Pgenlib 0.90.2__tar.gz → 0.91.0__tar.gz

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Files changed (283) hide show
  1. {Pgenlib-0.90.2/src/Pgenlib.egg-info → pgenlib-0.91.0}/PKG-INFO +7 -2
  2. {Pgenlib-0.90.2 → pgenlib-0.91.0}/README.md +5 -1
  3. pgenlib-0.91.0/pyproject.toml +9 -0
  4. {Pgenlib-0.90.2 → pgenlib-0.91.0}/setup.py +5 -2
  5. {Pgenlib-0.90.2 → pgenlib-0.91.0/src/Pgenlib.egg-info}/PKG-INFO +7 -2
  6. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/Pgenlib.egg-info/SOURCES.txt +6 -122
  7. pgenlib-0.91.0/src/Pgenlib.egg-info/requires.txt +1 -0
  8. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/pgenlib/pgenlib.cpp +3207 -2668
  9. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_misc.cc +16 -0
  10. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_misc.h +59 -18
  11. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_read.cc +331 -21
  12. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_read.h +22 -6
  13. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_write.cc +148 -22
  14. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/pgenlib_write.h +23 -5
  15. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_base.cc +1 -1
  16. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_base.h +28 -3
  17. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_bgzf.cc +6 -5
  18. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/hedley.h +1 -0
  19. pgenlib-0.91.0/src/plink2/simde/simde-aes.h +266 -0
  20. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-align.h +3 -3
  21. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-arch.h +95 -2
  22. pgenlib-0.91.0/src/plink2/simde/simde-bf16.h +131 -0
  23. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-common.h +126 -16
  24. pgenlib-0.91.0/src/plink2/simde/simde-complex.h +148 -0
  25. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-detect-clang.h +9 -3
  26. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-diagnostic.h +1 -1
  27. pgenlib-0.91.0/src/plink2/simde/simde-f16.h +321 -0
  28. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-features.h +71 -6
  29. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-math.h +106 -10
  30. pgenlib-0.91.0/src/plink2/simde/x86/aes.h +417 -0
  31. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/avx.h +16 -3
  32. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/avx2.h +7 -5
  33. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/clmul.h +41 -78
  34. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/f16c.h +33 -8
  35. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/fma.h +2 -2
  36. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/gfni.h +1 -1
  37. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/mmx.h +5 -5
  38. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/sse.h +41 -30
  39. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/sse2.h +60 -9
  40. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/sse3.h +1 -1
  41. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/sse4.1.h +16 -8
  42. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/svml.h +18 -26
  43. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/xop.h +1 -1
  44. Pgenlib-0.90.2/pyproject.toml +0 -3
  45. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/2intersect.h +0 -250
  46. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/4dpwssd.h +0 -67
  47. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/4dpwssds.h +0 -67
  48. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/abs.h +0 -580
  49. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/add.h +0 -641
  50. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/adds.h +0 -529
  51. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/and.h +0 -305
  52. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/andnot.h +0 -193
  53. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/avg.h +0 -258
  54. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/bitshuffle.h +0 -202
  55. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/blend.h +0 -293
  56. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/broadcast.h +0 -897
  57. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cast.h +0 -324
  58. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmp.h +0 -649
  59. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmpeq.h +0 -241
  60. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmpge.h +0 -1434
  61. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmpgt.h +0 -212
  62. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmple.h +0 -1432
  63. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmplt.h +0 -123
  64. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cmpneq.h +0 -490
  65. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/compress.h +0 -755
  66. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/conflict.h +0 -351
  67. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/copysign.h +0 -86
  68. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cvt.h +0 -306
  69. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cvts.h +0 -723
  70. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/cvtt.h +0 -104
  71. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dbsad.h +0 -388
  72. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/div.h +0 -162
  73. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dpbf16.h +0 -281
  74. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dpbusd.h +0 -292
  75. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dpbusds.h +0 -344
  76. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dpwssd.h +0 -269
  77. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/dpwssds.h +0 -299
  78. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/expand.h +0 -97
  79. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/extract.h +0 -214
  80. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fixupimm.h +0 -900
  81. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fixupimm_round.h +0 -687
  82. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/flushsubnormal.h +0 -91
  83. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fmadd.h +0 -136
  84. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fmsub.h +0 -276
  85. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fnmadd.h +0 -108
  86. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/fnmsub.h +0 -108
  87. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/insert.h +0 -490
  88. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/knot.h +0 -106
  89. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/kshift.h +0 -152
  90. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/kxor.h +0 -107
  91. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/load.h +0 -98
  92. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/loadu.h +0 -177
  93. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/lzcnt.h +0 -220
  94. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/madd.h +0 -157
  95. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/maddubs.h +0 -159
  96. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/max.h +0 -587
  97. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/min.h +0 -587
  98. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mov.h +0 -859
  99. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mov_mask.h +0 -372
  100. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/movm.h +0 -460
  101. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mul.h +0 -279
  102. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mulhi.h +0 -65
  103. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mulhrs.h +0 -65
  104. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/mullo.h +0 -169
  105. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/multishift.h +0 -170
  106. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/negate.h +0 -88
  107. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/or.h +0 -308
  108. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/packs.h +0 -122
  109. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/packus.h +0 -122
  110. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/permutex2var.h +0 -1645
  111. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/permutexvar.h +0 -1180
  112. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/popcnt.h +0 -1346
  113. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/range.h +0 -745
  114. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/range_round.h +0 -686
  115. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/rol.h +0 -410
  116. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/rolv.h +0 -415
  117. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/ror.h +0 -410
  118. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/rorv.h +0 -391
  119. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/round.h +0 -282
  120. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/roundscale.h +0 -616
  121. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/roundscale_round.h +0 -690
  122. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sad.h +0 -77
  123. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/scalef.h +0 -389
  124. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/set.h +0 -490
  125. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/set1.h +0 -331
  126. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/set4.h +0 -140
  127. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/setone.h +0 -66
  128. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/setr.h +0 -144
  129. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/setr4.h +0 -140
  130. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/setzero.h +0 -90
  131. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/shldv.h +0 -157
  132. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/shuffle.h +0 -272
  133. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sll.h +0 -247
  134. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/slli.h +0 -179
  135. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sllv.h +0 -122
  136. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sqrt.h +0 -127
  137. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sra.h +0 -81
  138. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/srai.h +0 -70
  139. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/srav.h +0 -67
  140. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/srl.h +0 -216
  141. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/srli.h +0 -180
  142. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/srlv.h +0 -282
  143. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/store.h +0 -93
  144. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/storeu.h +0 -174
  145. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/sub.h +0 -351
  146. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/subs.h +0 -222
  147. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/ternarylogic.h +0 -3769
  148. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/test.h +0 -232
  149. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/testn.h +0 -63
  150. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/types.h +0 -703
  151. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/unpackhi.h +0 -753
  152. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/unpacklo.h +0 -752
  153. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/xor.h +0 -319
  154. Pgenlib-0.90.2/src/plink2/simde/x86/avx512/xorsign.h +0 -72
  155. Pgenlib-0.90.2/src/plink2/simde/x86/avx512.h +0 -142
  156. {Pgenlib-0.90.2 → pgenlib-0.91.0}/LICENSE +0 -0
  157. {Pgenlib-0.90.2 → pgenlib-0.91.0}/MANIFEST.in +0 -0
  158. {Pgenlib-0.90.2 → pgenlib-0.91.0}/setup.cfg +0 -0
  159. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/Pgenlib.egg-info/dependency_links.txt +0 -0
  160. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/Pgenlib.egg-info/top_level.txt +0 -0
  161. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/pgenlib/pgenlib.pyx +0 -0
  162. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_bgzf.h +0 -0
  163. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_bits.cc +0 -0
  164. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_bits.h +0 -0
  165. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_string.cc +0 -0
  166. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_string.h +0 -0
  167. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_text.cc +0 -0
  168. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_text.h +0 -0
  169. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_thread.cc +0 -0
  170. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_thread.h +0 -0
  171. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_zstfile.cc +0 -0
  172. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/include/plink2_zstfile.h +0 -0
  173. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/common_defs.h +0 -0
  174. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/adler32.c +0 -0
  175. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/adler32_vec_template.h +0 -0
  176. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/adler32_impl.h +0 -0
  177. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/arm_cpu_features.c +0 -0
  178. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/cpu_features.h +0 -0
  179. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/crc32_impl.h +0 -0
  180. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/crc32_pmull_helpers.h +0 -0
  181. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/crc32_pmull_wide.h +0 -0
  182. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/arm/matchfinder_impl.h +0 -0
  183. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/bt_matchfinder.h +0 -0
  184. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/cpu_features_common.h +0 -0
  185. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/crc32.c +0 -0
  186. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/crc32_multipliers.h +0 -0
  187. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/crc32_tables.h +0 -0
  188. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/decompress_template.h +0 -0
  189. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/deflate_compress.c +0 -0
  190. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/deflate_compress.h +0 -0
  191. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/deflate_constants.h +0 -0
  192. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/deflate_decompress.c +0 -0
  193. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/gzip_compress.c +0 -0
  194. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/gzip_constants.h +0 -0
  195. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/gzip_decompress.c +0 -0
  196. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/hc_matchfinder.h +0 -0
  197. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/ht_matchfinder.h +0 -0
  198. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/lib_common.h +0 -0
  199. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/matchfinder_common.h +0 -0
  200. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/utils.c +0 -0
  201. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/adler32_impl.h +0 -0
  202. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/cpu_features.h +0 -0
  203. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/crc32_impl.h +0 -0
  204. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/crc32_pclmul_template.h +0 -0
  205. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/decompress_impl.h +0 -0
  206. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/matchfinder_impl.h +0 -0
  207. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/x86/x86_cpu_features.c +0 -0
  208. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/zlib_compress.c +0 -0
  209. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/zlib_constants.h +0 -0
  210. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/lib/zlib_decompress.c +0 -0
  211. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/libdeflate/libdeflate.h +0 -0
  212. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/pgenlib_ffi_support.cc +0 -0
  213. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/pgenlib_ffi_support.h +0 -0
  214. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/pvar_ffi_support.cc +0 -0
  215. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/pvar_ffi_support.h +0 -0
  216. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/check.h +0 -0
  217. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/debug-trap.h +0 -0
  218. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/simde-constify.h +0 -0
  219. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/sse4.2.h +0 -0
  220. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/simde/x86/ssse3.h +0 -0
  221. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/allocations.h +0 -0
  222. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/bits.h +0 -0
  223. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/bitstream.h +0 -0
  224. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/compiler.h +0 -0
  225. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/cpu.h +0 -0
  226. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/debug.c +0 -0
  227. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/debug.h +0 -0
  228. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/entropy_common.c +0 -0
  229. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/error_private.c +0 -0
  230. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/error_private.h +0 -0
  231. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/fse.h +0 -0
  232. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/fse_decompress.c +0 -0
  233. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/huf.h +0 -0
  234. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/mem.h +0 -0
  235. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/pool.c +0 -0
  236. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/pool.h +0 -0
  237. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/portability_macros.h +0 -0
  238. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/threading.c +0 -0
  239. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/threading.h +0 -0
  240. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/xxhash.c +0 -0
  241. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/xxhash.h +0 -0
  242. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/zstd_common.c +0 -0
  243. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/zstd_deps.h +0 -0
  244. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/zstd_internal.h +0 -0
  245. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/common/zstd_trace.h +0 -0
  246. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/clevels.h +0 -0
  247. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/fse_compress.c +0 -0
  248. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/hist.c +0 -0
  249. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/hist.h +0 -0
  250. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/huf_compress.c +0 -0
  251. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress.c +0 -0
  252. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_internal.h +0 -0
  253. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_literals.c +0 -0
  254. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_literals.h +0 -0
  255. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_sequences.c +0 -0
  256. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_sequences.h +0 -0
  257. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_superblock.c +0 -0
  258. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_compress_superblock.h +0 -0
  259. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_cwksp.h +0 -0
  260. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_double_fast.c +0 -0
  261. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_double_fast.h +0 -0
  262. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_fast.c +0 -0
  263. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_fast.h +0 -0
  264. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_lazy.c +0 -0
  265. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_lazy.h +0 -0
  266. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_ldm.c +0 -0
  267. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_ldm.h +0 -0
  268. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_ldm_geartab.h +0 -0
  269. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_opt.c +0 -0
  270. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstd_opt.h +0 -0
  271. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstdmt_compress.c +0 -0
  272. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/compress/zstdmt_compress.h +0 -0
  273. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/huf_decompress.c +0 -0
  274. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_ddict.c +0 -0
  275. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_ddict.h +0 -0
  276. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_decompress.c +0 -0
  277. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_decompress_block.c +0 -0
  278. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_decompress_block.h +0 -0
  279. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/decompress/zstd_decompress_internal.h +0 -0
  280. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/zdict.h +0 -0
  281. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/zstd.h +0 -0
  282. {Pgenlib-0.90.2 → pgenlib-0.91.0}/src/plink2/zstd/lib/zstd_errors.h +0 -0
  283. {Pgenlib-0.90.2 → pgenlib-0.91.0}/tests/test_pgenlib.py +0 -0
{Pgenlib-0.90.2/src/Pgenlib.egg-info → pgenlib-0.91.0}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: Pgenlib
3
- Version: 0.90.2
3
+ Version: 0.91.0
4
4
  Summary: Python wrapper for pgenlib's basic reader and writer.
5
5
  Home-page: https://github.com/chrchang/plink-ng
6
6
  Author: Christopher Chang
@@ -12,12 +12,17 @@ Classifier: Operating System :: OS Independent
12
12
  Requires-Python: >=3.5
13
13
  Description-Content-Type: text/markdown
14
14
  License-File: LICENSE
15
+ Requires-Dist: numpy>=1.19.0
15
16
 
16
17
  This provides a basic Python API for pgenlib; see [python_api.txt](python_api.txt) for details.
17
18
 
18
19
 
19
20
  ### Build instructions
20
- PyPI: `pip install Pgenlib`
21
+ PyPI:
22
+ ```
23
+ pip install 'pip>=20.3'
24
+ pip install Pgenlib
25
+ ```
21
26
 
22
27
  To build from GitHub instead, clone the repository:
23
28
 
{Pgenlib-0.90.2 → pgenlib-0.91.0}/README.md RENAMED
@@ -2,7 +2,11 @@ This provides a basic Python API for pgenlib; see [python_api.txt](python_api.tx
2
2
 
3
3
 
4
4
  ### Build instructions
5
- PyPI: `pip install Pgenlib`
5
+ PyPI:
6
+ ```
7
+ pip install 'pip>=20.3'
8
+ pip install Pgenlib
9
+ ```
6
10
 
7
11
  To build from GitHub instead, clone the repository:
8
12
 
pgenlib-0.91.0/pyproject.toml ADDED
@@ -0,0 +1,9 @@
1
+ [build-system]
2
+ requires = [
3
+ "wheel",
4
+ "setuptools",
5
+ "Cython>=0.29.21",
6
+ "oldest-supported-numpy>=2022.8.16; python_version < '3.9'",
7
+ "numpy>=2.0.0; python_version >= '3.9'",
8
+ ]
9
+ build-backend = "setuptools.build_meta"
{Pgenlib-0.90.2 → pgenlib-0.91.0}/setup.py RENAMED
@@ -80,7 +80,7 @@ with open("README.md", "r", encoding="utf-8") as fh:
80
80
 
81
81
  setuptools.setup(
82
82
  name="Pgenlib",
83
- version="0.90.2",
83
+ version="0.91.0",
84
84
  author="Christopher Chang",
85
85
  author_email="chrchang@alumni.caltech.edu",
86
86
  description="Python wrapper for pgenlib's basic reader and writer.",
@@ -99,5 +99,8 @@ setuptools.setup(
99
99
  packages=setuptools.find_packages(where="src"),
100
100
  python_requires=">=3.5",
101
101
  libraries=[clib],
102
- ext_modules=cythonize(ext_modules)
102
+ ext_modules=cythonize(ext_modules),
103
+ install_requires = [
104
+ "numpy>=1.19.0",
105
+ ],
103
106
  )
{Pgenlib-0.90.2 → pgenlib-0.91.0/src/Pgenlib.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: Pgenlib
3
- Version: 0.90.2
3
+ Version: 0.91.0
4
4
  Summary: Python wrapper for pgenlib's basic reader and writer.
5
5
  Home-page: https://github.com/chrchang/plink-ng
6
6
  Author: Christopher Chang
@@ -12,12 +12,17 @@ Classifier: Operating System :: OS Independent
12
12
  Requires-Python: >=3.5
13
13
  Description-Content-Type: text/markdown
14
14
  License-File: LICENSE
15
+ Requires-Dist: numpy>=1.19.0
15
16
 
16
17
  This provides a basic Python API for pgenlib; see [python_api.txt](python_api.txt) for details.
17
18
 
18
19
 
19
20
  ### Build instructions
20
- PyPI: `pip install Pgenlib`
21
+ PyPI:
22
+ ```
23
+ pip install 'pip>=20.3'
24
+ pip install Pgenlib
25
+ ```
21
26
 
22
27
  To build from GitHub instead, clone the repository:
23
28
 
{Pgenlib-0.90.2 → pgenlib-0.91.0}/src/Pgenlib.egg-info/SOURCES.txt RENAMED
@@ -3,20 +3,10 @@ MANIFEST.in
3
3
  README.md
4
4
  pyproject.toml
5
5
  setup.py
6
- ../pgenlib_ffi_support.cc
7
- ../include/pgenlib_misc.cc
8
- ../include/pgenlib_misc.h
9
- ../include/pgenlib_read.cc
10
- ../include/pgenlib_read.h
11
- ../include/pgenlib_write.cc
12
- ../include/pgenlib_write.h
13
- ../include/plink2_base.cc
14
- ../include/plink2_base.h
15
- ../include/plink2_bits.cc
16
- ../include/plink2_bits.h
17
6
  src/Pgenlib.egg-info/PKG-INFO
18
7
  src/Pgenlib.egg-info/SOURCES.txt
19
8
  src/Pgenlib.egg-info/dependency_links.txt
9
+ src/Pgenlib.egg-info/requires.txt
20
10
  src/Pgenlib.egg-info/top_level.txt
21
11
  src/pgenlib/pgenlib.cpp
22
12
  src/pgenlib/pgenlib.pyx
@@ -86,17 +76,21 @@ src/plink2/libdeflate/lib/x86/x86_cpu_features.c
86
76
  src/plink2/simde/check.h
87
77
  src/plink2/simde/debug-trap.h
88
78
  src/plink2/simde/hedley.h
79
+ src/plink2/simde/simde-aes.h
89
80
  src/plink2/simde/simde-align.h
90
81
  src/plink2/simde/simde-arch.h
82
+ src/plink2/simde/simde-bf16.h
91
83
  src/plink2/simde/simde-common.h
84
+ src/plink2/simde/simde-complex.h
92
85
  src/plink2/simde/simde-constify.h
93
86
  src/plink2/simde/simde-detect-clang.h
94
87
  src/plink2/simde/simde-diagnostic.h
88
+ src/plink2/simde/simde-f16.h
95
89
  src/plink2/simde/simde-features.h
96
90
  src/plink2/simde/simde-math.h
91
+ src/plink2/simde/x86/aes.h
97
92
  src/plink2/simde/x86/avx.h
98
93
  src/plink2/simde/x86/avx2.h
99
- src/plink2/simde/x86/avx512.h
100
94
  src/plink2/simde/x86/clmul.h
101
95
  src/plink2/simde/x86/f16c.h
102
96
  src/plink2/simde/x86/fma.h
@@ -110,116 +104,6 @@ src/plink2/simde/x86/sse4.2.h
110
104
  src/plink2/simde/x86/ssse3.h
111
105
  src/plink2/simde/x86/svml.h
112
106
  src/plink2/simde/x86/xop.h
113
- src/plink2/simde/x86/avx512/2intersect.h
114
- src/plink2/simde/x86/avx512/4dpwssd.h
115
- src/plink2/simde/x86/avx512/4dpwssds.h
116
- src/plink2/simde/x86/avx512/abs.h
117
- src/plink2/simde/x86/avx512/add.h
118
- src/plink2/simde/x86/avx512/adds.h
119
- src/plink2/simde/x86/avx512/and.h
120
- src/plink2/simde/x86/avx512/andnot.h
121
- src/plink2/simde/x86/avx512/avg.h
122
- src/plink2/simde/x86/avx512/bitshuffle.h
123
- src/plink2/simde/x86/avx512/blend.h
124
- src/plink2/simde/x86/avx512/broadcast.h
125
- src/plink2/simde/x86/avx512/cast.h
126
- src/plink2/simde/x86/avx512/cmp.h
127
- src/plink2/simde/x86/avx512/cmpeq.h
128
- src/plink2/simde/x86/avx512/cmpge.h
129
- src/plink2/simde/x86/avx512/cmpgt.h
130
- src/plink2/simde/x86/avx512/cmple.h
131
- src/plink2/simde/x86/avx512/cmplt.h
132
- src/plink2/simde/x86/avx512/cmpneq.h
133
- src/plink2/simde/x86/avx512/compress.h
134
- src/plink2/simde/x86/avx512/conflict.h
135
- src/plink2/simde/x86/avx512/copysign.h
136
- src/plink2/simde/x86/avx512/cvt.h
137
- src/plink2/simde/x86/avx512/cvts.h
138
- src/plink2/simde/x86/avx512/cvtt.h
139
- src/plink2/simde/x86/avx512/dbsad.h
140
- src/plink2/simde/x86/avx512/div.h
141
- src/plink2/simde/x86/avx512/dpbf16.h
142
- src/plink2/simde/x86/avx512/dpbusd.h
143
- src/plink2/simde/x86/avx512/dpbusds.h
144
- src/plink2/simde/x86/avx512/dpwssd.h
145
- src/plink2/simde/x86/avx512/dpwssds.h
146
- src/plink2/simde/x86/avx512/expand.h
147
- src/plink2/simde/x86/avx512/extract.h
148
- src/plink2/simde/x86/avx512/fixupimm.h
149
- src/plink2/simde/x86/avx512/fixupimm_round.h
150
- src/plink2/simde/x86/avx512/flushsubnormal.h
151
- src/plink2/simde/x86/avx512/fmadd.h
152
- src/plink2/simde/x86/avx512/fmsub.h
153
- src/plink2/simde/x86/avx512/fnmadd.h
154
- src/plink2/simde/x86/avx512/fnmsub.h
155
- src/plink2/simde/x86/avx512/insert.h
156
- src/plink2/simde/x86/avx512/knot.h
157
- src/plink2/simde/x86/avx512/kshift.h
158
- src/plink2/simde/x86/avx512/kxor.h
159
- src/plink2/simde/x86/avx512/load.h
160
- src/plink2/simde/x86/avx512/loadu.h
161
- src/plink2/simde/x86/avx512/lzcnt.h
162
- src/plink2/simde/x86/avx512/madd.h
163
- src/plink2/simde/x86/avx512/maddubs.h
164
- src/plink2/simde/x86/avx512/max.h
165
- src/plink2/simde/x86/avx512/min.h
166
- src/plink2/simde/x86/avx512/mov.h
167
- src/plink2/simde/x86/avx512/mov_mask.h
168
- src/plink2/simde/x86/avx512/movm.h
169
- src/plink2/simde/x86/avx512/mul.h
170
- src/plink2/simde/x86/avx512/mulhi.h
171
- src/plink2/simde/x86/avx512/mulhrs.h
172
- src/plink2/simde/x86/avx512/mullo.h
173
- src/plink2/simde/x86/avx512/multishift.h
174
- src/plink2/simde/x86/avx512/negate.h
175
- src/plink2/simde/x86/avx512/or.h
176
- src/plink2/simde/x86/avx512/packs.h
177
- src/plink2/simde/x86/avx512/packus.h
178
- src/plink2/simde/x86/avx512/permutex2var.h
179
- src/plink2/simde/x86/avx512/permutexvar.h
180
- src/plink2/simde/x86/avx512/popcnt.h
181
- src/plink2/simde/x86/avx512/range.h
182
- src/plink2/simde/x86/avx512/range_round.h
183
- src/plink2/simde/x86/avx512/rol.h
184
- src/plink2/simde/x86/avx512/rolv.h
185
- src/plink2/simde/x86/avx512/ror.h
186
- src/plink2/simde/x86/avx512/rorv.h
187
- src/plink2/simde/x86/avx512/round.h
188
- src/plink2/simde/x86/avx512/roundscale.h
189
- src/plink2/simde/x86/avx512/roundscale_round.h
190
- src/plink2/simde/x86/avx512/sad.h
191
- src/plink2/simde/x86/avx512/scalef.h
192
- src/plink2/simde/x86/avx512/set.h
193
- src/plink2/simde/x86/avx512/set1.h
194
- src/plink2/simde/x86/avx512/set4.h
195
- src/plink2/simde/x86/avx512/setone.h
196
- src/plink2/simde/x86/avx512/setr.h
197
- src/plink2/simde/x86/avx512/setr4.h
198
- src/plink2/simde/x86/avx512/setzero.h
199
- src/plink2/simde/x86/avx512/shldv.h
200
- src/plink2/simde/x86/avx512/shuffle.h
201
- src/plink2/simde/x86/avx512/sll.h
202
- src/plink2/simde/x86/avx512/slli.h
203
- src/plink2/simde/x86/avx512/sllv.h
204
- src/plink2/simde/x86/avx512/sqrt.h
205
- src/plink2/simde/x86/avx512/sra.h
206
- src/plink2/simde/x86/avx512/srai.h
207
- src/plink2/simde/x86/avx512/srav.h
208
- src/plink2/simde/x86/avx512/srl.h
209
- src/plink2/simde/x86/avx512/srli.h
210
- src/plink2/simde/x86/avx512/srlv.h
211
- src/plink2/simde/x86/avx512/store.h
212
- src/plink2/simde/x86/avx512/storeu.h
213
- src/plink2/simde/x86/avx512/sub.h
214
- src/plink2/simde/x86/avx512/subs.h
215
- src/plink2/simde/x86/avx512/ternarylogic.h
216
- src/plink2/simde/x86/avx512/test.h
217
- src/plink2/simde/x86/avx512/testn.h
218
- src/plink2/simde/x86/avx512/types.h
219
- src/plink2/simde/x86/avx512/unpackhi.h
220
- src/plink2/simde/x86/avx512/unpacklo.h
221
- src/plink2/simde/x86/avx512/xor.h
222
- src/plink2/simde/x86/avx512/xorsign.h
223
107
  src/plink2/zstd/lib/zdict.h
224
108
  src/plink2/zstd/lib/zstd.h
225
109
  src/plink2/zstd/lib/zstd_errors.h
pgenlib-0.91.0/src/Pgenlib.egg-info/requires.txt ADDED
@@ -0,0 +1 @@
1
+ numpy>=1.19.0