ratapi 0.0.0.dev7__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 (532) hide show
  1. ratapi-0.0.0.dev7/MANIFEST.in +5 -0
  2. ratapi-0.0.0.dev7/PKG-INFO +42 -0
  3. ratapi-0.0.0.dev7/README.md +24 -0
  4. ratapi-0.0.0.dev7/cpp/RAT/CoderTimeAPI.cpp +25 -0
  5. ratapi-0.0.0.dev7/cpp/RAT/CoderTimeAPI.h +26 -0
  6. ratapi-0.0.0.dev7/cpp/RAT/DREAM.cpp +1006 -0
  7. ratapi-0.0.0.dev7/cpp/RAT/DREAM.h +44 -0
  8. ratapi-0.0.0.dev7/cpp/RAT/DREAMWrapper.cpp +66 -0
  9. ratapi-0.0.0.dev7/cpp/RAT/DREAMWrapper.h +36 -0
  10. ratapi-0.0.0.dev7/cpp/RAT/RATMain.a +0 -0
  11. ratapi-0.0.0.dev7/cpp/RAT/RATMain.cpp +976 -0
  12. ratapi-0.0.0.dev7/cpp/RAT/RATMain.h +28 -0
  13. ratapi-0.0.0.dev7/cpp/RAT/RATMain_data.cpp +173 -0
  14. ratapi-0.0.0.dev7/cpp/RAT/RATMain_data.h +35 -0
  15. ratapi-0.0.0.dev7/cpp/RAT/RATMain_initialize.cpp +38 -0
  16. ratapi-0.0.0.dev7/cpp/RAT/RATMain_initialize.h +26 -0
  17. ratapi-0.0.0.dev7/cpp/RAT/RATMain_internal_types.h +218 -0
  18. ratapi-0.0.0.dev7/cpp/RAT/RATMain_rtwutil.cpp +111 -0
  19. ratapi-0.0.0.dev7/cpp/RAT/RATMain_rtwutil.h +28 -0
  20. ratapi-0.0.0.dev7/cpp/RAT/RATMain_terminate.cpp +26 -0
  21. ratapi-0.0.0.dev7/cpp/RAT/RATMain_terminate.h +26 -0
  22. ratapi-0.0.0.dev7/cpp/RAT/RATMain_types.h +283 -0
  23. ratapi-0.0.0.dev7/cpp/RAT/README.md +1 -0
  24. ratapi-0.0.0.dev7/cpp/RAT/SLDFunction.cpp +253 -0
  25. ratapi-0.0.0.dev7/cpp/RAT/SLDFunction.h +28 -0
  26. ratapi-0.0.0.dev7/cpp/RAT/abelesParallelPoints.cpp +292 -0
  27. ratapi-0.0.0.dev7/cpp/RAT/abelesParallelPoints.h +30 -0
  28. ratapi-0.0.0.dev7/cpp/RAT/abelesSingle.cpp +290 -0
  29. ratapi-0.0.0.dev7/cpp/RAT/abelesSingle.h +30 -0
  30. ratapi-0.0.0.dev7/cpp/RAT/abs.cpp +68 -0
  31. ratapi-0.0.0.dev7/cpp/RAT/abs.h +35 -0
  32. ratapi-0.0.0.dev7/cpp/RAT/acos.cpp +97 -0
  33. ratapi-0.0.0.dev7/cpp/RAT/acos.h +35 -0
  34. ratapi-0.0.0.dev7/cpp/RAT/adaptPCR.cpp +86 -0
  35. ratapi-0.0.0.dev7/cpp/RAT/adaptPCR.h +36 -0
  36. ratapi-0.0.0.dev7/cpp/RAT/adaptive.cpp +1011 -0
  37. ratapi-0.0.0.dev7/cpp/RAT/adaptive.h +34 -0
  38. ratapi-0.0.0.dev7/cpp/RAT/all.cpp +45 -0
  39. ratapi-0.0.0.dev7/cpp/RAT/all.h +31 -0
  40. ratapi-0.0.0.dev7/cpp/RAT/allOrAny.cpp +84 -0
  41. ratapi-0.0.0.dev7/cpp/RAT/allOrAny.h +36 -0
  42. ratapi-0.0.0.dev7/cpp/RAT/allocateLayersForContrast.cpp +52 -0
  43. ratapi-0.0.0.dev7/cpp/RAT/allocateLayersForContrast.h +30 -0
  44. ratapi-0.0.0.dev7/cpp/RAT/allocateParamsToLayers.cpp +73 -0
  45. ratapi-0.0.0.dev7/cpp/RAT/allocateParamsToLayers.h +31 -0
  46. ratapi-0.0.0.dev7/cpp/RAT/anyNonFinite.cpp +44 -0
  47. ratapi-0.0.0.dev7/cpp/RAT/anyNonFinite.h +33 -0
  48. ratapi-0.0.0.dev7/cpp/RAT/applyBackgroundCorrection.cpp +306 -0
  49. ratapi-0.0.0.dev7/cpp/RAT/applyBackgroundCorrection.h +31 -0
  50. ratapi-0.0.0.dev7/cpp/RAT/applyHydration.cpp +69 -0
  51. ratapi-0.0.0.dev7/cpp/RAT/applyHydration.h +28 -0
  52. ratapi-0.0.0.dev7/cpp/RAT/asinh.cpp +54 -0
  53. ratapi-0.0.0.dev7/cpp/RAT/asinh.h +35 -0
  54. ratapi-0.0.0.dev7/cpp/RAT/asymconvstep.cpp +171 -0
  55. ratapi-0.0.0.dev7/cpp/RAT/asymconvstep.h +31 -0
  56. ratapi-0.0.0.dev7/cpp/RAT/backSort.cpp +52 -0
  57. ratapi-0.0.0.dev7/cpp/RAT/backSort.h +31 -0
  58. ratapi-0.0.0.dev7/cpp/RAT/blockedSummation.cpp +485 -0
  59. ratapi-0.0.0.dev7/cpp/RAT/blockedSummation.h +41 -0
  60. ratapi-0.0.0.dev7/cpp/RAT/boundaryHandling.cpp +289 -0
  61. ratapi-0.0.0.dev7/cpp/RAT/boundaryHandling.h +31 -0
  62. ratapi-0.0.0.dev7/cpp/RAT/bsearch.cpp +89 -0
  63. ratapi-0.0.0.dev7/cpp/RAT/bsearch.h +35 -0
  64. ratapi-0.0.0.dev7/cpp/RAT/calcEllipsoid.cpp +210 -0
  65. ratapi-0.0.0.dev7/cpp/RAT/calcEllipsoid.h +29 -0
  66. ratapi-0.0.0.dev7/cpp/RAT/calcLogLikelihood.cpp +72 -0
  67. ratapi-0.0.0.dev7/cpp/RAT/calcLogLikelihood.h +37 -0
  68. ratapi-0.0.0.dev7/cpp/RAT/calcLogPrior.cpp +119 -0
  69. ratapi-0.0.0.dev7/cpp/RAT/calcLogPrior.h +28 -0
  70. ratapi-0.0.0.dev7/cpp/RAT/calcProposal.cpp +456 -0
  71. ratapi-0.0.0.dev7/cpp/RAT/calcProposal.h +39 -0
  72. ratapi-0.0.0.dev7/cpp/RAT/callCppFunction.cpp +421 -0
  73. ratapi-0.0.0.dev7/cpp/RAT/callCppFunction.h +42 -0
  74. ratapi-0.0.0.dev7/cpp/RAT/callReflectivity.cpp +284 -0
  75. ratapi-0.0.0.dev7/cpp/RAT/callReflectivity.h +40 -0
  76. ratapi-0.0.0.dev7/cpp/RAT/cat.cpp +56 -0
  77. ratapi-0.0.0.dev7/cpp/RAT/cat.h +29 -0
  78. ratapi-0.0.0.dev7/cpp/RAT/chiSquared.cpp +83 -0
  79. ratapi-0.0.0.dev7/cpp/RAT/chiSquared.h +28 -0
  80. ratapi-0.0.0.dev7/cpp/RAT/classHandle.hpp +72 -0
  81. ratapi-0.0.0.dev7/cpp/RAT/coderException.hpp +19 -0
  82. ratapi-0.0.0.dev7/cpp/RAT/coderFread.cpp +40 -0
  83. ratapi-0.0.0.dev7/cpp/RAT/coderFread.h +33 -0
  84. ratapi-0.0.0.dev7/cpp/RAT/coder_array.h +908 -0
  85. ratapi-0.0.0.dev7/cpp/RAT/coder_bounded_array.h +31 -0
  86. ratapi-0.0.0.dev7/cpp/RAT/coder_posix_time.c +162 -0
  87. ratapi-0.0.0.dev7/cpp/RAT/coder_posix_time.h +73 -0
  88. ratapi-0.0.0.dev7/cpp/RAT/coder_setenv.c +22 -0
  89. ratapi-0.0.0.dev7/cpp/RAT/coder_setenv.h +15 -0
  90. ratapi-0.0.0.dev7/cpp/RAT/colon.cpp +123 -0
  91. ratapi-0.0.0.dev7/cpp/RAT/colon.h +32 -0
  92. ratapi-0.0.0.dev7/cpp/RAT/combineVectorElements.cpp +161 -0
  93. ratapi-0.0.0.dev7/cpp/RAT/combineVectorElements.h +39 -0
  94. ratapi-0.0.0.dev7/cpp/RAT/complexTimes.cpp +146 -0
  95. ratapi-0.0.0.dev7/cpp/RAT/complexTimes.h +35 -0
  96. ratapi-0.0.0.dev7/cpp/RAT/computeNormMTridiagonal.cpp +73 -0
  97. ratapi-0.0.0.dev7/cpp/RAT/computeNormMTridiagonal.h +37 -0
  98. ratapi-0.0.0.dev7/cpp/RAT/constructBackground.cpp +389 -0
  99. ratapi-0.0.0.dev7/cpp/RAT/constructBackground.h +41 -0
  100. ratapi-0.0.0.dev7/cpp/RAT/constructResolution.cpp +126 -0
  101. ratapi-0.0.0.dev7/cpp/RAT/constructResolution.h +32 -0
  102. ratapi-0.0.0.dev7/cpp/RAT/coreLayersCalculation.cpp +381 -0
  103. ratapi-0.0.0.dev7/cpp/RAT/coreLayersCalculation.h +55 -0
  104. ratapi-0.0.0.dev7/cpp/RAT/cov.cpp +149 -0
  105. ratapi-0.0.0.dev7/cpp/RAT/cov.h +30 -0
  106. ratapi-0.0.0.dev7/cpp/RAT/customLayers.cpp +829 -0
  107. ratapi-0.0.0.dev7/cpp/RAT/customLayers.h +61 -0
  108. ratapi-0.0.0.dev7/cpp/RAT/customLayers1.cpp +968 -0
  109. ratapi-0.0.0.dev7/cpp/RAT/customLayers1.h +63 -0
  110. ratapi-0.0.0.dev7/cpp/RAT/customXY.cpp +522 -0
  111. ratapi-0.0.0.dev7/cpp/RAT/customXY.h +48 -0
  112. ratapi-0.0.0.dev7/cpp/RAT/customXY1.cpp +832 -0
  113. ratapi-0.0.0.dev7/cpp/RAT/customXY1.h +48 -0
  114. ratapi-0.0.0.dev7/cpp/RAT/deopt.cpp +2076 -0
  115. ratapi-0.0.0.dev7/cpp/RAT/deopt.h +42 -0
  116. ratapi-0.0.0.dev7/cpp/RAT/det.cpp +68 -0
  117. ratapi-0.0.0.dev7/cpp/RAT/det.h +30 -0
  118. ratapi-0.0.0.dev7/cpp/RAT/diag.cpp +134 -0
  119. ratapi-0.0.0.dev7/cpp/RAT/diag.h +33 -0
  120. ratapi-0.0.0.dev7/cpp/RAT/discretize.cpp +91 -0
  121. ratapi-0.0.0.dev7/cpp/RAT/discretize.h +33 -0
  122. ratapi-0.0.0.dev7/cpp/RAT/drawCR.cpp +141 -0
  123. ratapi-0.0.0.dev7/cpp/RAT/drawCR.h +34 -0
  124. ratapi-0.0.0.dev7/cpp/RAT/drawEllipsoidPoints.cpp +146 -0
  125. ratapi-0.0.0.dev7/cpp/RAT/drawEllipsoidPoints.h +28 -0
  126. ratapi-0.0.0.dev7/cpp/RAT/drawMCMC.cpp +353 -0
  127. ratapi-0.0.0.dev7/cpp/RAT/drawMCMC.h +38 -0
  128. ratapi-0.0.0.dev7/cpp/RAT/drawMultiNest.cpp +176 -0
  129. ratapi-0.0.0.dev7/cpp/RAT/drawMultiNest.h +38 -0
  130. ratapi-0.0.0.dev7/cpp/RAT/dylib.hpp +320 -0
  131. ratapi-0.0.0.dev7/cpp/RAT/eig.cpp +73 -0
  132. ratapi-0.0.0.dev7/cpp/RAT/eig.h +31 -0
  133. ratapi-0.0.0.dev7/cpp/RAT/eigHermitianStandard.cpp +69 -0
  134. ratapi-0.0.0.dev7/cpp/RAT/eigHermitianStandard.h +31 -0
  135. ratapi-0.0.0.dev7/cpp/RAT/eigRealSkewSymmetricStandard.cpp +88 -0
  136. ratapi-0.0.0.dev7/cpp/RAT/eigRealSkewSymmetricStandard.h +31 -0
  137. ratapi-0.0.0.dev7/cpp/RAT/eigSkewHermitianStandard.cpp +98 -0
  138. ratapi-0.0.0.dev7/cpp/RAT/eigSkewHermitianStandard.h +31 -0
  139. ratapi-0.0.0.dev7/cpp/RAT/eigStandard.cpp +48 -0
  140. ratapi-0.0.0.dev7/cpp/RAT/eigStandard.h +31 -0
  141. ratapi-0.0.0.dev7/cpp/RAT/eml_erfcore.cpp +337 -0
  142. ratapi-0.0.0.dev7/cpp/RAT/eml_erfcore.h +31 -0
  143. ratapi-0.0.0.dev7/cpp/RAT/eml_mtimes_helper.cpp +154 -0
  144. ratapi-0.0.0.dev7/cpp/RAT/eml_mtimes_helper.h +40 -0
  145. ratapi-0.0.0.dev7/cpp/RAT/eml_rand_mt19937ar.cpp +170 -0
  146. ratapi-0.0.0.dev7/cpp/RAT/eml_rand_mt19937ar.h +31 -0
  147. ratapi-0.0.0.dev7/cpp/RAT/eml_rand_mt19937ar_stateful.cpp +35 -0
  148. ratapi-0.0.0.dev7/cpp/RAT/eml_rand_mt19937ar_stateful.h +26 -0
  149. ratapi-0.0.0.dev7/cpp/RAT/eml_setop.cpp +112 -0
  150. ratapi-0.0.0.dev7/cpp/RAT/eml_setop.h +31 -0
  151. ratapi-0.0.0.dev7/cpp/RAT/eps.cpp +41 -0
  152. ratapi-0.0.0.dev7/cpp/RAT/eps.h +29 -0
  153. ratapi-0.0.0.dev7/cpp/RAT/erf.cpp +37 -0
  154. ratapi-0.0.0.dev7/cpp/RAT/erf.h +31 -0
  155. ratapi-0.0.0.dev7/cpp/RAT/erfinv.cpp +75 -0
  156. ratapi-0.0.0.dev7/cpp/RAT/erfinv.h +29 -0
  157. ratapi-0.0.0.dev7/cpp/RAT/eventHelper.hpp +94 -0
  158. ratapi-0.0.0.dev7/cpp/RAT/events/eventManager.cpp +64 -0
  159. ratapi-0.0.0.dev7/cpp/RAT/events/eventManager.h +37 -0
  160. ratapi-0.0.0.dev7/cpp/RAT/events/eventManagerImpl.hpp +108 -0
  161. ratapi-0.0.0.dev7/cpp/RAT/exp.cpp +46 -0
  162. ratapi-0.0.0.dev7/cpp/RAT/exp.h +29 -0
  163. ratapi-0.0.0.dev7/cpp/RAT/eye.cpp +34 -0
  164. ratapi-0.0.0.dev7/cpp/RAT/eye.h +29 -0
  165. ratapi-0.0.0.dev7/cpp/RAT/fMinSearch.cpp +1109 -0
  166. ratapi-0.0.0.dev7/cpp/RAT/fMinSearch.h +48 -0
  167. ratapi-0.0.0.dev7/cpp/RAT/fileManager.cpp +181 -0
  168. ratapi-0.0.0.dev7/cpp/RAT/fileManager.h +37 -0
  169. ratapi-0.0.0.dev7/cpp/RAT/find.cpp +386 -0
  170. ratapi-0.0.0.dev7/cpp/RAT/find.h +47 -0
  171. ratapi-0.0.0.dev7/cpp/RAT/findkn.cpp +50 -0
  172. ratapi-0.0.0.dev7/cpp/RAT/findkn.h +26 -0
  173. ratapi-0.0.0.dev7/cpp/RAT/flip.cpp +39 -0
  174. ratapi-0.0.0.dev7/cpp/RAT/flip.h +30 -0
  175. ratapi-0.0.0.dev7/cpp/RAT/fread.cpp +62 -0
  176. ratapi-0.0.0.dev7/cpp/RAT/fread.h +30 -0
  177. ratapi-0.0.0.dev7/cpp/RAT/gamma.cpp +93 -0
  178. ratapi-0.0.0.dev7/cpp/RAT/gamma.h +29 -0
  179. ratapi-0.0.0.dev7/cpp/RAT/gelman.cpp +193 -0
  180. ratapi-0.0.0.dev7/cpp/RAT/gelman.h +34 -0
  181. ratapi-0.0.0.dev7/cpp/RAT/getFitNames.cpp +198 -0
  182. ratapi-0.0.0.dev7/cpp/RAT/getFitNames.h +47 -0
  183. ratapi-0.0.0.dev7/cpp/RAT/getFittedPriors.cpp +117 -0
  184. ratapi-0.0.0.dev7/cpp/RAT/getFittedPriors.h +32 -0
  185. ratapi-0.0.0.dev7/cpp/RAT/getTime.cpp +45 -0
  186. ratapi-0.0.0.dev7/cpp/RAT/getTime.h +35 -0
  187. ratapi-0.0.0.dev7/cpp/RAT/getenv.cpp +41 -0
  188. ratapi-0.0.0.dev7/cpp/RAT/getenv.h +30 -0
  189. ratapi-0.0.0.dev7/cpp/RAT/groupLayersMod.cpp +261 -0
  190. ratapi-0.0.0.dev7/cpp/RAT/groupLayersMod.h +33 -0
  191. ratapi-0.0.0.dev7/cpp/RAT/ifWhileCond.cpp +137 -0
  192. ratapi-0.0.0.dev7/cpp/RAT/ifWhileCond.h +35 -0
  193. ratapi-0.0.0.dev7/cpp/RAT/inEllipsoids.cpp +360 -0
  194. ratapi-0.0.0.dev7/cpp/RAT/inEllipsoids.h +29 -0
  195. ratapi-0.0.0.dev7/cpp/RAT/initializeDREAM.cpp +415 -0
  196. ratapi-0.0.0.dev7/cpp/RAT/initializeDREAM.h +47 -0
  197. ratapi-0.0.0.dev7/cpp/RAT/interp1.cpp +262 -0
  198. ratapi-0.0.0.dev7/cpp/RAT/interp1.h +35 -0
  199. ratapi-0.0.0.dev7/cpp/RAT/isRATStopped.cpp +59 -0
  200. ratapi-0.0.0.dev7/cpp/RAT/isRATStopped.h +27 -0
  201. ratapi-0.0.0.dev7/cpp/RAT/ishermitian.cpp +97 -0
  202. ratapi-0.0.0.dev7/cpp/RAT/ishermitian.h +31 -0
  203. ratapi-0.0.0.dev7/cpp/RAT/isrow.cpp +28 -0
  204. ratapi-0.0.0.dev7/cpp/RAT/isrow.h +30 -0
  205. ratapi-0.0.0.dev7/cpp/RAT/ixamax.cpp +122 -0
  206. ratapi-0.0.0.dev7/cpp/RAT/ixamax.h +39 -0
  207. ratapi-0.0.0.dev7/cpp/RAT/kmeans.cpp +294 -0
  208. ratapi-0.0.0.dev7/cpp/RAT/kmeans.h +28 -0
  209. ratapi-0.0.0.dev7/cpp/RAT/leftWin.cpp +63 -0
  210. ratapi-0.0.0.dev7/cpp/RAT/leftWin.h +26 -0
  211. ratapi-0.0.0.dev7/cpp/RAT/length.cpp +39 -0
  212. ratapi-0.0.0.dev7/cpp/RAT/length.h +32 -0
  213. ratapi-0.0.0.dev7/cpp/RAT/linspace.cpp +73 -0
  214. ratapi-0.0.0.dev7/cpp/RAT/linspace.h +30 -0
  215. ratapi-0.0.0.dev7/cpp/RAT/log1p.cpp +42 -0
  216. ratapi-0.0.0.dev7/cpp/RAT/log1p.h +35 -0
  217. ratapi-0.0.0.dev7/cpp/RAT/log2.cpp +38 -0
  218. ratapi-0.0.0.dev7/cpp/RAT/log2.h +29 -0
  219. ratapi-0.0.0.dev7/cpp/RAT/logPlus.cpp +56 -0
  220. ratapi-0.0.0.dev7/cpp/RAT/logPlus.h +26 -0
  221. ratapi-0.0.0.dev7/cpp/RAT/lower.cpp +35 -0
  222. ratapi-0.0.0.dev7/cpp/RAT/lower.h +30 -0
  223. ratapi-0.0.0.dev7/cpp/RAT/lusolve.cpp +74 -0
  224. ratapi-0.0.0.dev7/cpp/RAT/lusolve.h +34 -0
  225. ratapi-0.0.0.dev7/cpp/RAT/makeCell.cpp +206 -0
  226. ratapi-0.0.0.dev7/cpp/RAT/makeCell.h +30 -0
  227. ratapi-0.0.0.dev7/cpp/RAT/makeEmptyBayesResultsStruct.cpp +600 -0
  228. ratapi-0.0.0.dev7/cpp/RAT/makeEmptyBayesResultsStruct.h +55 -0
  229. ratapi-0.0.0.dev7/cpp/RAT/makeSLDProfile.cpp +620 -0
  230. ratapi-0.0.0.dev7/cpp/RAT/makeSLDProfile.h +36 -0
  231. ratapi-0.0.0.dev7/cpp/RAT/makeSimulationRange.cpp +119 -0
  232. ratapi-0.0.0.dev7/cpp/RAT/makeSimulationRange.h +29 -0
  233. ratapi-0.0.0.dev7/cpp/RAT/mchol.cpp +507 -0
  234. ratapi-0.0.0.dev7/cpp/RAT/mchol.h +28 -0
  235. ratapi-0.0.0.dev7/cpp/RAT/mean.cpp +89 -0
  236. ratapi-0.0.0.dev7/cpp/RAT/mean.h +32 -0
  237. ratapi-0.0.0.dev7/cpp/RAT/mergesort.cpp +344 -0
  238. ratapi-0.0.0.dev7/cpp/RAT/mergesort.h +39 -0
  239. ratapi-0.0.0.dev7/cpp/RAT/metropolisRule.cpp +188 -0
  240. ratapi-0.0.0.dev7/cpp/RAT/metropolisRule.h +38 -0
  241. ratapi-0.0.0.dev7/cpp/RAT/minOrMax.cpp +392 -0
  242. ratapi-0.0.0.dev7/cpp/RAT/minOrMax.h +45 -0
  243. ratapi-0.0.0.dev7/cpp/RAT/mod.cpp +75 -0
  244. ratapi-0.0.0.dev7/cpp/RAT/mod.h +31 -0
  245. ratapi-0.0.0.dev7/cpp/RAT/mrdivide_helper.cpp +277 -0
  246. ratapi-0.0.0.dev7/cpp/RAT/mrdivide_helper.h +48 -0
  247. ratapi-0.0.0.dev7/cpp/RAT/mtimes.cpp +173 -0
  248. ratapi-0.0.0.dev7/cpp/RAT/mtimes.h +47 -0
  249. ratapi-0.0.0.dev7/cpp/RAT/multrnd.cpp +212 -0
  250. ratapi-0.0.0.dev7/cpp/RAT/multrnd.h +27 -0
  251. ratapi-0.0.0.dev7/cpp/RAT/nest2pos.cpp +239 -0
  252. ratapi-0.0.0.dev7/cpp/RAT/nest2pos.h +28 -0
  253. ratapi-0.0.0.dev7/cpp/RAT/nestedSampler.cpp +707 -0
  254. ratapi-0.0.0.dev7/cpp/RAT/nestedSampler.h +38 -0
  255. ratapi-0.0.0.dev7/cpp/RAT/nonSingletonDim.cpp +48 -0
  256. ratapi-0.0.0.dev7/cpp/RAT/nonSingletonDim.h +34 -0
  257. ratapi-0.0.0.dev7/cpp/RAT/norm.cpp +131 -0
  258. ratapi-0.0.0.dev7/cpp/RAT/norm.h +32 -0
  259. ratapi-0.0.0.dev7/cpp/RAT/normalize.cpp +71 -0
  260. ratapi-0.0.0.dev7/cpp/RAT/normalize.h +30 -0
  261. ratapi-0.0.0.dev7/cpp/RAT/nsIntraFun.cpp +53 -0
  262. ratapi-0.0.0.dev7/cpp/RAT/nsIntraFun.h +35 -0
  263. ratapi-0.0.0.dev7/cpp/RAT/nullAssignment.cpp +200 -0
  264. ratapi-0.0.0.dev7/cpp/RAT/nullAssignment.h +39 -0
  265. ratapi-0.0.0.dev7/cpp/RAT/optimalEllipsoids.cpp +436 -0
  266. ratapi-0.0.0.dev7/cpp/RAT/optimalEllipsoids.h +29 -0
  267. ratapi-0.0.0.dev7/cpp/RAT/percentileConfidenceIntervals.cpp +51 -0
  268. ratapi-0.0.0.dev7/cpp/RAT/percentileConfidenceIntervals.h +30 -0
  269. ratapi-0.0.0.dev7/cpp/RAT/prctile.cpp +371 -0
  270. ratapi-0.0.0.dev7/cpp/RAT/prctile.h +36 -0
  271. ratapi-0.0.0.dev7/cpp/RAT/processBayes.cpp +161 -0
  272. ratapi-0.0.0.dev7/cpp/RAT/processBayes.h +47 -0
  273. ratapi-0.0.0.dev7/cpp/RAT/processCustomFunction.cpp +373 -0
  274. ratapi-0.0.0.dev7/cpp/RAT/processCustomFunction.h +46 -0
  275. ratapi-0.0.0.dev7/cpp/RAT/processCustomFunction1.cpp +595 -0
  276. ratapi-0.0.0.dev7/cpp/RAT/processCustomFunction1.h +46 -0
  277. ratapi-0.0.0.dev7/cpp/RAT/qrsolve.cpp +215 -0
  278. ratapi-0.0.0.dev7/cpp/RAT/qrsolve.h +43 -0
  279. ratapi-0.0.0.dev7/cpp/RAT/rand.cpp +374 -0
  280. ratapi-0.0.0.dev7/cpp/RAT/rand.h +37 -0
  281. ratapi-0.0.0.dev7/cpp/RAT/randSample.cpp +176 -0
  282. ratapi-0.0.0.dev7/cpp/RAT/randSample.h +31 -0
  283. ratapi-0.0.0.dev7/cpp/RAT/randn.cpp +103 -0
  284. ratapi-0.0.0.dev7/cpp/RAT/randn.h +34 -0
  285. ratapi-0.0.0.dev7/cpp/RAT/randperm.cpp +38 -0
  286. ratapi-0.0.0.dev7/cpp/RAT/randperm.h +30 -0
  287. ratapi-0.0.0.dev7/cpp/RAT/rcond.cpp +239 -0
  288. ratapi-0.0.0.dev7/cpp/RAT/rcond.h +30 -0
  289. ratapi-0.0.0.dev7/cpp/RAT/refPercentileConfidenceIntervals.cpp +924 -0
  290. ratapi-0.0.0.dev7/cpp/RAT/refPercentileConfidenceIntervals.h +48 -0
  291. ratapi-0.0.0.dev7/cpp/RAT/reflectivityCalculation.cpp +731 -0
  292. ratapi-0.0.0.dev7/cpp/RAT/reflectivityCalculation.h +37 -0
  293. ratapi-0.0.0.dev7/cpp/RAT/relop.cpp +68 -0
  294. ratapi-0.0.0.dev7/cpp/RAT/relop.h +34 -0
  295. ratapi-0.0.0.dev7/cpp/RAT/removeOutlier.cpp +260 -0
  296. ratapi-0.0.0.dev7/cpp/RAT/removeOutlier.h +36 -0
  297. ratapi-0.0.0.dev7/cpp/RAT/repmat.cpp +67 -0
  298. ratapi-0.0.0.dev7/cpp/RAT/repmat.h +35 -0
  299. ratapi-0.0.0.dev7/cpp/RAT/resampleLayers.cpp +101 -0
  300. ratapi-0.0.0.dev7/cpp/RAT/resampleLayers.h +30 -0
  301. ratapi-0.0.0.dev7/cpp/RAT/rescaleParameters.cpp +70 -0
  302. ratapi-0.0.0.dev7/cpp/RAT/rescaleParameters.h +28 -0
  303. ratapi-0.0.0.dev7/cpp/RAT/reshapeSizeChecks.cpp +42 -0
  304. ratapi-0.0.0.dev7/cpp/RAT/reshapeSizeChecks.h +32 -0
  305. ratapi-0.0.0.dev7/cpp/RAT/resolutionPolly.cpp +60 -0
  306. ratapi-0.0.0.dev7/cpp/RAT/resolutionPolly.h +30 -0
  307. ratapi-0.0.0.dev7/cpp/RAT/rng.cpp +38 -0
  308. ratapi-0.0.0.dev7/cpp/RAT/rng.h +29 -0
  309. ratapi-0.0.0.dev7/cpp/RAT/rtGetInf.cpp +49 -0
  310. ratapi-0.0.0.dev7/cpp/RAT/rtGetInf.h +34 -0
  311. ratapi-0.0.0.dev7/cpp/RAT/rtGetNaN.cpp +35 -0
  312. ratapi-0.0.0.dev7/cpp/RAT/rtGetNaN.h +32 -0
  313. ratapi-0.0.0.dev7/cpp/RAT/rt_defines.h +45 -0
  314. ratapi-0.0.0.dev7/cpp/RAT/rt_nonfinite.cpp +31 -0
  315. ratapi-0.0.0.dev7/cpp/RAT/rt_nonfinite.h +36 -0
  316. ratapi-0.0.0.dev7/cpp/RAT/rtwtypes.h +42 -0
  317. ratapi-0.0.0.dev7/cpp/RAT/runDE.cpp +218 -0
  318. ratapi-0.0.0.dev7/cpp/RAT/runDE.h +43 -0
  319. ratapi-0.0.0.dev7/cpp/RAT/runDREAM.cpp +303 -0
  320. ratapi-0.0.0.dev7/cpp/RAT/runDREAM.h +37 -0
  321. ratapi-0.0.0.dev7/cpp/RAT/runNestedSampler.cpp +386 -0
  322. ratapi-0.0.0.dev7/cpp/RAT/runNestedSampler.h +55 -0
  323. ratapi-0.0.0.dev7/cpp/RAT/runSimplex.cpp +239 -0
  324. ratapi-0.0.0.dev7/cpp/RAT/runSimplex.h +35 -0
  325. ratapi-0.0.0.dev7/cpp/RAT/setupDREAM.cpp +283 -0
  326. ratapi-0.0.0.dev7/cpp/RAT/setupDREAM.h +39 -0
  327. ratapi-0.0.0.dev7/cpp/RAT/shiftData.cpp +158 -0
  328. ratapi-0.0.0.dev7/cpp/RAT/shiftData.h +30 -0
  329. ratapi-0.0.0.dev7/cpp/RAT/simplexIntrafun.cpp +87 -0
  330. ratapi-0.0.0.dev7/cpp/RAT/simplexIntrafun.h +40 -0
  331. ratapi-0.0.0.dev7/cpp/RAT/simplexXTransform.cpp +70 -0
  332. ratapi-0.0.0.dev7/cpp/RAT/simplexXTransform.h +30 -0
  333. ratapi-0.0.0.dev7/cpp/RAT/sort.cpp +334 -0
  334. ratapi-0.0.0.dev7/cpp/RAT/sort.h +35 -0
  335. ratapi-0.0.0.dev7/cpp/RAT/sortAscendLE.cpp +38 -0
  336. ratapi-0.0.0.dev7/cpp/RAT/sortAscendLE.h +32 -0
  337. ratapi-0.0.0.dev7/cpp/RAT/sortIdx.cpp +659 -0
  338. ratapi-0.0.0.dev7/cpp/RAT/sortIdx.h +44 -0
  339. ratapi-0.0.0.dev7/cpp/RAT/sortLE.cpp +94 -0
  340. ratapi-0.0.0.dev7/cpp/RAT/sortLE.h +36 -0
  341. ratapi-0.0.0.dev7/cpp/RAT/sortrows.cpp +41 -0
  342. ratapi-0.0.0.dev7/cpp/RAT/sortrows.h +31 -0
  343. ratapi-0.0.0.dev7/cpp/RAT/splitEllipsoid.cpp +504 -0
  344. ratapi-0.0.0.dev7/cpp/RAT/splitEllipsoid.h +30 -0
  345. ratapi-0.0.0.dev7/cpp/RAT/sprintf.cpp +455 -0
  346. ratapi-0.0.0.dev7/cpp/RAT/sprintf.h +61 -0
  347. ratapi-0.0.0.dev7/cpp/RAT/sqrt.cpp +104 -0
  348. ratapi-0.0.0.dev7/cpp/RAT/sqrt.h +35 -0
  349. ratapi-0.0.0.dev7/cpp/RAT/sqrt1.cpp +46 -0
  350. ratapi-0.0.0.dev7/cpp/RAT/sqrt1.h +31 -0
  351. ratapi-0.0.0.dev7/cpp/RAT/standardLayers.cpp +842 -0
  352. ratapi-0.0.0.dev7/cpp/RAT/standardLayers.h +63 -0
  353. ratapi-0.0.0.dev7/cpp/RAT/standardLayers1.cpp +1012 -0
  354. ratapi-0.0.0.dev7/cpp/RAT/standardLayers1.h +64 -0
  355. ratapi-0.0.0.dev7/cpp/RAT/std.cpp +53 -0
  356. ratapi-0.0.0.dev7/cpp/RAT/std.h +31 -0
  357. ratapi-0.0.0.dev7/cpp/RAT/str2double.cpp +532 -0
  358. ratapi-0.0.0.dev7/cpp/RAT/str2double.h +32 -0
  359. ratapi-0.0.0.dev7/cpp/RAT/strcmp.cpp +1061 -0
  360. ratapi-0.0.0.dev7/cpp/RAT/strcmp.h +75 -0
  361. ratapi-0.0.0.dev7/cpp/RAT/strjoin.cpp +167 -0
  362. ratapi-0.0.0.dev7/cpp/RAT/strjoin.h +40 -0
  363. ratapi-0.0.0.dev7/cpp/RAT/strlength.cpp +43 -0
  364. ratapi-0.0.0.dev7/cpp/RAT/strlength.h +32 -0
  365. ratapi-0.0.0.dev7/cpp/RAT/structConstructorHelper.cpp +61 -0
  366. ratapi-0.0.0.dev7/cpp/RAT/structConstructorHelper.h +45 -0
  367. ratapi-0.0.0.dev7/cpp/RAT/sum.cpp +75 -0
  368. ratapi-0.0.0.dev7/cpp/RAT/sum.h +33 -0
  369. ratapi-0.0.0.dev7/cpp/RAT/tic.cpp +37 -0
  370. ratapi-0.0.0.dev7/cpp/RAT/tic.h +29 -0
  371. ratapi-0.0.0.dev7/cpp/RAT/timeKeeper.cpp +64 -0
  372. ratapi-0.0.0.dev7/cpp/RAT/timeKeeper.h +41 -0
  373. ratapi-0.0.0.dev7/cpp/RAT/tmwtypes.h +888 -0
  374. ratapi-0.0.0.dev7/cpp/RAT/toc.cpp +36 -0
  375. ratapi-0.0.0.dev7/cpp/RAT/toc.h +29 -0
  376. ratapi-0.0.0.dev7/cpp/RAT/triggerEvent.cpp +1432 -0
  377. ratapi-0.0.0.dev7/cpp/RAT/triggerEvent.h +57 -0
  378. ratapi-0.0.0.dev7/cpp/RAT/unpackParams.cpp +129 -0
  379. ratapi-0.0.0.dev7/cpp/RAT/unpackParams.h +32 -0
  380. ratapi-0.0.0.dev7/cpp/RAT/unsafeSxfun.cpp +128 -0
  381. ratapi-0.0.0.dev7/cpp/RAT/unsafeSxfun.h +32 -0
  382. ratapi-0.0.0.dev7/cpp/RAT/useConstantDim.cpp +62 -0
  383. ratapi-0.0.0.dev7/cpp/RAT/useConstantDim.h +33 -0
  384. ratapi-0.0.0.dev7/cpp/RAT/vAllOrAny.cpp +84 -0
  385. ratapi-0.0.0.dev7/cpp/RAT/vAllOrAny.h +35 -0
  386. ratapi-0.0.0.dev7/cpp/RAT/validate_print_arguments.cpp +44 -0
  387. ratapi-0.0.0.dev7/cpp/RAT/validate_print_arguments.h +36 -0
  388. ratapi-0.0.0.dev7/cpp/RAT/var.cpp +52 -0
  389. ratapi-0.0.0.dev7/cpp/RAT/var.h +30 -0
  390. ratapi-0.0.0.dev7/cpp/RAT/varstd.cpp +80 -0
  391. ratapi-0.0.0.dev7/cpp/RAT/varstd.h +31 -0
  392. ratapi-0.0.0.dev7/cpp/RAT/xaxpy.cpp +57 -0
  393. ratapi-0.0.0.dev7/cpp/RAT/xaxpy.h +39 -0
  394. ratapi-0.0.0.dev7/cpp/RAT/xdladiv.cpp +135 -0
  395. ratapi-0.0.0.dev7/cpp/RAT/xdladiv.h +35 -0
  396. ratapi-0.0.0.dev7/cpp/RAT/xdlaev2.cpp +111 -0
  397. ratapi-0.0.0.dev7/cpp/RAT/xdlaev2.h +36 -0
  398. ratapi-0.0.0.dev7/cpp/RAT/xdlahqr.cpp +774 -0
  399. ratapi-0.0.0.dev7/cpp/RAT/xdlahqr.h +41 -0
  400. ratapi-0.0.0.dev7/cpp/RAT/xdlaln2.cpp +366 -0
  401. ratapi-0.0.0.dev7/cpp/RAT/xdlaln2.h +39 -0
  402. ratapi-0.0.0.dev7/cpp/RAT/xdlanv2.cpp +180 -0
  403. ratapi-0.0.0.dev7/cpp/RAT/xdlanv2.h +36 -0
  404. ratapi-0.0.0.dev7/cpp/RAT/xdotc.cpp +43 -0
  405. ratapi-0.0.0.dev7/cpp/RAT/xdotc.h +37 -0
  406. ratapi-0.0.0.dev7/cpp/RAT/xdtrevc3.cpp +299 -0
  407. ratapi-0.0.0.dev7/cpp/RAT/xdtrevc3.h +37 -0
  408. ratapi-0.0.0.dev7/cpp/RAT/xgeev.cpp +242 -0
  409. ratapi-0.0.0.dev7/cpp/RAT/xgeev.h +37 -0
  410. ratapi-0.0.0.dev7/cpp/RAT/xgemm.cpp +83 -0
  411. ratapi-0.0.0.dev7/cpp/RAT/xgemm.h +40 -0
  412. ratapi-0.0.0.dev7/cpp/RAT/xgemv.cpp +119 -0
  413. ratapi-0.0.0.dev7/cpp/RAT/xgemv.h +43 -0
  414. ratapi-0.0.0.dev7/cpp/RAT/xgeqp3.cpp +73 -0
  415. ratapi-0.0.0.dev7/cpp/RAT/xgeqp3.h +37 -0
  416. ratapi-0.0.0.dev7/cpp/RAT/xgerc.cpp +75 -0
  417. ratapi-0.0.0.dev7/cpp/RAT/xgerc.h +40 -0
  418. ratapi-0.0.0.dev7/cpp/RAT/xgeru.cpp +50 -0
  419. ratapi-0.0.0.dev7/cpp/RAT/xgeru.h +37 -0
  420. ratapi-0.0.0.dev7/cpp/RAT/xgetrf.cpp +171 -0
  421. ratapi-0.0.0.dev7/cpp/RAT/xgetrf.h +40 -0
  422. ratapi-0.0.0.dev7/cpp/RAT/xnrm2.cpp +227 -0
  423. ratapi-0.0.0.dev7/cpp/RAT/xnrm2.h +42 -0
  424. ratapi-0.0.0.dev7/cpp/RAT/xrot.cpp +63 -0
  425. ratapi-0.0.0.dev7/cpp/RAT/xrot.h +39 -0
  426. ratapi-0.0.0.dev7/cpp/RAT/xscal.cpp +41 -0
  427. ratapi-0.0.0.dev7/cpp/RAT/xscal.h +37 -0
  428. ratapi-0.0.0.dev7/cpp/RAT/xswap.cpp +66 -0
  429. ratapi-0.0.0.dev7/cpp/RAT/xswap.h +39 -0
  430. ratapi-0.0.0.dev7/cpp/RAT/xsyheev.cpp +114 -0
  431. ratapi-0.0.0.dev7/cpp/RAT/xsyheev.h +36 -0
  432. ratapi-0.0.0.dev7/cpp/RAT/xtrsm.cpp +89 -0
  433. ratapi-0.0.0.dev7/cpp/RAT/xtrsm.h +39 -0
  434. ratapi-0.0.0.dev7/cpp/RAT/xtrsv.cpp +102 -0
  435. ratapi-0.0.0.dev7/cpp/RAT/xtrsv.h +43 -0
  436. ratapi-0.0.0.dev7/cpp/RAT/xunormqr.cpp +102 -0
  437. ratapi-0.0.0.dev7/cpp/RAT/xunormqr.h +39 -0
  438. ratapi-0.0.0.dev7/cpp/RAT/xzgebak.cpp +63 -0
  439. ratapi-0.0.0.dev7/cpp/RAT/xzgebak.h +37 -0
  440. ratapi-0.0.0.dev7/cpp/RAT/xzgebal.cpp +261 -0
  441. ratapi-0.0.0.dev7/cpp/RAT/xzgebal.h +37 -0
  442. ratapi-0.0.0.dev7/cpp/RAT/xzgehrd.cpp +139 -0
  443. ratapi-0.0.0.dev7/cpp/RAT/xzgehrd.h +39 -0
  444. ratapi-0.0.0.dev7/cpp/RAT/xzgeqp3.cpp +262 -0
  445. ratapi-0.0.0.dev7/cpp/RAT/xzgeqp3.h +41 -0
  446. ratapi-0.0.0.dev7/cpp/RAT/xzlangeM.cpp +68 -0
  447. ratapi-0.0.0.dev7/cpp/RAT/xzlangeM.h +36 -0
  448. ratapi-0.0.0.dev7/cpp/RAT/xzlarf.cpp +170 -0
  449. ratapi-0.0.0.dev7/cpp/RAT/xzlarf.h +39 -0
  450. ratapi-0.0.0.dev7/cpp/RAT/xzlarfg.cpp +214 -0
  451. ratapi-0.0.0.dev7/cpp/RAT/xzlarfg.h +39 -0
  452. ratapi-0.0.0.dev7/cpp/RAT/xzlartg.cpp +156 -0
  453. ratapi-0.0.0.dev7/cpp/RAT/xzlartg.h +36 -0
  454. ratapi-0.0.0.dev7/cpp/RAT/xzlascl.cpp +102 -0
  455. ratapi-0.0.0.dev7/cpp/RAT/xzlascl.h +39 -0
  456. ratapi-0.0.0.dev7/cpp/RAT/xzsteqr.cpp +537 -0
  457. ratapi-0.0.0.dev7/cpp/RAT/xzsteqr.h +37 -0
  458. ratapi-0.0.0.dev7/cpp/RAT/xzsyheev.cpp +71 -0
  459. ratapi-0.0.0.dev7/cpp/RAT/xzsyheev.h +36 -0
  460. ratapi-0.0.0.dev7/cpp/RAT/xzsyhetrd.cpp +121 -0
  461. ratapi-0.0.0.dev7/cpp/RAT/xzsyhetrd.h +38 -0
  462. ratapi-0.0.0.dev7/cpp/RAT/xzunghr.cpp +124 -0
  463. ratapi-0.0.0.dev7/cpp/RAT/xzunghr.h +39 -0
  464. ratapi-0.0.0.dev7/cpp/RAT/xzungqr.cpp +140 -0
  465. ratapi-0.0.0.dev7/cpp/RAT/xzungqr.h +39 -0
  466. ratapi-0.0.0.dev7/cpp/RAT/xzunorgtr.cpp +58 -0
  467. ratapi-0.0.0.dev7/cpp/RAT/xzunorgtr.h +37 -0
  468. ratapi-0.0.0.dev7/cpp/includes/defines.h +682 -0
  469. ratapi-0.0.0.dev7/cpp/includes/functions.h +500 -0
  470. ratapi-0.0.0.dev7/cpp/rat.cpp +1105 -0
  471. ratapi-0.0.0.dev7/pyproject.toml +41 -0
  472. ratapi-0.0.0.dev7/ratapi/__init__.py +29 -0
  473. ratapi-0.0.0.dev7/ratapi/classlist.py +619 -0
  474. ratapi-0.0.0.dev7/ratapi/controls.py +265 -0
  475. ratapi-0.0.0.dev7/ratapi/events.py +88 -0
  476. ratapi-0.0.0.dev7/ratapi/examples/__init__.py +25 -0
  477. ratapi-0.0.0.dev7/ratapi/examples/absorption/__init__.py +1 -0
  478. ratapi-0.0.0.dev7/ratapi/examples/absorption/absorption.py +172 -0
  479. ratapi-0.0.0.dev7/ratapi/examples/absorption/volume_thiol_bilayer.py +141 -0
  480. ratapi-0.0.0.dev7/ratapi/examples/convert_rascal_project/Model_IIb.py +87 -0
  481. ratapi-0.0.0.dev7/ratapi/examples/convert_rascal_project/__init__.py +1 -0
  482. ratapi-0.0.0.dev7/ratapi/examples/convert_rascal_project/convert_rascal.py +49 -0
  483. ratapi-0.0.0.dev7/ratapi/examples/data/D2O_spin_down.dat +100 -0
  484. ratapi-0.0.0.dev7/ratapi/examples/data/D2O_spin_up.dat +101 -0
  485. ratapi-0.0.0.dev7/ratapi/examples/data/DSPC_D2O.dat +82 -0
  486. ratapi-0.0.0.dev7/ratapi/examples/data/DSPC_SMW.dat +82 -0
  487. ratapi-0.0.0.dev7/ratapi/examples/data/H2O_spin_down.dat +102 -0
  488. ratapi-0.0.0.dev7/ratapi/examples/data/H2O_spin_up.dat +102 -0
  489. ratapi-0.0.0.dev7/ratapi/examples/data/__init__.py +1 -0
  490. ratapi-0.0.0.dev7/ratapi/examples/data/c_PLP0016596.dat +146 -0
  491. ratapi-0.0.0.dev7/ratapi/examples/data/c_PLP0016601.dat +97 -0
  492. ratapi-0.0.0.dev7/ratapi/examples/data/c_PLP0016607.dat +104 -0
  493. ratapi-0.0.0.dev7/ratapi/examples/data/d2o_background_data.dat +82 -0
  494. ratapi-0.0.0.dev7/ratapi/examples/domains/__init__.py +1 -0
  495. ratapi-0.0.0.dev7/ratapi/examples/domains/alloy_domains.py +31 -0
  496. ratapi-0.0.0.dev7/ratapi/examples/domains/domains_XY_model.py +74 -0
  497. ratapi-0.0.0.dev7/ratapi/examples/domains/domains_custom_XY.py +86 -0
  498. ratapi-0.0.0.dev7/ratapi/examples/domains/domains_custom_layers.py +60 -0
  499. ratapi-0.0.0.dev7/ratapi/examples/domains/domains_standard_layers.py +92 -0
  500. ratapi-0.0.0.dev7/ratapi/examples/languages/__init__.py +1 -0
  501. ratapi-0.0.0.dev7/ratapi/examples/languages/custom_bilayer.py +69 -0
  502. ratapi-0.0.0.dev7/ratapi/examples/languages/run_custom_file_languages.py +42 -0
  503. ratapi-0.0.0.dev7/ratapi/examples/languages/setup_problem.py +130 -0
  504. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/DSPC_custom_XY.py +149 -0
  505. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/DSPC_custom_layers.py +130 -0
  506. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/DSPC_data_background.py +220 -0
  507. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/DSPC_function_background.py +219 -0
  508. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/DSPC_standard_layers.py +210 -0
  509. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/__init__.py +1 -0
  510. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/background_function.py +16 -0
  511. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/custom_XY_DSPC.py +140 -0
  512. ratapi-0.0.0.dev7/ratapi/examples/normal_reflectivity/custom_bilayer_DSPC.py +87 -0
  513. ratapi-0.0.0.dev7/ratapi/inputs.py +591 -0
  514. ratapi-0.0.0.dev7/ratapi/models.py +668 -0
  515. ratapi-0.0.0.dev7/ratapi/outputs.py +808 -0
  516. ratapi-0.0.0.dev7/ratapi/project.py +1047 -0
  517. ratapi-0.0.0.dev7/ratapi/run.py +140 -0
  518. ratapi-0.0.0.dev7/ratapi/utils/__init__.py +1 -0
  519. ratapi-0.0.0.dev7/ratapi/utils/convert.py +558 -0
  520. ratapi-0.0.0.dev7/ratapi/utils/custom_errors.py +42 -0
  521. ratapi-0.0.0.dev7/ratapi/utils/enums.py +206 -0
  522. ratapi-0.0.0.dev7/ratapi/utils/orso.py +248 -0
  523. ratapi-0.0.0.dev7/ratapi/utils/plotting.py +1149 -0
  524. ratapi-0.0.0.dev7/ratapi/wrappers.py +144 -0
  525. ratapi-0.0.0.dev7/ratapi.egg-info/PKG-INFO +42 -0
  526. ratapi-0.0.0.dev7/ratapi.egg-info/SOURCES.txt +530 -0
  527. ratapi-0.0.0.dev7/ratapi.egg-info/dependency_links.txt +1 -0
  528. ratapi-0.0.0.dev7/ratapi.egg-info/not-zip-safe +1 -0
  529. ratapi-0.0.0.dev7/ratapi.egg-info/requires.txt +36 -0
  530. ratapi-0.0.0.dev7/ratapi.egg-info/top_level.txt +1 -0
  531. ratapi-0.0.0.dev7/setup.cfg +4 -0
  532. ratapi-0.0.0.dev7/setup.py +189 -0
@@ -0,0 +1,5 @@
1
+ include README.md
2
+ recursive-include cpp *
3
+ prune tests
4
+ prune */__pycache__
5
+ global-exclude .git
@@ -0,0 +1,42 @@
1
+ Metadata-Version: 2.1
2
+ Name: ratapi
3
+ Version: 0.0.0.dev7
4
+ Summary: Python extension for the Reflectivity Analysis Toolbox (RAT)
5
+ Home-page: https://github.com/RascalSoftware/python-RAT
6
+ Author:
7
+ Author-email:
8
+ Requires-Python: >=3.10
9
+ Description-Content-Type: text/markdown
10
+ Provides-Extra: Dev
11
+ Provides-Extra: Matlab_2023a
12
+ Provides-Extra: Matlab_2023b
13
+ Provides-Extra: Matlab_2024a
14
+ Provides-Extra: Matlab_2024b
15
+ Provides-Extra: Matlab_2025a
16
+ Provides-Extra: Matlab_latest
17
+ Provides-Extra: Orso
18
+
19
+ python-RAT
20
+ ==========
21
+ Python-RAT is the Python interface for the [Reflectivity Algorithm Toolbox](https://github.com/RascalSoftware/RAT) (RAT).
22
+
23
+ Install
24
+ =======
25
+ To install in local directory:
26
+
27
+ git clone --recurse-submodules https://github.com/RascalSoftware/python-RAT.git
28
+ cd python-RAT
29
+ pip install -e .
30
+
31
+ matlabengine is an optional dependency only required for Matlab custom functions. The version of matlabengine should match the version of Matlab installed on the machine. This can be installed as shown below:
32
+
33
+ pip install -e .[Matlab-2023a]
34
+
35
+ Development dependencies can be installed as shown below
36
+
37
+ pip install -e .[Dev]
38
+
39
+ To build wheel:
40
+
41
+ pip install build
42
+ python -m build --wheel
@@ -0,0 +1,24 @@
1
+ python-RAT
2
+ ==========
3
+ Python-RAT is the Python interface for the [Reflectivity Algorithm Toolbox](https://github.com/RascalSoftware/RAT) (RAT).
4
+
5
+ Install
6
+ =======
7
+ To install in local directory:
8
+
9
+ git clone --recurse-submodules https://github.com/RascalSoftware/python-RAT.git
10
+ cd python-RAT
11
+ pip install -e .
12
+
13
+ matlabengine is an optional dependency only required for Matlab custom functions. The version of matlabengine should match the version of Matlab installed on the machine. This can be installed as shown below:
14
+
15
+ pip install -e .[Matlab-2023a]
16
+
17
+ Development dependencies can be installed as shown below
18
+
19
+ pip install -e .[Dev]
20
+
21
+ To build wheel:
22
+
23
+ pip install build
24
+ python -m build --wheel
@@ -0,0 +1,25 @@
1
+ //
2
+ // Non-Degree Granting Education License -- for use at non-degree
3
+ // granting, nonprofit, education, and research organizations only. Not
4
+ // for commercial or industrial use.
5
+ //
6
+ // CoderTimeAPI.cpp
7
+ //
8
+ // Code generation for function 'CoderTimeAPI'
9
+ //
10
+
11
+ // Include files
12
+ #include "CoderTimeAPI.h"
13
+ #include "RATMain_data.h"
14
+ #include "rt_nonfinite.h"
15
+
16
+ // Function Definitions
17
+ namespace RAT
18
+ {
19
+ void freq_not_empty_init()
20
+ {
21
+ freq_not_empty = false;
22
+ }
23
+ }
24
+
25
+ // End of code generation (CoderTimeAPI.cpp)
@@ -0,0 +1,26 @@
1
+ //
2
+ // Non-Degree Granting Education License -- for use at non-degree
3
+ // granting, nonprofit, education, and research organizations only. Not
4
+ // for commercial or industrial use.
5
+ //
6
+ // CoderTimeAPI.h
7
+ //
8
+ // Code generation for function 'CoderTimeAPI'
9
+ //
10
+ #ifndef CODERTIMEAPI_H
11
+ #define CODERTIMEAPI_H
12
+
13
+ // Include files
14
+ #include "rtwtypes.h"
15
+ #include <cstddef>
16
+ #include <cstdlib>
17
+
18
+ // Function Declarations
19
+ namespace RAT
20
+ {
21
+ void freq_not_empty_init();
22
+ }
23
+
24
+ #endif
25
+
26
+ // End of code generation (CoderTimeAPI.h)