.py +0 -0
  85. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/Delta.png +0 -0
  86. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/LogNormal.png +0 -0
  87. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/Normal.png +0 -0
  88. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/RosinRammler.png +0 -0
  89. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/Uniform.png +0 -0
  90. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/distributions/Weibull.png +0 -0
  91. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/example_0.png +0 -0
  92. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/example_1.png +0 -0
  93. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/example_2.png +0 -0
  94. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/example_3.png +0 -0
  95. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/flow_cytometer.png +0 -0
  96. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/images/logo.png +0 -0
  97. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/make.bat +0 -0
  98. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/_static/default.css +0 -0
  99. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/_static/logo.png +0 -0
  100. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/_static/thumbnail.png +0 -0
  101. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/analysis.rst +0 -0
  102. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/base.rst +0 -0
  103. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/detector.rst +0 -0
  104. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/distributions.rst +0 -0
  105. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/flow_cell.rst +0 -0
  106. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/flow_cytometer.rst +0 -0
  107. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/peak_locator.rst +0 -0
  108. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/scatterer.rst +0 -0
  109. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code/source.rst +0 -0
  110. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/code.rst +0 -0
  111. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/conf.py +0 -0
  112. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/examples.rst +0 -0
  113. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/index.rst +0 -0
  114. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/core_components.rst +0 -0
  115. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/getting_started.rst +0 -0
  116. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/objectives/main.rst +0 -0
  117. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/objectives/pre.rst +0 -0
  118. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/objectives/stretch.rst +0 -0
  119. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/prerequisites/index.rst +0 -0
  120. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/prerequisites/mathematics.rst +0 -0
  121. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/prerequisites/optics.rst +0 -0
  122. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/prerequisites/programming.rst +0 -0
  123. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/ressources.rst +0 -0
  124. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal/tasks.rst +0 -0
  125. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/internal.rst +0 -0
  126. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/references.rst +0 -0
  127. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/sg_execution_times.rst +0 -0
  128. {flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/theory.rst +0 -0
  129. {flowcypy-0.5.13 → flowcypy-0.5.15}/meta.yaml +0 -0
  130. {flowcypy-0.5.13 → flowcypy-0.5.15}/notebook.ipynb +0 -0
  131. {flowcypy-0.5.13 → flowcypy-0.5.15}/pyproject.toml +0 -0
  132. {flowcypy-0.5.13 → flowcypy-0.5.15}/setup.cfg +0 -0
  133. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/__init__.py +0 -0
  134. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_coupling_mechanism.py +0 -0
  135. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_detector_noise.py +0 -0
  136. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_distribution.py +0 -0
  137. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_extra.py +0 -0
  138. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_flow_cytometer.py +0 -0
  139. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_noises.py +0 -0
  140. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_peak_algorithm.py +0 -0
  141. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_peak_analyzer.py +0 -0
  142. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_population.py +0 -0
  143. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_scatterer_distribution.py +0 -0
  144. {flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_source.py +0 -0
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/_version.py RENAMED
@@ -12,5 +12,5 @@ __version__: str
12
12
  __version_tuple__: VERSION_TUPLE
13
13
  version_tuple: VERSION_TUPLE
14
14
 
15
- __version__ = version = '0.5.13'
16
- __version_tuple__ = version_tuple = (0, 5, 13)
15
+ __version__ = version = '0.5.15'
16
+ __version_tuple__ = version_tuple = (0, 5, 15)
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: FlowCyPy
3
- Version: 0.5.13
3
+ Version: 0.5.15
4
4
  Summary: A package for flow-cytometry simulations.
5
5
  Author-email: Martin Poinsinet de Sivry-Houle <martin.poinsinet.de.sivry@gmail.com>
6
6
  License: MIT License
{flowcypy-0.5.13 → flowcypy-0.5.15}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: FlowCyPy
3
- Version: 0.5.13
3
+ Version: 0.5.15
4
4
  Summary: A package for flow-cytometry simulations.
5
5
  Author-email: Martin Poinsinet de Sivry-Houle <martin.poinsinet.de.sivry@gmail.com>
6
6
  License: MIT License
{flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/extras/flow_cytometer_signal.py RENAMED
@@ -116,7 +116,7 @@ cytometer._log_statistics()
116
116
  # Step 9: Visualize the generated signals
117
117
  # ---------------------------------------
118
118
  # Plot the simulated signals for both FSC and SSC detectors.
119
- cytometer.plot()
119
+ cytometer.plot.signals()
120
120
 
121
121
  # %%
122
122
  #
{flowcypy-0.5.13 → flowcypy-0.5.15}/docs/examples/tutorials/workflow.py RENAMED
@@ -36,7 +36,7 @@ from FlowCyPy import NoiseSetting
36
36
  NoiseSetting.include_noises = True
37
37
  NoiseSetting.include_shot_noise = False
38
38
  NoiseSetting.include_thermal_noise = False
39
- NoiseSetting.include_dark_current = False
39
+ NoiseSetting.include_dark_current_noise = False
40
40
 
41
41
  np.random.seed(3) # Ensure reproducibility
42
42
 
{flowcypy-0.5.13 → flowcypy-0.5.15}/.flake8 RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/.gitignore RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/helper.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/logger.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/noises.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/source.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/units.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/FlowCyPy/utils.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/LICENSE RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/README.rst RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/Untitled.ipynb RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/docs/Makefile RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/docs/make.bat RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/docs/source/conf.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/meta.yaml RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/notebook.ipynb RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/pyproject.toml RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/setup.cfg RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/tests/__init__.py RENAMED
File without changes
{flowcypy-0.5.13 → flowcypy-0.5.15}/tests/test_extra.py RENAMED
File without changes