easydiffraction 0.17.0__tar.gz → 0.19.0__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 (1851) hide show
  1. easydiffraction-0.19.0/.codecov.yml +35 -0
  2. easydiffraction-0.19.0/.codefactorignore +15 -0
  3. easydiffraction-0.19.0/.copier-answers.yml +26 -0
  4. easydiffraction-0.19.0/.github/workflows/coverage.yml +57 -0
  5. easydiffraction-0.19.0/.github/workflows/docs.yml +201 -0
  6. easydiffraction-0.19.0/.github/workflows/lint-format.yml +164 -0
  7. easydiffraction-0.19.0/.github/workflows/nightly-test.yml +71 -0
  8. easydiffraction-0.19.0/.github/workflows/pypi-test.yml +88 -0
  9. easydiffraction-0.19.0/.github/workflows/test.yml +340 -0
  10. easydiffraction-0.19.0/.github/workflows/tutorial-tests.yml +68 -0
  11. easydiffraction-0.19.0/.gitignore +67 -0
  12. easydiffraction-0.19.0/.pre-commit-config.yaml +82 -0
  13. easydiffraction-0.19.0/.prettierignore +45 -0
  14. easydiffraction-0.19.0/PKG-INFO +139 -0
  15. easydiffraction-0.19.0/THIRD_PARTY_LICENSES.md +25 -0
  16. easydiffraction-0.19.0/docs/dev/adrs/accepted/analysis-cif-fit-state.md +286 -0
  17. easydiffraction-0.19.0/docs/dev/adrs/accepted/background-auto-estimate.md +545 -0
  18. easydiffraction-0.19.0/docs/dev/adrs/accepted/bayesian-resume-and-mcmc-sidecar.md +201 -0
  19. easydiffraction-0.19.0/docs/dev/adrs/accepted/calculation-without-measured-data.md +186 -0
  20. easydiffraction-0.19.0/docs/dev/adrs/accepted/category-owner-sections.md +215 -0
  21. easydiffraction-0.19.0/docs/dev/adrs/accepted/crysview-structure-visualization/crysview-threejs-demo.html +855 -0
  22. easydiffraction-0.19.0/docs/dev/adrs/accepted/crysview-structure-visualization.md +742 -0
  23. easydiffraction-0.19.0/docs/dev/adrs/accepted/data-source-pinning.md +206 -0
  24. easydiffraction-0.19.0/docs/dev/adrs/accepted/dataset-driven-fit-modes.md +321 -0
  25. easydiffraction-0.19.0/docs/dev/adrs/accepted/development-docs-structure.md +71 -0
  26. easydiffraction-0.19.0/docs/dev/adrs/accepted/display-ux.md +192 -0
  27. easydiffraction-0.19.0/docs/dev/adrs/accepted/documentation-ci-build.md +206 -0
  28. easydiffraction-0.19.0/docs/dev/adrs/accepted/edstar-project-persistence/handler-inventory.json +13688 -0
  29. easydiffraction-0.19.0/docs/dev/adrs/accepted/edstar-project-persistence.md +1337 -0
  30. easydiffraction-0.19.0/docs/dev/adrs/accepted/fit-mode-categories.md +803 -0
  31. easydiffraction-0.19.0/docs/dev/adrs/accepted/fit-results-display-naming.md +336 -0
  32. easydiffraction-0.19.0/docs/dev/adrs/accepted/help-discoverability.md +65 -0
  33. easydiffraction-0.19.0/docs/dev/adrs/accepted/iucr-cif-tag-alignment.md +1169 -0
  34. easydiffraction-0.19.0/docs/dev/adrs/accepted/lint-rule-exceptions.md +79 -0
  35. easydiffraction-0.19.0/docs/dev/adrs/accepted/loop-category-key-identity.md +163 -0
  36. easydiffraction-0.19.0/docs/dev/adrs/accepted/minimizer-category-consolidation.md +505 -0
  37. easydiffraction-0.19.0/docs/dev/adrs/accepted/minimizer-input-output-split.md +433 -0
  38. easydiffraction-0.19.0/docs/dev/adrs/accepted/model-sample-absorption.md +452 -0
  39. easydiffraction-0.19.0/docs/dev/adrs/accepted/parameter-correlation-persistence.md +104 -0
  40. easydiffraction-0.19.0/docs/dev/adrs/accepted/parameter-posterior-summary.md +345 -0
  41. easydiffraction-0.19.0/docs/dev/adrs/accepted/pattern-display-unification.md +92 -0
  42. easydiffraction-0.19.0/docs/dev/adrs/accepted/peak-profile-cutoff.md +164 -0
  43. easydiffraction-0.19.0/docs/dev/adrs/accepted/plotting-docs-performance.md +466 -0
  44. easydiffraction-0.19.0/docs/dev/adrs/accepted/post-calculation-corrections-package.md +95 -0
  45. easydiffraction-0.19.0/docs/dev/adrs/accepted/preferred-orientation-category.md +575 -0
  46. easydiffraction-0.19.0/docs/dev/adrs/accepted/project-facade-and-persistence.md +111 -0
  47. easydiffraction-0.19.0/docs/dev/adrs/accepted/project-summary-rendering.md +2162 -0
  48. easydiffraction-0.19.0/docs/dev/adrs/accepted/python-cif-category-correspondence.md +388 -0
  49. easydiffraction-0.19.0/docs/dev/adrs/accepted/resource-naming.md +305 -0
  50. easydiffraction-0.19.0/docs/dev/adrs/accepted/runtime-fit-results.md +43 -0
  51. easydiffraction-0.19.0/docs/dev/adrs/accepted/selector-families.md +57 -0
  52. easydiffraction-0.19.0/docs/dev/adrs/accepted/space-group-database/space_groups_overrides.yaml +11 -0
  53. easydiffraction-0.19.0/docs/dev/adrs/accepted/space-group-database.md +576 -0
  54. easydiffraction-0.19.0/docs/dev/adrs/accepted/switchable-category-api.md +65 -0
  55. easydiffraction-0.19.0/docs/dev/adrs/accepted/switchable-category-owned-selectors.md +1056 -0
  56. easydiffraction-0.19.0/docs/dev/adrs/accepted/test-strategy.md +50 -0
  57. easydiffraction-0.19.0/docs/dev/adrs/accepted/test-suite-and-validation.md +473 -0
  58. easydiffraction-0.19.0/docs/dev/adrs/accepted/type-neutral-adp-parameters.md +85 -0
  59. easydiffraction-0.19.0/docs/dev/adrs/accepted/undo-fit.md +320 -0
  60. easydiffraction-0.19.0/docs/dev/adrs/accepted/upstream-capability-request-evidence.md +254 -0
  61. easydiffraction-0.19.0/docs/dev/adrs/accepted/value-selector-discovery.md +222 -0
  62. easydiffraction-0.19.0/docs/dev/adrs/accepted/verification-example-lifecycle.md +334 -0
  63. easydiffraction-0.19.0/docs/dev/adrs/accepted/verification-regression-flag.md +228 -0
  64. easydiffraction-0.19.0/docs/dev/adrs/accepted/verification-software-version-labels.md +272 -0
  65. easydiffraction-0.19.0/docs/dev/adrs/accepted/wyckoff-letter-detection.md +743 -0
  66. easydiffraction-0.19.0/docs/dev/adrs/accepted/xray-cw-polarization-optics.md +449 -0
  67. easydiffraction-0.19.0/docs/dev/adrs/index.md +80 -0
  68. easydiffraction-0.19.0/docs/dev/adrs/suggestions/cif-numeric-precision.md +129 -0
  69. easydiffraction-0.19.0/docs/dev/adrs/suggestions/fit-output-files-and-data-exports.md +171 -0
  70. easydiffraction-0.19.0/docs/dev/adrs/suggestions/in-house-calculation-engine.md +221 -0
  71. easydiffraction-0.19.0/docs/dev/adrs/suggestions/lazy-pattern-recalculation.md +106 -0
  72. easydiffraction-0.19.0/docs/dev/benchmarking/20260519-103251_darwin-arm64_py314_tutorial-benchmarks.csv +24 -0
  73. easydiffraction-0.19.0/docs/dev/benchmarking/20260519-103500_darwin-arm64_py314_tutorial-benchmarks.csv +24 -0
  74. easydiffraction-0.19.0/docs/dev/benchmarking/20260519-121524_darwin-arm64_py314_tutorial-benchmarks.csv +24 -0
  75. easydiffraction-0.19.0/docs/dev/benchmarking/20260525-231754_darwin-arm64_py314_tutorial-benchmarks.csv +26 -0
  76. easydiffraction-0.19.0/docs/dev/benchmarking/20260526-000646_darwin-arm64_py314_tutorial-benchmarks.csv +26 -0
  77. easydiffraction-0.19.0/docs/dev/benchmarking/20260531-230149_darwin-arm64_py314_tutorial-benchmarks.csv +26 -0
  78. easydiffraction-0.19.0/docs/dev/benchmarking/20260611-234054_linux-x86_64_py314_tutorial-benchmarks.csv +29 -0
  79. easydiffraction-0.19.0/docs/dev/benchmarking/20260614-210908_linux-x86_64_py314_tutorial-benchmarks.csv +29 -0
  80. easydiffraction-0.19.0/docs/dev/crysfml-python-api-feature-requests.md +398 -0
  81. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/cfl_common.py +213 -0
  82. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_absorption.pcr +79 -0
  83. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_control_beta.pcr +86 -0
  84. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_doublet.pcr +79 -0
  85. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_isotropic_adp.pcr +79 -0
  86. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_polarization.pcr +79 -0
  87. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_preferred_orientation.pcr +79 -0
  88. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_sycos_sysin.pcr +79 -0
  89. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/fullprof/y2o3_xray_single.pcr +79 -0
  90. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_01_preferred_orientation.py +156 -0
  91. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_02_absorption.py +155 -0
  92. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_03_polarization.py +173 -0
  93. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_04_sycos_sysin.py +148 -0
  94. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_05_single_crystal_extinction.py +110 -0
  95. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_06_in_memory_structure_factors.py +110 -0
  96. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_07_beta_adps.py +155 -0
  97. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_08_tof_patterns_simulation.py +110 -0
  98. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_09_tof_profile_selection.py +110 -0
  99. easydiffraction-0.19.0/docs/dev/crysfml-python-api-requests/request_10_cw_doublet_dict_api.py +152 -0
  100. easydiffraction-0.19.0/docs/dev/index.md +30 -0
  101. easydiffraction-0.19.0/docs/dev/issues/closed/access-space-group-from-atomsites-for-wyckoff-letters.md +8 -0
  102. easydiffraction-0.19.0/docs/dev/issues/closed/add-help-methods-to-public-discovery-facades.md +10 -0
  103. easydiffraction-0.19.0/docs/dev/issues/closed/add-sequential-to-fitmodeenum-and-show-methods-to-analysis.md +20 -0
  104. easydiffraction-0.19.0/docs/dev/issues/closed/add-serial-pattern-generation-benchmarks.md +8 -0
  105. easydiffraction-0.19.0/docs/dev/issues/closed/add-single-crystal-tof-fit-verification-example.md +18 -0
  106. easydiffraction-0.19.0/docs/dev/issues/closed/avoid-rebuilding-included-point-mask-every-fit-iteration.md +41 -0
  107. easydiffraction-0.19.0/docs/dev/issues/closed/cache-wyckoff-orbit-templates-to-speed-up-refinement.md +35 -0
  108. easydiffraction-0.19.0/docs/dev/issues/closed/cli-fit-command-never-saves-results-to-disk.md +10 -0
  109. easydiffraction-0.19.0/docs/dev/issues/closed/collapse-duplicate-predictive-cache-key-helpers.md +6 -0
  110. easydiffraction-0.19.0/docs/dev/issues/closed/consistent-type-suffix-in-switchable-category-api-names.md +129 -0
  111. easydiffraction-0.19.0/docs/dev/issues/closed/fix-summary-display-inconsistencies.md +6 -0
  112. easydiffraction-0.19.0/docs/dev/issues/closed/make-ascii-plot-width-configurable.md +6 -0
  113. easydiffraction-0.19.0/docs/dev/issues/closed/make-sync-engine-from-minimizer-category-skip-keys-declarative.md +5 -0
  114. easydiffraction-0.19.0/docs/dev/issues/closed/move-as-cif-show-as-cif-from-projectinfo-to-io-cif-serialize.md +6 -0
  115. easydiffraction-0.19.0/docs/dev/issues/closed/process-default-values-on-experiment-creation.md +8 -0
  116. easydiffraction-0.19.0/docs/dev/issues/closed/rebuild-joint-fit-weights-on-every-fit.md +10 -0
  117. easydiffraction-0.19.0/docs/dev/issues/closed/reconcile-git-ignored-agents-md-claude-md-with-their-checked-in-role.md +15 -0
  118. easydiffraction-0.19.0/docs/dev/issues/closed/remove-dead-branch-in-fit-state-categories.md +5 -0
  119. easydiffraction-0.19.0/docs/dev/issues/closed/remove-orphaned-fit-result-reset-helper.md +7 -0
  120. easydiffraction-0.19.0/docs/dev/issues/closed/retain-per-experiment-fitted-parameters-for-plotting.md +27 -0
  121. easydiffraction-0.19.0/docs/dev/issues/closed/serialise-none-as-in-cif-output.md +7 -0
  122. easydiffraction-0.19.0/docs/dev/issues/closed/validate-joint-fit-weights-before-residual-normalisation.md +37 -0
  123. easydiffraction-0.19.0/docs/dev/issues/closed/warn-on-all-switchable-category-type-changes.md +7 -0
  124. easydiffraction-0.19.0/docs/dev/issues/index.md +200 -0
  125. easydiffraction-0.19.0/docs/dev/issues/open/high_add-a-static-type-checker-to-the-quality-gate.md +33 -0
  126. easydiffraction-0.19.0/docs/dev/issues/open/high_add-explicit-create-signatures-on-collections.md +20 -0
  127. easydiffraction-0.19.0/docs/dev/issues/open/high_clarify-logger-default-reaction-mode.md +17 -0
  128. easydiffraction-0.19.0/docs/dev/issues/open/high_crysfml-undercounts-lattice-centering-in-intensity.md +60 -0
  129. easydiffraction-0.19.0/docs/dev/issues/open/high_decide-error-handling-strategy-log-error-vs-raise.md +16 -0
  130. easydiffraction-0.19.0/docs/dev/issues/open/high_estimate-neutron-absorption-with-ncrystal.md +78 -0
  131. easydiffraction-0.19.0/docs/dev/issues/open/high_rename-asym-empir-and-add-the-physical-fcj-asymmetry-model.md +54 -0
  132. easydiffraction-0.19.0/docs/dev/issues/open/highest_add-crysfml-wdt-parameter-to-peak-shapes.md +32 -0
  133. easydiffraction-0.19.0/docs/dev/issues/open/highest_calculate-structure-factors-contract-disagrees-across-backends-and-caller.md +35 -0
  134. easydiffraction-0.19.0/docs/dev/issues/open/highest_cryspy-diverges-on-tof-jorgensen-von-dreele-lorentzian.md +30 -0
  135. easydiffraction-0.19.0/docs/dev/issues/open/highest_decide-x-ray-anomalous-scattering-table-source.md +143 -0
  136. easydiffraction-0.19.0/docs/dev/issues/open/highest_document-crysfml-x-ray-polarization-is-easydiffraction-custom.md +47 -0
  137. easydiffraction-0.19.0/docs/dev/issues/open/highest_investigate-ed-crysfml-tof-jorgensen-profile-discrepancy.md +25 -0
  138. easydiffraction-0.19.0/docs/dev/issues/open/highest_model-sample-absorption-debye-scherrer-r.md +86 -0
  139. easydiffraction-0.19.0/docs/dev/issues/open/highest_unify-uncertainty-floor-handling-across-bragg-pd-single-crystal-and-pdf-data.md +47 -0
  140. easydiffraction-0.19.0/docs/dev/issues/open/highest_unknown-switchable-category-type-on-cif-restore-silently-drops-parameters.md +38 -0
  141. easydiffraction-0.19.0/docs/dev/issues/open/low_add-boundary-tests-for-verification-py-fullprof-igor-parsers.md +22 -0
  142. easydiffraction-0.19.0/docs/dev/issues/open/low_add-cif-name-validation-or-normalisation-in-parse.md +14 -0
  143. easydiffraction-0.19.0/docs/dev/issues/open/low_add-debug-mode-logging-for-calculator-imports.md +20 -0
  144. easydiffraction-0.19.0/docs/dev/issues/open/low_add-from-future-annotations-to-all-modules.md +29 -0
  145. easydiffraction-0.19.0/docs/dev/issues/open/low_add-future-enum-extensions.md +23 -0
  146. easydiffraction-0.19.0/docs/dev/issues/open/low_add-point-id-to-excluded-regions.md +14 -0
  147. easydiffraction-0.19.0/docs/dev/issues/open/low_add-public-api-to-clear-a-project-path-cli-fit-dry.md +20 -0
  148. easydiffraction-0.19.0/docs/dev/issues/open/low_add-show-supported-calculators-on-analysis-or-project.md +12 -0
  149. easydiffraction-0.19.0/docs/dev/issues/open/low_add-test-coverage-for-list-tutorials-two-line-rendering.md +19 -0
  150. easydiffraction-0.19.0/docs/dev/issues/open/low_align-dir-with-help-filtering.md +13 -0
  151. easydiffraction-0.19.0/docs/dev/issues/open/low_auto-extract-peakprofiletypeenum-from-peak-classes.md +18 -0
  152. easydiffraction-0.19.0/docs/dev/issues/open/low_auto-resolve-plot-param-x-axis-descriptor-and-add-units.md +13 -0
  153. easydiffraction-0.19.0/docs/dev/issues/open/low_automate-space-group-cif-name-variants.md +15 -0
  154. easydiffraction-0.19.0/docs/dev/issues/open/low_check-cryspy-single-crystal-instrument-mapping.md +14 -0
  155. easydiffraction-0.19.0/docs/dev/issues/open/low_check-whether-mark-dirty-in-set-value-is-actually-used.md +14 -0
  156. easydiffraction-0.19.0/docs/dev/issues/open/low_check-whether-not-used-if-loading-from-cif-code-is-needed.md +14 -0
  157. easydiffraction-0.19.0/docs/dev/issues/open/low_clarify-bragg-pd-data-collection-description.md +15 -0
  158. easydiffraction-0.19.0/docs/dev/issues/open/low_clarify-cell-update-usage-of-called-by-minimizer.md +20 -0
  159. easydiffraction-0.19.0/docs/dev/issues/open/low_clarify-dtype-usage-in-data-point-arrays.md +26 -0
  160. easydiffraction-0.19.0/docs/dev/issues/open/low_clean-up-cif-deserialisation-helpers.md +21 -0
  161. easydiffraction-0.19.0/docs/dev/issues/open/low_complete-migration-from-render-table-to-tablerenderer.md +14 -0
  162. easydiffraction-0.19.0/docs/dev/issues/open/low_consider-a-common-enumbase-with-default-description.md +15 -0
  163. easydiffraction-0.19.0/docs/dev/issues/open/low_create-update-priority-reference-table-for-categories.md +11 -0
  164. easydiffraction-0.19.0/docs/dev/issues/open/low_cryspy-backend-hardcodes-flag-only-nuclear-no-magnetic-structures.md +21 -0
  165. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-default-for-alias-constraint-descriptors.md +15 -0
  166. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-future-of-show-residual-in-plot-meas-vs-calc.md +19 -0
  167. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-how-mid-run-sequential-failures-persist.md +13 -0
  168. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-whether-cli-should-override-extract-rules.md +14 -0
  169. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-whether-sequential-extraction-should-be-cached.md +13 -0
  170. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-whether-single-fit-needs-a-future-category.md +15 -0
  171. easydiffraction-0.19.0/docs/dev/issues/open/low_decide-whether-to-apply-typechecked-to-all-public-methods.md +12 -0
  172. easydiffraction-0.19.0/docs/dev/issues/open/low_document-category-update-contract.md +20 -0
  173. easydiffraction-0.19.0/docs/dev/issues/open/low_document-fitresultbase-result-kind-default-rationale.md +22 -0
  174. easydiffraction-0.19.0/docs/dev/issues/open/low_document-param-docstring-fix-and-notebook-prepare-workflow.md +16 -0
  175. easydiffraction-0.19.0/docs/dev/issues/open/low_draw-adp-ellipsoids-for-beta-tensor-atoms.md +16 -0
  176. easydiffraction-0.19.0/docs/dev/issues/open/low_drop-compute-and-ignore-result-kind-validation-in-cif-restore.md +20 -0
  177. easydiffraction-0.19.0/docs/dev/issues/open/low_expand-cross-engine-verification-coverage.md +16 -0
  178. easydiffraction-0.19.0/docs/dev/issues/open/low_external-link-checking-in-the-docs-gate.md +16 -0
  179. easydiffraction-0.19.0/docs/dev/issues/open/low_finer-grained-parameter-change-tracking.md +14 -0
  180. easydiffraction-0.19.0/docs/dev/issues/open/low_fix-calculator-calculate-pattern-signature-type.md +14 -0
  181. easydiffraction-0.19.0/docs/dev/issues/open/low_fix-cryspy-tof-instrument-default.md +14 -0
  182. easydiffraction-0.19.0/docs/dev/issues/open/low_fix-gitignore-pyc-and-benchmark-gaps.md +22 -0
  183. easydiffraction-0.19.0/docs/dev/issues/open/low_fix-jupyter-scroll-disabling-for-mkdocs.md +14 -0
  184. easydiffraction-0.19.0/docs/dev/issues/open/low_fix-reversed-abstract-sync-result-to-parameters-signature.md +21 -0
  185. easydiffraction-0.19.0/docs/dev/issues/open/low_handle-zero-uncertainty-in-bragg-pd-data.md +19 -0
  186. easydiffraction-0.19.0/docs/dev/issues/open/low_help-mislabels-boolean-descriptors-as-numeric.md +20 -0
  187. easydiffraction-0.19.0/docs/dev/issues/open/low_improve-error-handling-in-crystallography-utilities.md +24 -0
  188. easydiffraction-0.19.0/docs/dev/issues/open/low_improve-jointfititem-descriptions.md +16 -0
  189. easydiffraction-0.19.0/docs/dev/issues/open/low_improve-update-priority-handling-in-categories.md +20 -0
  190. easydiffraction-0.19.0/docs/dev/issues/open/low_investigate-pycrysfml-pattern-length-discrepancy.md +16 -0
  191. easydiffraction-0.19.0/docs/dev/issues/open/low_let-more-tables-adapt-to-terminal-width.md +23 -0
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  1795. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/src/easydiffraction/utils/_vendored/jupyter_dark_detect/detector.py +0 -0
  1796. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/functional/conftest.py +0 -0
  1797. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/integration/scipp-analysis/dream/test_read_reduced_data.py +0 -0
  1798. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/integration/scipp-analysis/dream/test_validate_meta_data.py +0 -0
  1799. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/integration/scipp-analysis/dream/test_validate_physical_data.py +0 -0
  1800. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/calculators/test_base.py +0 -0
  1801. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/calculators/test_factory.py +0 -0
  1802. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/sequential_fit/test_factory.py +0 -0
  1803. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/sequential_fit_extract/test_default.py +0 -0
  1804. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/sequential_fit_extract/test_factory.py +0 -0
  1805. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/test_constraints.py +0 -0
  1806. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/test_fit_parameter_correlations.py +0 -0
  1807. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/categories/test_joint_fit_experiments.py +0 -0
  1808. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/fit_helpers/test_metrics.py +0 -0
  1809. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_bumps_amoeba.py +0 -0
  1810. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_bumps_de.py +0 -0
  1811. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_bumps_lm.py +0 -0
  1812. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_dfols.py +0 -0
  1813. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_enums.py +0 -0
  1814. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_factory.py +0 -0
  1815. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_lmfit_least_squares.py +0 -0
  1816. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/minimizers/test_lmfit_leastsq.py +0 -0
  1817. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/analysis/test_analysis_show_empty.py +0 -0
  1818. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/core/test_diagnostic.py +0 -0
  1819. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/core/test_identity.py +0 -0
  1820. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/core/test_singletons.py +0 -0
  1821. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/core/test_validation.py +0 -0
  1822. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/background/test_enums.py +0 -0
  1823. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/background/test_factory.py +0 -0
  1824. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/data/test_factory.py +0 -0
  1825. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/instrument/test_base.py +0 -0
  1826. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/peak/test_total.py +0 -0
  1827. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/peak/test_total_mixins.py +0 -0
  1828. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/test_diffrn.py +0 -0
  1829. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/categories/test_experiment_type.py +0 -0
  1830. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/experiment/item/test_enums.py +0 -0
  1831. {easydiffraction-0.17.0/src/easydiffraction/crystallography → easydiffraction-0.19.0/tests/unit/easydiffraction/datablocks/structure/categories}/__init__.py +0 -0
  1832. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/structure/categories/test_cell.py +0 -0
  1833. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/structure/item/test_base.py +0 -0
  1834. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/structure/item/test_factory.py +0 -0
  1835. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/datablocks/structure/test_collection.py +0 -0
  1836. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/display/plotters/test_base.py +0 -0
  1837. {easydiffraction-0.17.0/src/easydiffraction/datablocks → easydiffraction-0.19.0/tests/unit/easydiffraction/display/tablers}/__init__.py +0 -0
  1838. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/display/test_base.py +0 -0
  1839. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/display/test_progress.py +0 -0
  1840. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/display/test_tables.py +0 -0
  1841. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/display/test_utils.py +0 -0
  1842. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/project/categories/verbosity/test_default.py +0 -0
  1843. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/project/categories/verbosity/test_factory.py +0 -0
  1844. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/utils/test_enums.py +0 -0
  1845. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tests/unit/easydiffraction/utils/test_logging.py +0 -0
  1846. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/gen_tests_scaffold.py +0 -0
  1847. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/license_headers.py +0 -0
  1848. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/naming_check.py +0 -0
  1849. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/param_consistency.py +0 -0
  1850. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/update_docs_assets.py +0 -0
  1851. {easydiffraction-0.17.0 → easydiffraction-0.19.0}/tools/update_github_labels.py +0 -0
@@ -0,0 +1,35 @@
1
+ # Codecov configuration
2
+ # https://docs.codecov.com/docs/codecov-yaml
3
+
4
+ github_checks:
5
+ annotations: true
6
+
7
+ ignore:
8
+ - 'src/easydiffraction/report/templates/html/vendor/**'
9
+ - 'src/easydiffraction/report/templates/tex/styles/**'
10
+ - 'src/easydiffraction/utils/_vendored/jupyter_dark_detect/**'
11
+
12
+ comment:
13
+ layout: 'reach, diff, flags, files'
14
+ behavior: default
15
+ require_changes: false
16
+ require_base: false
17
+ require_head: true
18
+
19
+ coverage:
20
+ status:
21
+ project:
22
+ default:
23
+ target: 80%
24
+ threshold: 1%
25
+ # Project coverage is the real gate (see ADR
26
+ # test-suite-and-validation).
27
+ informational: false
28
+ patch:
29
+ default:
30
+ target: auto
31
+ threshold: 1%
32
+ # Non-blocking: patch grades diff lines against unit-only
33
+ # coverage, so engine/integration-tested code would otherwise
34
+ # always fail. See ADR test-suite-and-validation.
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+ informational: true
@@ -0,0 +1,15 @@
1
+ # CodeFactor exclude patterns configuration must be done online:
2
+ # https://www.codefactor.io/repository/github/easyscience/diffraction-lib/ignore
3
+ #
4
+ # Last updated: 2026-05-29
5
+ #
6
+ # Exclude patterns:
7
+ # deps/**
8
+ # docs/**
9
+ # src/easydiffraction/report/templates/html/vendor/**
10
+ # src/easydiffraction/report/templates/tex/styles/**
11
+ # src/easydiffraction/utils/_vendored/jupyter_dark_detect/**
12
+ # tests/**
13
+ # tmp/**
14
+ # tools/**
15
+ # tutorials/**
@@ -0,0 +1,26 @@
1
+ # WARNING: Do not edit this file manually.
2
+ # Any changes will be overwritten by Copier.
3
+ _commit: v0.12.0
4
+ _src_path: gh:easyscience/templates
5
+ app_docs_url: https://easyscience.github.io/diffraction-app
6
+ app_doi: 10.5281/zenodo.18163581
7
+ app_package_name: easydiffraction_app
8
+ app_python: '3.14'
9
+ app_repo_name: diffraction-app
10
+ home_page_url: https://easyscience.github.io/diffraction
11
+ home_repo_name: diffraction
12
+ lib_docs_url: https://easyscience.github.io/diffraction-lib
13
+ lib_doi: 10.5281/zenodo.18163581
14
+ lib_package_name: easydiffraction
15
+ lib_python_max: '3.14'
16
+ lib_python_min: '3.12'
17
+ lib_repo_name: diffraction-lib
18
+ project_contact_email: support@easydiffraction.org
19
+ project_copyright_years: 2021-2026
20
+ project_extended_description: A software for calculating diffraction patterns based
21
+ on a structural model and refining its parameters against experimental data
22
+ project_name: EasyDiffraction
23
+ project_short_description: Diffraction data analysis
24
+ project_shortcut: ED
25
+ project_type: both
26
+ template_type: lib
@@ -0,0 +1,57 @@
1
+ name: Coverage checks
2
+
3
+ on:
4
+ # Trigger the workflow on push to develop
5
+ push:
6
+ branches:
7
+ - develop
8
+ # Trigger the workflow on pull request
9
+ pull_request:
10
+ # Allows you to run this workflow manually from the Actions tab
11
+ workflow_dispatch:
12
+
13
+ # Need permissions to trigger the dashboard build workflow
14
+ permissions:
15
+ actions: write
16
+ contents: read
17
+
18
+ # Allow only one concurrent workflow per PR or branch ref.
19
+ # Cancel in-progress runs only for pull requests, but let branch push runs finish.
20
+ concurrency:
21
+ group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
22
+ cancel-in-progress: ${{ github.event_name == 'pull_request' }}
23
+
24
+ # Set the environment variables to be used in all jobs defined in this workflow
25
+ env:
26
+ CI_BRANCH: ${{ github.head_ref || github.ref_name }}
27
+
28
+ jobs:
29
+ # Job 1: Run unit tests with coverage and upload to Codecov.
30
+ # Docstring coverage is gated as a static check in lint-format.yml.
31
+ unit-tests-coverage:
32
+ runs-on: ubuntu-latest
33
+
34
+ steps:
35
+ - name: Check-out repository
36
+ uses: actions/checkout@v6
37
+
38
+ - name: Set up pixi
39
+ uses: ./.github/actions/setup-pixi
40
+
41
+ - name: Run unit tests with coverage
42
+ run: pixi run unit-tests-coverage --cov-report=xml:coverage-unit.xml
43
+
44
+ - name: Upload unit tests coverage to Codecov
45
+ if: ${{ !cancelled() }}
46
+ uses: ./.github/actions/upload-codecov
47
+ with:
48
+ name: unit-tests-job
49
+ flags: unittests
50
+ files: ./coverage-unit.xml
51
+ token: ${{ secrets.CODECOV_TOKEN }}
52
+
53
+ # Job 4: Build and publish dashboard (reusable workflow)
54
+ run-reusable-workflows:
55
+ needs: [unit-tests-coverage] # depend on the previous job
56
+ uses: ./.github/workflows/dashboard.yml
57
+ secrets: inherit
@@ -0,0 +1,201 @@
1
+ # This workflow builds and deploys documentation for the project.
2
+ #
3
+ # Overview:
4
+ # - Converts tutorial Python scripts to Jupyter notebooks and executes them.
5
+ # - Builds the documentation site using MkDocs with the Material theme.
6
+ # - Uploads the built site as an artifact for local inspection.
7
+ # - Deploys versioned documentation to the gh-pages branch using Mike:
8
+ # - For release tags (v*): deploys to a versioned folder (e.g., /0.9.1/) and updates /latest/.
9
+ # - For branches: deploys to /dev/.
10
+ #
11
+ # The action summary page will contain a link to the built artifact for downloading
12
+ # and inspecting, as well as a link to the deployed documentation site.
13
+
14
+ name: Docs build and deployment
15
+
16
+ on:
17
+ # Trigger the workflow on push
18
+ push:
19
+ # Selected branches
20
+ branches: [develop] # master and main are already verified in PR
21
+ # Runs on creating a new tag starting with 'v', e.g. 'v1.0.3'
22
+ tags: ['v*']
23
+ # Trigger the workflow on pull request
24
+ pull_request:
25
+ # Selected branches
26
+ branches: [master, main, develop]
27
+ # Allows you to run this workflow manually from the Actions tab
28
+ workflow_dispatch:
29
+
30
+ # - Non-tagged pushes and pull requests all use `docs-dev` group, so
31
+ # they cancel each other.
32
+ # - Tagged pushes use their own group like docs-v1.2.3, so they do not
33
+ # cancel non-tagged runs, and non-tagged runs do not cancel them.
34
+ concurrency:
35
+ group: >-
36
+ ${{ startsWith(github.ref, 'refs/tags/v')
37
+ && format('docs-{0}', github.ref_name)
38
+ || 'docs-dev' }}
39
+ cancel-in-progress: true
40
+
41
+ # Set the environment variables to be used in all jobs defined in this workflow
42
+ env:
43
+ # CI_BRANCH - the branch name (used in mkdocs.yml)
44
+ # For PRs: github.head_ref is the source branch
45
+ # For pushes: github.ref_name is the branch
46
+ # For tags: github.ref_name is the tag name
47
+ # GITHUB_REPOSITORY - the repository name (used in mkdocs.yml)
48
+ # NOTEBOOKS_DIR - the directory containing the Jupyter notebooks (used in mkdocs.yml)
49
+ DEFAULT_BRANCH: ${{ github.event.repository.default_branch }}
50
+ DEVELOP_BRANCH: develop
51
+ CI_BRANCH: ${{ github.head_ref || github.ref_name }}
52
+ IS_RELEASE_TAG: ${{ startsWith(github.ref, 'refs/tags/v') }}
53
+ GITHUB_REPOSITORY: ${{ github.repository }}
54
+ NOTEBOOKS_DIR: tutorials
55
+
56
+ jobs:
57
+ # Single job that builds and deploys documentation.
58
+ # Uses macOS runner for consistent Plotly chart rendering.
59
+ build-deploy-docs:
60
+ runs-on: ubuntu-latest # macos-latest
61
+
62
+ permissions:
63
+ contents: write # Required for pushing to the gh-pages branch
64
+
65
+ steps:
66
+ # Setting DOCS_VERSION to be used in mkdocs.yml, and then in the
67
+ # main.html template. It defines the versioned docs subfolder name
68
+ # in the gh-pages branch. If it's a release tag, use the version
69
+ # number without the 'v' prefix, otherwise use 'dev'.
70
+ # Setting RELEASE_VERSION to be used in mkdocs.yml to show
71
+ # the latest release version in the index.md file. If it's a
72
+ # release tag, use the tag name, otherwise use the branch name
73
+ # for development builds.
74
+ - name: Set extra env variables
75
+ shell: bash
76
+ run: |
77
+ if [[ "${IS_RELEASE_TAG}" == "true" ]]; then
78
+ RELEASE_VERSION="${GITHUB_REF_NAME}"
79
+ DOCS_VERSION="${RELEASE_VERSION#v}"
80
+ else
81
+ RELEASE_VERSION="${CI_BRANCH}"
82
+ DOCS_VERSION="dev"
83
+ fi
84
+ echo "RELEASE_VERSION=${RELEASE_VERSION}" >> "$GITHUB_ENV"
85
+ echo "DOCS_VERSION=${DOCS_VERSION}" >> "$GITHUB_ENV"
86
+
87
+ # Check out the repository source code.
88
+ # Note: The gh-pages branch is fetched separately later for mike deployment.
89
+ - name: Checkout repository
90
+ uses: actions/checkout@v6
91
+ with:
92
+ # Full history with tags so versioningit derives the real
93
+ # version (e.g. 0.18.0+dev40) instead of the v999.0.0 fallback
94
+ # (tool.versioningit.vcs default-tag), which would otherwise
95
+ # appear as "edi 999" in the executed notebook outputs rendered
96
+ # to HTML.
97
+ fetch-depth: 0
98
+
99
+ # Activate dark mode to create documentation with Plotly charts in dark mode
100
+ # Need a better solution to automatically switch the chart colour theme based on the mkdocs material switcher
101
+ # Something similar to mkdocs_plotly_plugin https://haoda-li.github.io/mkdocs-plotly-plugin/,
102
+ # but for generating documentation from notepads
103
+ #- name: Activate dark mode
104
+ # run: |
105
+ # brew install dark-mode
106
+ # dark-mode status
107
+ # dark-mode on
108
+ # dark-mode status
109
+
110
+ # Set up the pixi package manager and install dependencies from pixi.toml.
111
+ # Uses frozen lockfile to ensure reproducible builds.
112
+ - name: Set up pixi
113
+ uses: ./.github/actions/setup-pixi
114
+ # Pre-import the main package to exclude info messages from the docs
115
+ # E.g., Matplotlib may print messages to stdout/stderr when first
116
+ # imported. This step allows to avoid "Matplotlib is building the font
117
+ # cache" messages during notebook execution.
118
+ - name: Pre-build site step
119
+ run: pixi run python -c "import easydiffraction"
120
+
121
+ # Prepare the Jupyter notebooks for documentation (strip output, etc.).
122
+ - name: Prepare notebooks
123
+ run: pixi run notebook-prepare
124
+
125
+ # Execute all Jupyter notebooks to generate output cells (plots, tables, etc.).
126
+ # Uses multiple cores for parallel execution to speed up the process.
127
+ - name: Run notebooks
128
+ # if: false # Temporarily disabled to speed up the docs build
129
+ run: pixi run notebook-exec-ci
130
+
131
+ # Sync the canonical Three.js snapshot into the docs assets so
132
+ # MkDocs can serve it (belt-and-braces; docs-build also depends on
133
+ # this task).
134
+ - name: Sync vendored JS into docs assets
135
+ run: pixi run docs-sync-vendored-js
136
+
137
+ # Build the static files for the documentation site for local inspection
138
+ # Input: docs/ directory containing the Markdown files
139
+ # Output: site/ directory containing the generated HTML files
140
+ - name: Build site for local check
141
+ run: pixi run docs-build-local
142
+
143
+ # Upload the static files from the site/ directory to be used for
144
+ # local check
145
+ - name: Upload built site as artifact
146
+ uses: ./.github/actions/upload-artifact
147
+ with:
148
+ name: site-local_easydiffraction-lib-${{ env.RELEASE_VERSION }}
149
+ path: docs/site/
150
+
151
+ # Create GitHub App token for pushing to gh-pages as easyscience[bot].
152
+ - name: Setup easyscience[bot]
153
+ id: bot
154
+ uses: ./.github/actions/setup-easyscience-bot
155
+ with:
156
+ app-id: ${{ vars.EASYSCIENCE_APP_ID }}
157
+ private-key: ${{ secrets.EASYSCIENCE_APP_KEY }}
158
+
159
+ # Configure git identity and remote URL so mike pushes as easyscience[bot].
160
+ - name: Configure git for pushing
161
+ run: |
162
+ set -euo pipefail
163
+ git config user.name "easyscience[bot]"
164
+ git config user.email "${{ vars.EASYSCIENCE_APP_ID }}+easyscience[bot]@users.noreply.github.com"
165
+ git remote set-url origin "https://x-access-token:${{ steps.bot.outputs.token }}@github.com/${{ github.repository }}.git"
166
+
167
+ # Fetch the gh-pages branch to ensure mike has the latest remote state.
168
+ # This is required because the checkout step only fetches the source branch,
169
+ # not the gh-pages branch that mike needs to update.
170
+ - name: Fetch gh-pages branch
171
+ run: |
172
+ git fetch origin gh-pages:gh-pages 2>/dev/null || true
173
+
174
+ # Deploy versioned documentation using mike (MkDocs plugin for versioning).
175
+ # - For release tags (v*): deploys to versioned folder (e.g., /0.9.1/) and aliases to /latest/.
176
+ # - For branches: deploys to /dev/.
177
+ # The "${RELEASE_VERSION#v}" syntax strips the 'v' prefix (v0.9.1 -> 0.9.1).
178
+ # Also sets 'latest' as the default version for the version selector.
179
+ - name: Rebuild and deploy docs with mike
180
+ run: |
181
+ # Exit on error (-e), undefined vars (-u), and pipeline failures (pipefail)
182
+ set -euo pipefail
183
+
184
+ REPO_NAME="${{ github.event.repository.name }}"
185
+ BASE_URL="https://easyscience.github.io/${REPO_NAME}"
186
+
187
+ # Deploy the release version and update the "latest" alias
188
+ if [[ "${IS_RELEASE_TAG}" == "true" ]]; then
189
+ pixi run docs-deploy-pre "${RELEASE_VERSION#v}" latest
190
+ pixi run docs-set-default-pre latest
191
+ DEPLOYMENT_URL="${BASE_URL}/latest"
192
+
193
+ # Deploy/update the "dev" alias (or whatever your convention is)
194
+ else
195
+ pixi run docs-deploy-pre dev
196
+ DEPLOYMENT_URL="${BASE_URL}/dev"
197
+
198
+ fi
199
+
200
+ # Add links to the action summary page for easy access
201
+ echo "🔗 deployment url [${DEPLOYMENT_URL}](${DEPLOYMENT_URL})" >> "${GITHUB_STEP_SUMMARY}"
@@ -0,0 +1,164 @@
1
+ # The workflow checks
2
+ # - the validity of pyproject.toml,
3
+ # - the presence and correctness of SPDX license headers,
4
+ # - linting and formatting of Python code,
5
+ # - linting and formatting of docstrings in Python code,
6
+ # - formatting of non-Python files (like markdown and toml).
7
+ # - linting of Python code in Jupyter notebooks (for library template).
8
+ #
9
+ # A summary of the checks is added to the GitHub Actions summary.
10
+
11
+ name: Lint and format checks
12
+
13
+ on:
14
+ # Trigger the workflow on push
15
+ push:
16
+ branches-ignore: [master, main] # Already verified in PR
17
+ # Do not run this workflow on creating a new tag starting with
18
+ # 'v', e.g. 'v1.0.3' (see publish-pypi.yml)
19
+ tags-ignore: ['v*']
20
+ # Trigger the workflow on pull request
21
+ pull_request:
22
+ # Allows you to run this workflow manually from the Actions tab
23
+ workflow_dispatch:
24
+
25
+ # Allow only one concurrent workflow, skipping runs queued between the run
26
+ # in-progress and latest queued. And cancel in-progress runs.
27
+ concurrency:
28
+ group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
29
+ cancel-in-progress: true
30
+
31
+ permissions:
32
+ contents: read
33
+
34
+ # Set the environment variables to be used in all jobs defined in this workflow
35
+ env:
36
+ CI_BRANCH: ${{ github.head_ref || github.ref_name }}
37
+
38
+ jobs:
39
+ lint-format:
40
+ runs-on: ubuntu-latest
41
+
42
+ steps:
43
+ - name: Checkout repository
44
+ uses: actions/checkout@v6
45
+
46
+ - name: Set up pixi
47
+ uses: ./.github/actions/setup-pixi
48
+
49
+ - name: Run post-install developer steps
50
+ run: pixi run post-install
51
+
52
+ - name: Check validity of pyproject.toml
53
+ id: pyproject
54
+ continue-on-error: true
55
+ shell: bash
56
+ run: pixi run pyproject-check
57
+
58
+ - name: Check SPDX license headers
59
+ id: license_headers
60
+ continue-on-error: true
61
+ shell: bash
62
+ run: pixi run license-check
63
+
64
+ - name: Check linting of Python code
65
+ id: py_lint
66
+ continue-on-error: true
67
+ shell: bash
68
+ run: pixi run py-lint-check
69
+
70
+ - name: Check formatting of Python code
71
+ id: py_format
72
+ continue-on-error: true
73
+ shell: bash
74
+ run: pixi run py-format-check
75
+
76
+ - name: Check linting of docstrings in Python code
77
+ id: docstring_lint
78
+ continue-on-error: true
79
+ shell: bash
80
+ run: pixi run docstring-lint-check
81
+
82
+ - name: Check docstring coverage (interrogate)
83
+ id: docstring_coverage
84
+ continue-on-error: true
85
+ shell: bash
86
+ run: pixi run docstring-coverage
87
+
88
+ - name: Check formatting of non-Python files (md, toml, etc.)
89
+ id: nonpy_format
90
+ continue-on-error: true
91
+ shell: bash
92
+ run: pixi run nonpy-format-check
93
+
94
+ - name: Check linting of Python code in Jupyter notebooks (ipynb)
95
+ id: notebook_lint
96
+ continue-on-error: true
97
+ shell: bash
98
+ run: pixi run notebook-lint-check
99
+
100
+ - name: Check unit-test directory mirrors src/ structure
101
+ id: test_structure
102
+ continue-on-error: true
103
+ shell: bash
104
+ run: pixi run test-structure-check
105
+
106
+ - name: Check spelling (codespell)
107
+ id: spell
108
+ continue-on-error: true
109
+ shell: bash
110
+ run: pixi run spell-check
111
+
112
+ - name: Check documentation links (lychee)
113
+ id: link
114
+ continue-on-error: true
115
+ shell: bash
116
+ run: pixi run link-check
117
+
118
+ - name: Build documentation strictly (no tutorial execution)
119
+ id: docs_build
120
+ continue-on-error: true
121
+ shell: bash
122
+ run: pixi run docs-build
123
+
124
+ # Add summary
125
+ - name: Add quality checks summary
126
+ if: always()
127
+ shell: bash
128
+ run: |
129
+ {
130
+ echo "## 🧪 Checks Summary"
131
+ echo ""
132
+ echo "| Check | Status |"
133
+ echo "|-------|--------|"
134
+ echo "| pyproject.toml | ${{ steps.pyproject.outcome == 'success' && '✅' || '❌' }} |"
135
+ echo "| license headers | ${{ steps.license_headers.outcome == 'success' && '✅' || '❌' }} |"
136
+ echo "| py lint | ${{ steps.py_lint.outcome == 'success' && '✅' || '❌' }} |"
137
+ echo "| py format | ${{ steps.py_format.outcome == 'success' && '✅' || '❌' }} |"
138
+ echo "| docstring lint | ${{ steps.docstring_lint.outcome == 'success' && '✅' || '❌' }} |"
139
+ echo "| docstring cover | ${{ steps.docstring_coverage.outcome == 'success' && '✅' || '❌' }} |"
140
+ echo "| nonpy format | ${{ steps.nonpy_format.outcome == 'success' && '✅' || '❌' }} |"
141
+ echo "| notebooks lint | ${{ steps.notebook_lint.outcome == 'success' && '✅' || '❌' }} |"
142
+ echo "| test structure | ${{ steps.test_structure.outcome == 'success' && '✅' || '❌' }} |"
143
+ echo "| spelling | ${{ steps.spell.outcome == 'success' && '✅' || '❌' }} |"
144
+ echo "| doc links | ${{ steps.link.outcome == 'success' && '✅' || '❌' }} |"
145
+ echo "| docs strict build| ${{ steps.docs_build.outcome == 'success' && '✅' || '❌' }} |"
146
+ } >> "$GITHUB_STEP_SUMMARY"
147
+
148
+ # Fail job if any check failed
149
+ - name: Fail job if any check failed
150
+ if: |
151
+ steps.pyproject.outcome == 'failure'
152
+ || steps.license_headers.outcome == 'failure'
153
+ || steps.py_lint.outcome == 'failure'
154
+ || steps.py_format.outcome == 'failure'
155
+ || steps.docstring_lint.outcome == 'failure'
156
+ || steps.docstring_coverage.outcome == 'failure'
157
+ || steps.nonpy_format.outcome == 'failure'
158
+ || steps.notebook_lint.outcome == 'failure'
159
+ || steps.test_structure.outcome == 'failure'
160
+ || steps.spell.outcome == 'failure'
161
+ || steps.link.outcome == 'failure'
162
+ || steps.docs_build.outcome == 'failure'
163
+ shell: bash
164
+ run: exit 1
@@ -0,0 +1,71 @@
1
+ # Nightly run of the FULL test suite across all cost tiers (default, pr,
2
+ # and nightly), plus the performance benchmarks. The per-push and per-PR
3
+ # runs in test.yml deselect the pr/nightly tiers; the nightly run does
4
+ # not. See ADR test-suite-and-validation.
5
+
6
+ name: Nightly tests
7
+
8
+ on:
9
+ # Run the nightly-tier tests on a daily schedule
10
+ schedule:
11
+ - cron: '0 3 * * *' # 03:00 UTC daily
12
+ # Allow manual runs from the Actions tab
13
+ workflow_dispatch:
14
+
15
+ permissions:
16
+ contents: read
17
+
18
+ # Allow only one concurrent nightly run per ref.
19
+ concurrency:
20
+ group: ${{ github.workflow }}-${{ github.ref }}
21
+ cancel-in-progress: true
22
+
23
+ jobs:
24
+ nightly-tests:
25
+ runs-on: ubuntu-latest
26
+
27
+ steps:
28
+ - name: Check-out repository
29
+ uses: actions/checkout@v6
30
+ with:
31
+ # Full history with tags so versioningit derives the real
32
+ # version instead of the v999.0.0 fallback in notebook output.
33
+ fetch-depth: 0
34
+
35
+ - name: Set up pixi
36
+ uses: ./.github/actions/setup-pixi
37
+
38
+ # Run each tier as its own step for per-suite visibility. The two
39
+ # tutorial steps must stay sequential — they share
40
+ # tmp/tutorials/projects/ — so they run as ordered steps rather than
41
+ # a single depends-on aggregate. `if: ${{ !cancelled() }}` lets a
42
+ # failure in one tier still report the others.
43
+ - name: Unit tests
44
+ run: pixi run unit-tests
45
+
46
+ - name: Functional tests
47
+ if: ${{ !cancelled() }}
48
+ run: pixi run functional-tests
49
+
50
+ - name: Integration tests
51
+ if: ${{ !cancelled() }}
52
+ run: pixi run integration-tests
53
+
54
+ - name: Tutorials as scripts + output check
55
+ if: ${{ !cancelled() }}
56
+ run: pixi run script-tests-checked
57
+
58
+ - name: Tutorials + verification notebooks + output check
59
+ if: ${{ !cancelled() }}
60
+ run: pixi run notebook-tests-checked
61
+
62
+ - name: Run performance benchmarks
63
+ if: ${{ !cancelled() }}
64
+ run: pixi run benchmarks
65
+
66
+ - name: Upload benchmark results
67
+ if: ${{ !cancelled() }}
68
+ uses: ./.github/actions/upload-artifact
69
+ with:
70
+ name: benchmark-results
71
+ path: benchmark.json
@@ -0,0 +1,88 @@
1
+ name: PyPI package tests
2
+
3
+ on:
4
+ # Run daily, at 00:00.
5
+ schedule:
6
+ - cron: '0 0 * * *'
7
+ # Allows you to run this workflow manually from the Actions tab
8
+ workflow_dispatch:
9
+
10
+ # Allow only one concurrent workflow, skipping runs queued between the run
11
+ # in-progress and latest queued. And cancel in-progress runs.
12
+ concurrency:
13
+ group: ${{ github.workflow }}-${{ github.ref }}
14
+ cancel-in-progress: true
15
+
16
+ permissions:
17
+ contents: read
18
+
19
+ jobs:
20
+ # Job 1: Test installation from PyPI on multiple OS
21
+ pypi-package-tests:
22
+ strategy:
23
+ matrix:
24
+ os: [ubuntu-latest, windows-latest, macos-latest]
25
+
26
+ runs-on: ${{ matrix.os }}
27
+
28
+ steps:
29
+ - name: Checkout repository
30
+ uses: actions/checkout@v6
31
+
32
+ - name: Set up pixi
33
+ uses: ./.github/actions/setup-pixi
34
+ with:
35
+ environments: ''
36
+ activate-environment: ''
37
+ run-install: false
38
+ frozen: false
39
+
40
+ - name: Init pixi project
41
+ run: pixi init easydiffraction
42
+
43
+ - name: Set the minimum system requirements
44
+ working-directory: easydiffraction
45
+ run: |
46
+ pixi project system-requirements add macos 14.0
47
+ pixi project system-requirements add glibc 2.35
48
+
49
+ - name: Add Python 3.14 from Conda
50
+ working-directory: easydiffraction
51
+ run: pixi add "python=3.14"
52
+
53
+ - name: Add other Conda dependencies
54
+ working-directory: easydiffraction
55
+ run: |
56
+ pixi add gsl
57
+ pixi add --platform osx-arm64 libcxx
58
+
59
+ #- name: Add pycrysfml calculator from custom PyPI index
60
+ # working-directory: easydiffraction
61
+ # run: |
62
+ # echo '' >> pixi.toml
63
+ # echo '[pypi-dependencies]' >> pixi.toml
64
+ # echo 'pycrysfml = { version = ">=0.2.1", index = "https://easyscience.github.io/pypi/" }' >> pixi.toml
65
+
66
+ - name: Add easydiffraction (with dev dependencies) from PyPI
67
+ working-directory: easydiffraction
68
+ run: pixi add --pypi "easydiffraction[dev]"
69
+
70
+ - name: Run unit tests to verify the installation
71
+ working-directory: easydiffraction
72
+ run: pixi run python -m pytest ../tests/unit/ --color=yes -v
73
+
74
+ - name: Run functional tests to verify the installation
75
+ if: ${{ !cancelled() }}
76
+ working-directory: easydiffraction
77
+ run: pixi run python -m pytest ../tests/functional/ --color=yes -v
78
+
79
+ - name: Run integration tests to verify the installation
80
+ if: ${{ !cancelled() }}
81
+ working-directory: easydiffraction
82
+ run: pixi run python -m pytest ../tests/integration/ --color=yes -n auto
83
+
84
+ # Job 2: Build and publish dashboard (reusable workflow)
85
+ run-reusable-workflows:
86
+ needs: pypi-package-tests # depend on previous job
87
+ uses: ./.github/workflows/dashboard.yml
88
+ secrets: inherit