sequenzo 0.1.31__cp310-cp310-macosx_10_9_x86_64.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (299) hide show
  1. _sequenzo_fastcluster.cpython-310-darwin.so +0 -0
  2. sequenzo/__init__.py +349 -0
  3. sequenzo/big_data/__init__.py +12 -0
  4. sequenzo/big_data/clara/__init__.py +26 -0
  5. sequenzo/big_data/clara/clara.py +476 -0
  6. sequenzo/big_data/clara/utils/__init__.py +27 -0
  7. sequenzo/big_data/clara/utils/aggregatecases.py +92 -0
  8. sequenzo/big_data/clara/utils/davies_bouldin.py +91 -0
  9. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-310-darwin.so +0 -0
  10. sequenzo/big_data/clara/utils/wfcmdd.py +205 -0
  11. sequenzo/big_data/clara/visualization.py +88 -0
  12. sequenzo/clustering/KMedoids.py +178 -0
  13. sequenzo/clustering/__init__.py +30 -0
  14. sequenzo/clustering/clustering_c_code.cpython-310-darwin.so +0 -0
  15. sequenzo/clustering/hierarchical_clustering.py +1256 -0
  16. sequenzo/clustering/sequenzo_fastcluster/fastcluster.py +495 -0
  17. sequenzo/clustering/sequenzo_fastcluster/src/fastcluster.cpp +1877 -0
  18. sequenzo/clustering/sequenzo_fastcluster/src/fastcluster_python.cpp +1264 -0
  19. sequenzo/clustering/src/KMedoid.cpp +263 -0
  20. sequenzo/clustering/src/PAM.cpp +237 -0
  21. sequenzo/clustering/src/PAMonce.cpp +265 -0
  22. sequenzo/clustering/src/cluster_quality.cpp +496 -0
  23. sequenzo/clustering/src/cluster_quality.h +128 -0
  24. sequenzo/clustering/src/cluster_quality_backup.cpp +570 -0
  25. sequenzo/clustering/src/module.cpp +228 -0
  26. sequenzo/clustering/src/weightedinertia.cpp +111 -0
  27. sequenzo/clustering/utils/__init__.py +27 -0
  28. sequenzo/clustering/utils/disscenter.py +122 -0
  29. sequenzo/data_preprocessing/__init__.py +22 -0
  30. sequenzo/data_preprocessing/helpers.py +303 -0
  31. sequenzo/datasets/__init__.py +41 -0
  32. sequenzo/datasets/biofam.csv +2001 -0
  33. sequenzo/datasets/biofam_child_domain.csv +2001 -0
  34. sequenzo/datasets/biofam_left_domain.csv +2001 -0
  35. sequenzo/datasets/biofam_married_domain.csv +2001 -0
  36. sequenzo/datasets/chinese_colonial_territories.csv +12 -0
  37. sequenzo/datasets/country_co2_emissions.csv +194 -0
  38. sequenzo/datasets/country_co2_emissions_global_deciles.csv +195 -0
  39. sequenzo/datasets/country_co2_emissions_global_quintiles.csv +195 -0
  40. sequenzo/datasets/country_co2_emissions_local_deciles.csv +195 -0
  41. sequenzo/datasets/country_co2_emissions_local_quintiles.csv +195 -0
  42. sequenzo/datasets/country_gdp_per_capita.csv +194 -0
  43. sequenzo/datasets/dyadic_children.csv +61 -0
  44. sequenzo/datasets/dyadic_parents.csv +61 -0
  45. sequenzo/datasets/mvad.csv +713 -0
  46. sequenzo/datasets/pairfam_activity_by_month.csv +1028 -0
  47. sequenzo/datasets/pairfam_activity_by_year.csv +1028 -0
  48. sequenzo/datasets/pairfam_family_by_month.csv +1028 -0
  49. sequenzo/datasets/pairfam_family_by_year.csv +1028 -0
  50. sequenzo/datasets/political_science_aid_shock.csv +166 -0
  51. sequenzo/datasets/political_science_donor_fragmentation.csv +157 -0
  52. sequenzo/define_sequence_data.py +1400 -0
  53. sequenzo/dissimilarity_measures/__init__.py +31 -0
  54. sequenzo/dissimilarity_measures/c_code.cpython-310-darwin.so +0 -0
  55. sequenzo/dissimilarity_measures/get_distance_matrix.py +762 -0
  56. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +246 -0
  57. sequenzo/dissimilarity_measures/src/DHDdistance.cpp +148 -0
  58. sequenzo/dissimilarity_measures/src/LCPdistance.cpp +114 -0
  59. sequenzo/dissimilarity_measures/src/LCPspellDistance.cpp +215 -0
  60. sequenzo/dissimilarity_measures/src/OMdistance.cpp +247 -0
  61. sequenzo/dissimilarity_measures/src/OMspellDistance.cpp +281 -0
  62. sequenzo/dissimilarity_measures/src/__init__.py +0 -0
  63. sequenzo/dissimilarity_measures/src/dist2matrix.cpp +63 -0
  64. sequenzo/dissimilarity_measures/src/dp_utils.h +160 -0
  65. sequenzo/dissimilarity_measures/src/module.cpp +40 -0
  66. sequenzo/dissimilarity_measures/src/setup.py +30 -0
  67. sequenzo/dissimilarity_measures/src/utils.h +25 -0
  68. sequenzo/dissimilarity_measures/src/xsimd/.github/cmake-test/main.cpp +6 -0
  69. sequenzo/dissimilarity_measures/src/xsimd/benchmark/main.cpp +159 -0
  70. sequenzo/dissimilarity_measures/src/xsimd/benchmark/xsimd_benchmark.hpp +565 -0
  71. sequenzo/dissimilarity_measures/src/xsimd/docs/source/conf.py +37 -0
  72. sequenzo/dissimilarity_measures/src/xsimd/examples/mandelbrot.cpp +330 -0
  73. sequenzo/dissimilarity_measures/src/xsimd/examples/pico_bench.hpp +246 -0
  74. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_arithmetic.hpp +266 -0
  75. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_complex.hpp +112 -0
  76. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_details.hpp +323 -0
  77. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_logical.hpp +218 -0
  78. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_math.hpp +2583 -0
  79. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_memory.hpp +880 -0
  80. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_rounding.hpp +72 -0
  81. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_swizzle.hpp +174 -0
  82. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_trigo.hpp +978 -0
  83. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx.hpp +1924 -0
  84. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx2.hpp +1144 -0
  85. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512bw.hpp +656 -0
  86. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512cd.hpp +28 -0
  87. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512dq.hpp +244 -0
  88. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512er.hpp +20 -0
  89. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512f.hpp +2650 -0
  90. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512ifma.hpp +20 -0
  91. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512pf.hpp +20 -0
  92. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi.hpp +77 -0
  93. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi2.hpp +131 -0
  94. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vnni_avx512bw.hpp +20 -0
  95. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vnni_avx512vbmi2.hpp +20 -0
  96. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avxvnni.hpp +20 -0
  97. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common.hpp +24 -0
  98. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common_fwd.hpp +77 -0
  99. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_constants.hpp +393 -0
  100. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_emulated.hpp +788 -0
  101. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_avx.hpp +93 -0
  102. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_avx2.hpp +46 -0
  103. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_sse.hpp +97 -0
  104. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma4.hpp +92 -0
  105. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_i8mm_neon64.hpp +17 -0
  106. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_isa.hpp +142 -0
  107. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon.hpp +3142 -0
  108. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon64.hpp +1543 -0
  109. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_rvv.hpp +1513 -0
  110. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_scalar.hpp +1260 -0
  111. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse2.hpp +2024 -0
  112. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse3.hpp +67 -0
  113. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse4_1.hpp +339 -0
  114. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse4_2.hpp +44 -0
  115. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_ssse3.hpp +186 -0
  116. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sve.hpp +1155 -0
  117. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_vsx.hpp +892 -0
  118. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_wasm.hpp +1780 -0
  119. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_arch.hpp +240 -0
  120. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_config.hpp +484 -0
  121. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_cpuid.hpp +269 -0
  122. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_inline.hpp +27 -0
  123. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/math/xsimd_rem_pio2.hpp +719 -0
  124. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/memory/xsimd_aligned_allocator.hpp +349 -0
  125. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/memory/xsimd_alignment.hpp +91 -0
  126. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_all_registers.hpp +55 -0
  127. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_api.hpp +2765 -0
  128. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx2_register.hpp +44 -0
  129. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512bw_register.hpp +51 -0
  130. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512cd_register.hpp +51 -0
  131. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512dq_register.hpp +51 -0
  132. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512er_register.hpp +51 -0
  133. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512f_register.hpp +77 -0
  134. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512ifma_register.hpp +51 -0
  135. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512pf_register.hpp +51 -0
  136. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512vbmi2_register.hpp +51 -0
  137. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512vbmi_register.hpp +51 -0
  138. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512vnni_avx512bw_register.hpp +54 -0
  139. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx512vnni_avx512vbmi2_register.hpp +53 -0
  140. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avx_register.hpp +64 -0
  141. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_avxvnni_register.hpp +44 -0
  142. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_batch.hpp +1524 -0
  143. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_batch_constant.hpp +300 -0
  144. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_common_arch.hpp +47 -0
  145. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_emulated_register.hpp +80 -0
  146. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_fma3_avx2_register.hpp +50 -0
  147. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_fma3_avx_register.hpp +50 -0
  148. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_fma3_sse_register.hpp +50 -0
  149. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_fma4_register.hpp +50 -0
  150. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_i8mm_neon64_register.hpp +55 -0
  151. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_neon64_register.hpp +55 -0
  152. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_neon_register.hpp +154 -0
  153. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_register.hpp +94 -0
  154. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_rvv_register.hpp +506 -0
  155. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_sse2_register.hpp +59 -0
  156. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_sse3_register.hpp +49 -0
  157. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_sse4_1_register.hpp +48 -0
  158. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_sse4_2_register.hpp +48 -0
  159. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_ssse3_register.hpp +48 -0
  160. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_sve_register.hpp +156 -0
  161. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_traits.hpp +337 -0
  162. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_utils.hpp +536 -0
  163. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_vsx_register.hpp +77 -0
  164. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_wasm_register.hpp +59 -0
  165. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/xsimd.hpp +75 -0
  166. sequenzo/dissimilarity_measures/src/xsimd/test/architectures/dummy.cpp +7 -0
  167. sequenzo/dissimilarity_measures/src/xsimd/test/doc/explicit_use_of_an_instruction_set.cpp +13 -0
  168. sequenzo/dissimilarity_measures/src/xsimd/test/doc/explicit_use_of_an_instruction_set_mean.cpp +24 -0
  169. sequenzo/dissimilarity_measures/src/xsimd/test/doc/explicit_use_of_an_instruction_set_mean_aligned.cpp +25 -0
  170. sequenzo/dissimilarity_measures/src/xsimd/test/doc/explicit_use_of_an_instruction_set_mean_arch_independent.cpp +28 -0
  171. sequenzo/dissimilarity_measures/src/xsimd/test/doc/explicit_use_of_an_instruction_set_mean_tag_dispatch.cpp +25 -0
  172. sequenzo/dissimilarity_measures/src/xsimd/test/doc/manipulating_abstract_batches.cpp +7 -0
  173. sequenzo/dissimilarity_measures/src/xsimd/test/doc/manipulating_parametric_batches.cpp +8 -0
  174. sequenzo/dissimilarity_measures/src/xsimd/test/doc/sum.hpp +31 -0
  175. sequenzo/dissimilarity_measures/src/xsimd/test/doc/sum_avx2.cpp +3 -0
  176. sequenzo/dissimilarity_measures/src/xsimd/test/doc/sum_sse2.cpp +3 -0
  177. sequenzo/dissimilarity_measures/src/xsimd/test/doc/writing_vectorized_code.cpp +11 -0
  178. sequenzo/dissimilarity_measures/src/xsimd/test/main.cpp +31 -0
  179. sequenzo/dissimilarity_measures/src/xsimd/test/test_api.cpp +230 -0
  180. sequenzo/dissimilarity_measures/src/xsimd/test/test_arch.cpp +217 -0
  181. sequenzo/dissimilarity_measures/src/xsimd/test/test_basic_math.cpp +183 -0
  182. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch.cpp +1049 -0
  183. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_bool.cpp +508 -0
  184. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_cast.cpp +409 -0
  185. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_complex.cpp +712 -0
  186. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_constant.cpp +286 -0
  187. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_float.cpp +141 -0
  188. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_int.cpp +365 -0
  189. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_manip.cpp +308 -0
  190. sequenzo/dissimilarity_measures/src/xsimd/test/test_bitwise_cast.cpp +222 -0
  191. sequenzo/dissimilarity_measures/src/xsimd/test/test_complex_exponential.cpp +226 -0
  192. sequenzo/dissimilarity_measures/src/xsimd/test/test_complex_hyperbolic.cpp +183 -0
  193. sequenzo/dissimilarity_measures/src/xsimd/test/test_complex_power.cpp +265 -0
  194. sequenzo/dissimilarity_measures/src/xsimd/test/test_complex_trigonometric.cpp +236 -0
  195. sequenzo/dissimilarity_measures/src/xsimd/test/test_conversion.cpp +248 -0
  196. sequenzo/dissimilarity_measures/src/xsimd/test/test_custom_default_arch.cpp +28 -0
  197. sequenzo/dissimilarity_measures/src/xsimd/test/test_error_gamma.cpp +170 -0
  198. sequenzo/dissimilarity_measures/src/xsimd/test/test_explicit_batch_instantiation.cpp +32 -0
  199. sequenzo/dissimilarity_measures/src/xsimd/test/test_exponential.cpp +202 -0
  200. sequenzo/dissimilarity_measures/src/xsimd/test/test_extract_pair.cpp +92 -0
  201. sequenzo/dissimilarity_measures/src/xsimd/test/test_fp_manipulation.cpp +77 -0
  202. sequenzo/dissimilarity_measures/src/xsimd/test/test_gnu_source.cpp +30 -0
  203. sequenzo/dissimilarity_measures/src/xsimd/test/test_hyperbolic.cpp +167 -0
  204. sequenzo/dissimilarity_measures/src/xsimd/test/test_load_store.cpp +304 -0
  205. sequenzo/dissimilarity_measures/src/xsimd/test/test_memory.cpp +61 -0
  206. sequenzo/dissimilarity_measures/src/xsimd/test/test_poly_evaluation.cpp +64 -0
  207. sequenzo/dissimilarity_measures/src/xsimd/test/test_power.cpp +184 -0
  208. sequenzo/dissimilarity_measures/src/xsimd/test/test_rounding.cpp +199 -0
  209. sequenzo/dissimilarity_measures/src/xsimd/test/test_select.cpp +101 -0
  210. sequenzo/dissimilarity_measures/src/xsimd/test/test_shuffle.cpp +760 -0
  211. sequenzo/dissimilarity_measures/src/xsimd/test/test_sum.cpp +4 -0
  212. sequenzo/dissimilarity_measures/src/xsimd/test/test_sum.hpp +34 -0
  213. sequenzo/dissimilarity_measures/src/xsimd/test/test_traits.cpp +172 -0
  214. sequenzo/dissimilarity_measures/src/xsimd/test/test_trigonometric.cpp +208 -0
  215. sequenzo/dissimilarity_measures/src/xsimd/test/test_utils.hpp +611 -0
  216. sequenzo/dissimilarity_measures/src/xsimd/test/test_wasm/test_wasm_playwright.py +123 -0
  217. sequenzo/dissimilarity_measures/src/xsimd/test/test_xsimd_api.cpp +1460 -0
  218. sequenzo/dissimilarity_measures/utils/__init__.py +16 -0
  219. sequenzo/dissimilarity_measures/utils/get_LCP_length_for_2_seq.py +44 -0
  220. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-310-darwin.so +0 -0
  221. sequenzo/dissimilarity_measures/utils/seqconc.cpython-310-darwin.so +0 -0
  222. sequenzo/dissimilarity_measures/utils/seqdss.cpython-310-darwin.so +0 -0
  223. sequenzo/dissimilarity_measures/utils/seqdur.cpython-310-darwin.so +0 -0
  224. sequenzo/dissimilarity_measures/utils/seqlength.cpython-310-darwin.so +0 -0
  225. sequenzo/multidomain/__init__.py +23 -0
  226. sequenzo/multidomain/association_between_domains.py +311 -0
  227. sequenzo/multidomain/cat.py +597 -0
  228. sequenzo/multidomain/combt.py +519 -0
  229. sequenzo/multidomain/dat.py +81 -0
  230. sequenzo/multidomain/idcd.py +139 -0
  231. sequenzo/multidomain/linked_polyad.py +292 -0
  232. sequenzo/openmp_setup.py +233 -0
  233. sequenzo/prefix_tree/__init__.py +62 -0
  234. sequenzo/prefix_tree/hub.py +114 -0
  235. sequenzo/prefix_tree/individual_level_indicators.py +1321 -0
  236. sequenzo/prefix_tree/spell_individual_level_indicators.py +580 -0
  237. sequenzo/prefix_tree/spell_level_indicators.py +297 -0
  238. sequenzo/prefix_tree/system_level_indicators.py +544 -0
  239. sequenzo/prefix_tree/utils.py +54 -0
  240. sequenzo/seqhmm/__init__.py +95 -0
  241. sequenzo/seqhmm/advanced_optimization.py +305 -0
  242. sequenzo/seqhmm/bootstrap.py +411 -0
  243. sequenzo/seqhmm/build_hmm.py +142 -0
  244. sequenzo/seqhmm/build_mhmm.py +136 -0
  245. sequenzo/seqhmm/build_nhmm.py +121 -0
  246. sequenzo/seqhmm/fit_mhmm.py +62 -0
  247. sequenzo/seqhmm/fit_model.py +61 -0
  248. sequenzo/seqhmm/fit_nhmm.py +76 -0
  249. sequenzo/seqhmm/formulas.py +289 -0
  250. sequenzo/seqhmm/forward_backward_nhmm.py +276 -0
  251. sequenzo/seqhmm/gradients_nhmm.py +306 -0
  252. sequenzo/seqhmm/hmm.py +291 -0
  253. sequenzo/seqhmm/mhmm.py +314 -0
  254. sequenzo/seqhmm/model_comparison.py +238 -0
  255. sequenzo/seqhmm/multichannel_em.py +282 -0
  256. sequenzo/seqhmm/multichannel_utils.py +138 -0
  257. sequenzo/seqhmm/nhmm.py +270 -0
  258. sequenzo/seqhmm/nhmm_utils.py +191 -0
  259. sequenzo/seqhmm/predict.py +137 -0
  260. sequenzo/seqhmm/predict_mhmm.py +142 -0
  261. sequenzo/seqhmm/simulate.py +878 -0
  262. sequenzo/seqhmm/utils.py +218 -0
  263. sequenzo/seqhmm/visualization.py +910 -0
  264. sequenzo/sequence_characteristics/__init__.py +40 -0
  265. sequenzo/sequence_characteristics/complexity_index.py +49 -0
  266. sequenzo/sequence_characteristics/overall_cross_sectional_entropy.py +220 -0
  267. sequenzo/sequence_characteristics/plot_characteristics.py +593 -0
  268. sequenzo/sequence_characteristics/simple_characteristics.py +311 -0
  269. sequenzo/sequence_characteristics/state_frequencies_and_entropy_per_sequence.py +39 -0
  270. sequenzo/sequence_characteristics/turbulence.py +155 -0
  271. sequenzo/sequence_characteristics/variance_of_spell_durations.py +86 -0
  272. sequenzo/sequence_characteristics/within_sequence_entropy.py +43 -0
  273. sequenzo/suffix_tree/__init__.py +66 -0
  274. sequenzo/suffix_tree/hub.py +114 -0
  275. sequenzo/suffix_tree/individual_level_indicators.py +1679 -0
  276. sequenzo/suffix_tree/spell_individual_level_indicators.py +493 -0
  277. sequenzo/suffix_tree/spell_level_indicators.py +248 -0
  278. sequenzo/suffix_tree/system_level_indicators.py +535 -0
  279. sequenzo/suffix_tree/utils.py +56 -0
  280. sequenzo/version_check.py +283 -0
  281. sequenzo/visualization/__init__.py +29 -0
  282. sequenzo/visualization/plot_mean_time.py +222 -0
  283. sequenzo/visualization/plot_modal_state.py +276 -0
  284. sequenzo/visualization/plot_most_frequent_sequences.py +147 -0
  285. sequenzo/visualization/plot_relative_frequency.py +405 -0
  286. sequenzo/visualization/plot_sequence_index.py +1175 -0
  287. sequenzo/visualization/plot_single_medoid.py +153 -0
  288. sequenzo/visualization/plot_state_distribution.py +651 -0
  289. sequenzo/visualization/plot_transition_matrix.py +190 -0
  290. sequenzo/visualization/utils/__init__.py +23 -0
  291. sequenzo/visualization/utils/utils.py +310 -0
  292. sequenzo/with_event_history_analysis/__init__.py +35 -0
  293. sequenzo/with_event_history_analysis/sequence_analysis_multi_state_model.py +850 -0
  294. sequenzo/with_event_history_analysis/sequence_history_analysis.py +283 -0
  295. sequenzo-0.1.31.dist-info/METADATA +286 -0
  296. sequenzo-0.1.31.dist-info/RECORD +299 -0
  297. sequenzo-0.1.31.dist-info/WHEEL +5 -0
  298. sequenzo-0.1.31.dist-info/licenses/LICENSE +28 -0
  299. sequenzo-0.1.31.dist-info/top_level.txt +2 -0
@@ -0,0 +1,508 @@
1
+ /***************************************************************************
2
+ * Copyright (c) Johan Mabille, Sylvain Corlay, Wolf Vollprecht and *
3
+ * Martin Renou *
4
+ * Copyright (c) QuantStack *
5
+ * Copyright (c) Serge Guelton *
6
+ * *
7
+ * Distributed under the terms of the BSD 3-Clause License. *
8
+ * *
9
+ * The full license is in the file LICENSE, distributed with this software. *
10
+ ****************************************************************************/
11
+
12
+ #include "xsimd/xsimd.hpp"
13
+ #ifndef XSIMD_NO_SUPPORTED_ARCHITECTURE
14
+
15
+ #include <functional>
16
+ #include <vector>
17
+
18
+ #include "test_utils.hpp"
19
+
20
+ namespace xsimd
21
+ {
22
+
23
+ int popcount(int v)
24
+ {
25
+ // from https://graphics.stanford.edu/~seander/bithacks.html#CountBitsSetKernighan
26
+ int c; // c accumulates the total bits set in v
27
+ for (c = 0; v; c++)
28
+ {
29
+ v &= v - 1; // clear the least significant bit set
30
+ }
31
+ return c;
32
+ }
33
+
34
+ template <class T, std::size_t N>
35
+ struct get_bool_base
36
+ {
37
+ using vector_type = std::array<bool, N>;
38
+
39
+ std::vector<vector_type> almost_all_false()
40
+ {
41
+ std::vector<vector_type> vectors;
42
+ vectors.reserve(N);
43
+ for (size_t i = 0; i < N; ++i)
44
+ {
45
+ vector_type v;
46
+ v.fill(false);
47
+ v[i] = true;
48
+ vectors.push_back(std::move(v));
49
+ }
50
+ return vectors;
51
+ }
52
+
53
+ std::vector<vector_type> almost_all_true()
54
+ {
55
+ auto vectors = almost_all_false();
56
+ flip(vectors);
57
+ return vectors;
58
+ }
59
+
60
+ void flip(vector_type& vec)
61
+ {
62
+ std::transform(vec.begin(), vec.end(), vec.begin(), std::logical_not<bool> {});
63
+ }
64
+
65
+ void flip(std::vector<vector_type>& vectors)
66
+ {
67
+ for (auto& vec : vectors)
68
+ {
69
+ flip(vec);
70
+ }
71
+ }
72
+ };
73
+
74
+ template <class T, size_t N = T::size>
75
+ struct get_bool;
76
+
77
+ template <class T>
78
+ struct get_bool<batch_bool<T>, 1> : public get_bool_base<T, 1>
79
+ {
80
+ using type = batch_bool<T>;
81
+ type all_true = type(true);
82
+ type all_false = type(false);
83
+ type half = { 0 };
84
+ type ihalf = { 1 };
85
+ type interspersed = { 0 };
86
+ };
87
+
88
+ template <class T>
89
+ struct get_bool<batch_bool<T>, 2> : public get_bool_base<T, 2>
90
+ {
91
+ using type = batch_bool<T>;
92
+ type all_true = type(true);
93
+ type all_false = type(false);
94
+ type half = { 0, 1 };
95
+ type ihalf = { 1, 0 };
96
+ type interspersed = { 0, 1 };
97
+ };
98
+
99
+ template <class T>
100
+ struct get_bool<batch_bool<T>, 4> : public get_bool_base<T, 4>
101
+ {
102
+ using type = batch_bool<T>;
103
+
104
+ type all_true = true;
105
+ type all_false = false;
106
+ type half = { 0, 0, 1, 1 };
107
+ type ihalf = { 1, 1, 0, 0 };
108
+ type interspersed = { 0, 1, 0, 1 };
109
+ };
110
+
111
+ template <class T>
112
+ struct get_bool<batch_bool<T>, 8> : public get_bool_base<T, 8>
113
+ {
114
+ using type = batch_bool<T>;
115
+ type all_true = true;
116
+ type all_false = false;
117
+ type half = { 0, 0, 0, 0, 1, 1, 1, 1 };
118
+ type ihalf = { 1, 1, 1, 1, 0, 0, 0, 0 };
119
+ type interspersed = { 0, 1, 0, 1, 0, 1, 0, 1 };
120
+ };
121
+
122
+ template <class T>
123
+ struct get_bool<batch_bool<T>, 16> : public get_bool_base<T, 16>
124
+ {
125
+ using type = batch_bool<T>;
126
+ type all_true = true;
127
+ type all_false = false;
128
+ type half = { 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1 };
129
+ type ihalf = { 1, 1, 1, 1, 1, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0 };
130
+ type interspersed = { 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1 };
131
+ };
132
+
133
+ template <class T>
134
+ struct get_bool<batch_bool<T>, 32> : public get_bool_base<T, 32>
135
+ {
136
+ using type = batch_bool<T>;
137
+ type all_true = true;
138
+ type all_false = false;
139
+ type half = { 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 };
140
+ type ihalf = { 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 };
141
+ type interspersed = { 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1 };
142
+ };
143
+
144
+ template <class T>
145
+ struct get_bool<batch_bool<T>, 64> : public get_bool_base<T, 64>
146
+ {
147
+ using type = batch_bool<T>;
148
+ type all_true = true;
149
+ type all_false = false;
150
+ type half = { 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 };
151
+ type ihalf = { 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 };
152
+ type interspersed = { 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1, 0, 1 };
153
+ };
154
+
155
+ }
156
+
157
+ template <class B>
158
+ struct batch_bool_test
159
+ {
160
+ using batch_type = B;
161
+ using value_type = typename B::value_type;
162
+ static constexpr size_t size = B::size;
163
+ using batch_bool_type = typename B::batch_bool_type;
164
+ using array_type = std::array<value_type, size>;
165
+ using bool_array_type = std::array<bool, size>;
166
+
167
+ array_type lhs;
168
+ array_type rhs;
169
+ bool_array_type all_true;
170
+ bool_array_type ba;
171
+
172
+ batch_bool_test()
173
+ {
174
+ for (size_t i = 0; i < size; ++i)
175
+ {
176
+ lhs[i] = value_type(i);
177
+ rhs[i] = i == 0 % 2 ? lhs[i] : lhs[i] * value_type(2);
178
+ all_true[i] = true;
179
+ ba[i] = i == 0 % 2 ? true : false;
180
+ }
181
+ }
182
+
183
+ template <size_t... Is>
184
+ struct pack
185
+ {
186
+ };
187
+
188
+ template <size_t... Values>
189
+ void check_constructor_from_sequence(std::integral_constant<size_t, 0>, pack<Values...>) const
190
+ {
191
+ bool_array_type res = { bool(Values % 3)... };
192
+ bool_array_type tmp;
193
+ batch_bool_type b0(bool(Values % 3)...);
194
+ b0.store_unaligned(tmp.data());
195
+ INFO("batch_bool(values...)");
196
+ CHECK_EQ(tmp, res);
197
+
198
+ batch_bool_type b1 { bool(Values % 3)... };
199
+ b1.store_unaligned(tmp.data());
200
+ INFO("batch_bool{values...}");
201
+ CHECK_EQ(tmp, res);
202
+ }
203
+
204
+ template <size_t I, size_t... Values>
205
+ void check_constructor_from_sequence(std::integral_constant<size_t, I>, pack<Values...>) const
206
+ {
207
+ return check_constructor_from_sequence(std::integral_constant<size_t, I - 1>(), pack<Values..., I>());
208
+ }
209
+
210
+ void test_constructors() const
211
+ {
212
+ batch_bool_type a;
213
+ // value uninitialized, cannot test it.
214
+ (void)a;
215
+
216
+ bool_array_type res;
217
+ batch_bool_type b(true);
218
+ b.store_unaligned(res.data());
219
+ INFO("batch_bool{value}");
220
+ CHECK_EQ(res, all_true);
221
+
222
+ batch_bool_type c { true };
223
+ c.store_unaligned(res.data());
224
+ INFO("batch_bool{value}");
225
+ CHECK_EQ(res, all_true);
226
+
227
+ check_constructor_from_sequence(std::integral_constant<size_t, size>(), pack<>());
228
+ }
229
+
230
+ void test_load_store() const
231
+ {
232
+ bool_array_type res;
233
+ batch_bool_type b(batch_bool_type::load_unaligned(ba.data()));
234
+ b.store_unaligned(res.data());
235
+ CHECK_EQ(res, ba);
236
+
237
+ alignas(xsimd::default_arch::alignment()) bool_array_type arhs(this->ba);
238
+ alignas(xsimd::default_arch::alignment()) bool_array_type ares;
239
+ b = batch_bool_type::load_aligned(arhs.data());
240
+ b.store_aligned(ares.data());
241
+ CHECK_EQ(ares, arhs);
242
+ }
243
+
244
+ void test_any_all() const
245
+ {
246
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
247
+ // any
248
+ {
249
+ auto any_check_false = (batch_lhs() != batch_lhs());
250
+ bool any_res_false = xsimd::any(any_check_false);
251
+ CHECK_FALSE(any_res_false);
252
+ auto any_check_true = (batch_lhs() == batch_rhs());
253
+ bool any_res_true = xsimd::any(any_check_true);
254
+ CHECK_UNARY(any_res_true);
255
+
256
+ for (const auto& vec : bool_g.almost_all_false())
257
+ {
258
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
259
+ bool any_res = xsimd::any(b);
260
+ CHECK_UNARY(any_res);
261
+ }
262
+
263
+ for (const auto& vec : bool_g.almost_all_true())
264
+ {
265
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
266
+ bool any_res = xsimd::any(b);
267
+ CHECK_UNARY(any_res);
268
+ }
269
+ }
270
+ // all
271
+ {
272
+ auto all_check_false = (batch_lhs() == batch_rhs());
273
+ bool all_res_false = xsimd::all(all_check_false);
274
+ CHECK_FALSE(all_res_false);
275
+ auto all_check_true = (batch_lhs() == batch_lhs());
276
+ bool all_res_true = xsimd::all(all_check_true);
277
+ CHECK_UNARY(all_res_true);
278
+
279
+ for (const auto& vec : bool_g.almost_all_false())
280
+ {
281
+ // TODO: implement batch_bool(bool*)
282
+ // It currently compiles (need to understand why) but does not
283
+ // give expected result
284
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
285
+ bool all_res = xsimd::all(b);
286
+ CHECK_FALSE(all_res);
287
+ }
288
+
289
+ for (const auto& vec : bool_g.almost_all_true())
290
+ {
291
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
292
+ bool all_res = xsimd::all(b);
293
+ CHECK_FALSE(all_res);
294
+ }
295
+ }
296
+ // none
297
+ {
298
+ auto none_check_false = (batch_lhs() == batch_rhs());
299
+ bool none_res_false = xsimd::none(none_check_false);
300
+ CHECK_FALSE(none_res_false);
301
+ auto none_check_true = (batch_lhs() != batch_lhs());
302
+ bool none_res_true = xsimd::none(none_check_true);
303
+ CHECK_UNARY(none_res_true);
304
+
305
+ for (const auto& vec : bool_g.almost_all_false())
306
+ {
307
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
308
+ bool none_res = xsimd::none(b);
309
+ CHECK_FALSE(none_res);
310
+ }
311
+
312
+ for (const auto& vec : bool_g.almost_all_true())
313
+ {
314
+ batch_bool_type b = batch_bool_type::load_unaligned(vec.data());
315
+ bool none_res = xsimd::none(b);
316
+ CHECK_FALSE(none_res);
317
+ }
318
+ }
319
+ }
320
+
321
+ void test_logical_operations() const
322
+ {
323
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
324
+ size_t s = size;
325
+ // operator!=
326
+ {
327
+ bool res = xsimd::all(bool_g.half != bool_g.ihalf);
328
+ CHECK_UNARY(res);
329
+ }
330
+ // operator==
331
+ {
332
+ CHECK_BATCH_EQ(bool_g.half, !bool_g.ihalf);
333
+ }
334
+ // operator &&
335
+ {
336
+ batch_bool_type res = bool_g.half && bool_g.ihalf;
337
+ bool_array_type ares;
338
+ res.store_unaligned(ares.data());
339
+ size_t nb_false = std::count(ares.cbegin(), ares.cend(), false);
340
+ CHECK_EQ(nb_false, s);
341
+ }
342
+ // operator ||
343
+ {
344
+ batch_bool_type res = bool_g.half || bool_g.ihalf;
345
+ bool_array_type ares;
346
+ res.store_unaligned(ares.data());
347
+ size_t nb_true = std::count(ares.cbegin(), ares.cend(), true);
348
+ CHECK_EQ(nb_true, s);
349
+ }
350
+ // operator ^
351
+ {
352
+ batch_bool_type res = bool_g.half ^ bool_g.ihalf;
353
+ bool_array_type ares;
354
+ res.store_unaligned(ares.data());
355
+ size_t nb_true = std::count(ares.cbegin(), ares.cend(), true);
356
+ CHECK_EQ(nb_true, s);
357
+ }
358
+ // bitwise_andnot
359
+ {
360
+ batch_bool_type res = xsimd::bitwise_andnot(bool_g.half, bool_g.half);
361
+ bool_array_type ares;
362
+ res.store_unaligned(ares.data());
363
+ size_t nb_false = std::count(ares.cbegin(), ares.cend(), false);
364
+ CHECK_EQ(nb_false, s);
365
+ }
366
+ }
367
+
368
+ void test_bitwise_operations() const
369
+ {
370
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
371
+ // operator version
372
+ {
373
+ INFO("operator~");
374
+ CHECK_BATCH_EQ(bool_g.half, ~bool_g.ihalf);
375
+ }
376
+ {
377
+ INFO("operator|");
378
+ CHECK_BATCH_EQ(bool_g.half | bool_g.ihalf, bool_g.all_true);
379
+ }
380
+ {
381
+ INFO("operator&");
382
+ CHECK_BATCH_EQ(bool_g.half & bool_g.ihalf, bool_g.all_false);
383
+ }
384
+ {
385
+ INFO("operator^");
386
+ CHECK_BATCH_EQ(bool_g.half ^ bool_g.all_true, bool_g.ihalf);
387
+ }
388
+ // free function version
389
+ {
390
+ INFO("bitwise_not");
391
+ CHECK_BATCH_EQ(bool_g.half, xsimd::bitwise_not(bool_g.ihalf));
392
+ }
393
+ {
394
+ INFO("bitwise_or");
395
+ CHECK_BATCH_EQ(xsimd::bitwise_or(bool_g.half, bool_g.ihalf), bool_g.all_true);
396
+ }
397
+ {
398
+ INFO("bitwise_and");
399
+ CHECK_BATCH_EQ(xsimd::bitwise_and(bool_g.half, bool_g.ihalf), bool_g.all_false);
400
+ }
401
+ {
402
+ INFO("bitwise_xor");
403
+ CHECK_BATCH_EQ(xsimd::bitwise_xor(bool_g.half, bool_g.all_true), bool_g.ihalf);
404
+ }
405
+ }
406
+
407
+ void test_update_operations() const
408
+ {
409
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
410
+ {
411
+ auto tmp = bool_g.half;
412
+ tmp |= bool_g.ihalf;
413
+ bool res = xsimd::all(tmp);
414
+ INFO("operator|=");
415
+ CHECK_UNARY(res);
416
+ }
417
+ {
418
+ auto tmp = bool_g.half;
419
+ tmp &= bool_g.half;
420
+ INFO("operator&=");
421
+ CHECK_BATCH_EQ(tmp, bool_g.half);
422
+ }
423
+ {
424
+ auto tmp = bool_g.half;
425
+ tmp ^= bool_g.ihalf;
426
+ bool res = xsimd::all(tmp);
427
+ INFO("operator^=");
428
+ CHECK_UNARY(res);
429
+ }
430
+ }
431
+
432
+ void test_mask() const
433
+ {
434
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
435
+ const uint64_t full_mask = ((uint64_t)-1) >> (64 - batch_bool_type::size);
436
+ CHECK_EQ(bool_g.all_false.mask(), 0);
437
+ CHECK_EQ(batch_bool_type::from_mask(bool_g.all_false.mask()).mask(), bool_g.all_false.mask());
438
+
439
+ CHECK_EQ(bool_g.all_true.mask(), full_mask);
440
+ CHECK_EQ(batch_bool_type::from_mask(bool_g.all_true.mask()).mask(), bool_g.all_true.mask());
441
+
442
+ CHECK_EQ(bool_g.half.mask(), full_mask & ((uint64_t)-1) << (batch_bool_type::size / 2));
443
+ CHECK_EQ(batch_bool_type::from_mask(bool_g.half.mask()).mask(), bool_g.half.mask());
444
+
445
+ CHECK_EQ(bool_g.ihalf.mask(), full_mask & ~(((uint64_t)-1) << (batch_bool_type::size / 2)));
446
+ CHECK_EQ(batch_bool_type::from_mask(bool_g.ihalf.mask()).mask(), bool_g.ihalf.mask());
447
+
448
+ CHECK_EQ(bool_g.interspersed.mask(), full_mask & 0xAAAAAAAAAAAAAAAAul);
449
+ CHECK_EQ(batch_bool_type::from_mask(bool_g.interspersed.mask()).mask(), bool_g.interspersed.mask());
450
+ }
451
+
452
+ void test_count() const
453
+ {
454
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
455
+ CHECK_EQ(count(bool_g.all_false), 0);
456
+ CHECK_EQ(count(bool_g.all_true), batch_bool_type::size);
457
+ CHECK_EQ(count(bool_g.half), batch_bool_type::size / 2);
458
+ }
459
+
460
+ void test_comparison() const
461
+ {
462
+ auto bool_g = xsimd::get_bool<batch_bool_type> {};
463
+ // eq
464
+ {
465
+ CHECK_BATCH_EQ(bool_g.half, !bool_g.ihalf);
466
+ CHECK_BATCH_EQ(xsimd::eq(bool_g.half, !bool_g.ihalf), bool_g.all_true);
467
+ }
468
+ // neq
469
+ {
470
+ CHECK_BATCH_EQ(xsimd::neq(bool_g.half, bool_g.ihalf), bool_g.all_true);
471
+ }
472
+ }
473
+
474
+ private:
475
+ batch_type batch_lhs() const
476
+ {
477
+ return batch_type::load_unaligned(lhs.data());
478
+ }
479
+
480
+ batch_type batch_rhs() const
481
+ {
482
+ return batch_type::load_unaligned(rhs.data());
483
+ }
484
+ };
485
+
486
+ TEST_CASE_TEMPLATE("[xsimd batch bool]", B, BATCH_TYPES)
487
+ {
488
+ batch_bool_test<B> Test;
489
+
490
+ SUBCASE("constructors") { Test.test_constructors(); }
491
+
492
+ SUBCASE("load store") { Test.test_load_store(); }
493
+
494
+ SUBCASE("any all") { Test.test_any_all(); }
495
+
496
+ SUBCASE("logical operations") { Test.test_logical_operations(); }
497
+
498
+ SUBCASE("bitwise operations") { Test.test_bitwise_operations(); }
499
+
500
+ SUBCASE("update operations") { Test.test_update_operations(); }
501
+
502
+ SUBCASE("mask") { Test.test_mask(); }
503
+
504
+ SUBCASE("count") { Test.test_count(); }
505
+
506
+ SUBCASE("eq neq") { Test.test_comparison(); }
507
+ }
508
+ #endif