@researai/deepscientist 1.5.16 → 1.6.0

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 (896) hide show
  1. package/AGENTS.md +309 -130
  2. package/AISB/catalog/aisb.b1.agentic_coding.yaml +244 -0
  3. package/AISB/catalog/aisb.b10.climate_earth.yaml +235 -0
  4. package/AISB/catalog/aisb.b11.model_efficiency.yaml +231 -0
  5. package/AISB/catalog/aisb.b12.embodied_ai.yaml +238 -0
  6. package/AISB/catalog/aisb.b2.agent_systems.yaml +229 -0
  7. package/AISB/catalog/aisb.b3.self_evolving_rl.yaml +237 -0
  8. package/AISB/catalog/aisb.b4.lm_reasoning.yaml +240 -0
  9. package/AISB/catalog/aisb.b5.math_proof.yaml +235 -0
  10. package/AISB/catalog/aisb.b6.research_process.yaml +243 -0
  11. package/AISB/catalog/aisb.b7.multimodal_fusion.yaml +232 -0
  12. package/AISB/catalog/aisb.b8.lifesci_drug.yaml +275 -0
  13. package/AISB/catalog/aisb.b9.material_science.yaml +237 -0
  14. package/AISB/catalog/aisb.t3.001_savvy.yaml +159 -0
  15. package/AISB/catalog/aisb.t3.001_savvy.zh.yaml +121 -0
  16. package/AISB/catalog/aisb.t3.002_pinet.yaml +189 -0
  17. package/AISB/catalog/aisb.t3.002_pinet.zh.yaml +130 -0
  18. package/AISB/catalog/aisb.t3.004_decentralattn.yaml +184 -0
  19. package/AISB/catalog/aisb.t3.004_decentralattn.zh.yaml +153 -0
  20. package/AISB/catalog/aisb.t3.005_tsae.yaml +193 -0
  21. package/AISB/catalog/aisb.t3.005_tsae.zh.yaml +139 -0
  22. package/AISB/catalog/aisb.t3.006_physense.yaml +194 -0
  23. package/AISB/catalog/aisb.t3.006_physense.zh.yaml +118 -0
  24. package/AISB/catalog/aisb.t3.007_reasoningiqa.yaml +169 -0
  25. package/AISB/catalog/aisb.t3.007_reasoningiqa.zh.yaml +133 -0
  26. package/AISB/catalog/aisb.t3.008_meanflows.yaml +188 -0
  27. package/AISB/catalog/aisb.t3.008_meanflows.zh.yaml +140 -0
  28. package/AISB/catalog/aisb.t3.009_scoremissing.yaml +179 -0
  29. package/AISB/catalog/aisb.t3.009_scoremissing.zh.yaml +119 -0
  30. package/AISB/catalog/aisb.t3.010_suitabilityfilter.yaml +221 -0
  31. package/AISB/catalog/aisb.t3.010_suitabilityfilter.zh.yaml +141 -0
  32. package/AISB/catalog/aisb.t3.011_osd.yaml +206 -0
  33. package/AISB/catalog/aisb.t3.011_osd.zh.yaml +163 -0
  34. package/AISB/catalog/aisb.t3.012_efficientqat.yaml +206 -0
  35. package/AISB/catalog/aisb.t3.012_efficientqat.zh.yaml +159 -0
  36. package/AISB/catalog/aisb.t3.013_appl.yaml +152 -0
  37. package/AISB/catalog/aisb.t3.013_appl.zh.yaml +126 -0
  38. package/AISB/catalog/aisb.t3.014_piguard.yaml +207 -0
  39. package/AISB/catalog/aisb.t3.014_piguard.zh.yaml +164 -0
  40. package/AISB/catalog/aisb.t3.015_frspec.yaml +209 -0
  41. package/AISB/catalog/aisb.t3.015_frspec.zh.yaml +163 -0
  42. package/AISB/catalog/aisb.t3.016_mathfusion.yaml +166 -0
  43. package/AISB/catalog/aisb.t3.016_mathfusion.zh.yaml +145 -0
  44. package/AISB/catalog/aisb.t3.017_multimodalglp.yaml +171 -0
  45. package/AISB/catalog/aisb.t3.017_multimodalglp.zh.yaml +122 -0
  46. package/AISB/catalog/aisb.t3.018_cotsynth.yaml +206 -0
  47. package/AISB/catalog/aisb.t3.018_cotsynth.zh.yaml +162 -0
  48. package/AISB/catalog/aisb.t3.019_dyscaleut.yaml +211 -0
  49. package/AISB/catalog/aisb.t3.019_dyscaleut.zh.yaml +148 -0
  50. package/AISB/catalog/aisb.t3.020_aristotle.yaml +173 -0
  51. package/AISB/catalog/aisb.t3.020_aristotle.zh.yaml +119 -0
  52. package/AISB/catalog/aisb.t3.021_tokenrecycling.yaml +160 -0
  53. package/AISB/catalog/aisb.t3.021_tokenrecycling.zh.yaml +129 -0
  54. package/AISB/catalog/aisb.t3.022_chainofreasoning.yaml +204 -0
  55. package/AISB/catalog/aisb.t3.022_chainofreasoning.zh.yaml +161 -0
  56. package/AISB/catalog/aisb.t3.023_guidedembed.yaml +211 -0
  57. package/AISB/catalog/aisb.t3.023_guidedembed.zh.yaml +189 -0
  58. package/AISB/catalog/aisb.t3.024_outputcentric.yaml +148 -0
  59. package/AISB/catalog/aisb.t3.024_outputcentric.zh.yaml +131 -0
  60. package/AISB/catalog/aisb.t3.025_deeper.yaml +143 -0
  61. package/AISB/catalog/aisb.t3.025_deeper.zh.yaml +116 -0
  62. package/AISB/catalog/aisb.t3.026_gartkg.yaml +195 -0
  63. package/AISB/catalog/aisb.t3.026_gartkg.zh.yaml +127 -0
  64. package/AISB/catalog/aisb.t3.027_citeeval.yaml +182 -0
  65. package/AISB/catalog/aisb.t3.027_citeeval.zh.yaml +135 -0
  66. package/AISB/catalog/aisb.t3.028_sbam.yaml +206 -0
  67. package/AISB/catalog/aisb.t3.028_sbam.zh.yaml +166 -0
  68. package/AISB/catalog/aisb.t3.029_cdqgeoembed.yaml +224 -0
  69. package/AISB/catalog/aisb.t3.029_cdqgeoembed.zh.yaml +142 -0
  70. package/AISB/catalog/aisb.t3.030_processrm.yaml +211 -0
  71. package/AISB/catalog/aisb.t3.030_processrm.zh.yaml +166 -0
  72. package/AISB/catalog/aisb.t3.031_circuitstability.yaml +172 -0
  73. package/AISB/catalog/aisb.t3.031_circuitstability.zh.yaml +134 -0
  74. package/AISB/catalog/aisb.t3.032_ptsolver.yaml +169 -0
  75. package/AISB/catalog/aisb.t3.032_ptsolver.zh.yaml +135 -0
  76. package/AISB/catalog/aisb.t3.033_gcse.yaml +144 -0
  77. package/AISB/catalog/aisb.t3.033_gcse.zh.yaml +126 -0
  78. package/AISB/catalog/aisb.t3.034_ensemblewm.yaml +183 -0
  79. package/AISB/catalog/aisb.t3.034_ensemblewm.zh.yaml +146 -0
  80. package/AISB/catalog/aisb.t3.035_moralvalueswa.yaml +207 -0
  81. package/AISB/catalog/aisb.t3.035_moralvalueswa.zh.yaml +165 -0
  82. package/AISB/catalog/aisb.t3.036_weakstrongpref.yaml +210 -0
  83. package/AISB/catalog/aisb.t3.036_weakstrongpref.zh.yaml +194 -0
  84. package/AISB/catalog/aisb.t3.037_dementiamask.yaml +172 -0
  85. package/AISB/catalog/aisb.t3.037_dementiamask.zh.yaml +132 -0
  86. package/AISB/catalog/aisb.t3.038_tinysam.yaml +284 -0
  87. package/AISB/catalog/aisb.t3.038_tinysam.zh.yaml +240 -0
  88. package/AISB/catalog/aisb.t3.039_calf.yaml +224 -0
  89. package/AISB/catalog/aisb.t3.039_calf.zh.yaml +194 -0
  90. package/AISB/catalog/aisb.t3.040_graniteguardian.yaml +199 -0
  91. package/AISB/catalog/aisb.t3.040_graniteguardian.zh.yaml +174 -0
  92. package/AISB/catalog/aisb.t3.041_amdm.yaml +149 -0
  93. package/AISB/catalog/aisb.t3.041_amdm.zh.yaml +137 -0
  94. package/AISB/catalog/aisb.t3.042_xpatch.yaml +216 -0
  95. package/AISB/catalog/aisb.t3.042_xpatch.zh.yaml +182 -0
  96. package/AISB/catalog/aisb.t3.043_vhm.yaml +268 -0
  97. package/AISB/catalog/aisb.t3.043_vhm.zh.yaml +193 -0
  98. package/AISB/catalog/aisb.t3.044_rgvi.yaml +224 -0
  99. package/AISB/catalog/aisb.t3.044_rgvi.zh.yaml +176 -0
  100. package/AISB/catalog/aisb.t3.045_pslstm.yaml +203 -0
  101. package/AISB/catalog/aisb.t3.045_pslstm.zh.yaml +179 -0
  102. package/AISB/catalog/aisb.t3.046_nonstatts.yaml +208 -0
  103. package/AISB/catalog/aisb.t3.046_nonstatts.zh.yaml +194 -0
  104. package/AISB/catalog/aisb.t3.047_timepfn.yaml +156 -0
  105. package/AISB/catalog/aisb.t3.047_timepfn.zh.yaml +124 -0
  106. package/AISB/catalog/aisb.t3.048_proxyspex.yaml +148 -0
  107. package/AISB/catalog/aisb.t3.048_proxyspex.zh.yaml +125 -0
  108. package/AISB/catalog/aisb.t3.049_hogwildinference.yaml +183 -0
  109. package/AISB/catalog/aisb.t3.049_hogwildinference.zh.yaml +138 -0
  110. package/AISB/catalog/aisb.t3.050_causalpfn.yaml +214 -0
  111. package/AISB/catalog/aisb.t3.050_causalpfn.zh.yaml +190 -0
  112. package/AISB/catalog/aisb.t3.051_flashtp.yaml +169 -0
  113. package/AISB/catalog/aisb.t3.051_flashtp.zh.yaml +124 -0
  114. package/AISB/catalog/aisb.t3.052_nsdiff.yaml +155 -0
  115. package/AISB/catalog/aisb.t3.052_nsdiff.zh.yaml +138 -0
  116. package/AISB/catalog/aisb.t3.053_k2vae.yaml +158 -0
  117. package/AISB/catalog/aisb.t3.053_k2vae.zh.yaml +132 -0
  118. package/AISB/catalog/aisb.t3.054_timebase.yaml +178 -0
  119. package/AISB/catalog/aisb.t3.054_timebase.zh.yaml +158 -0
  120. package/AISB/catalog/aisb.t3.055_csbrain.yaml +238 -0
  121. package/AISB/catalog/aisb.t3.055_csbrain.zh.yaml +184 -0
  122. package/AISB/catalog/aisb.t3.056_infosam.yaml +224 -0
  123. package/AISB/catalog/aisb.t3.056_infosam.zh.yaml +189 -0
  124. package/AISB/catalog/aisb.t3.057_mdreid.yaml +129 -0
  125. package/AISB/catalog/aisb.t3.057_mdreid.zh.yaml +117 -0
  126. package/AISB/catalog/aisb.t3.058_mindglitch.yaml +171 -0
  127. package/AISB/catalog/aisb.t3.058_mindglitch.zh.yaml +145 -0
  128. package/AISB/catalog/aisb.t3.059_selfsupervised.yaml +154 -0
  129. package/AISB/catalog/aisb.t3.059_selfsupervised.zh.yaml +125 -0
  130. package/AISB/catalog/aisb.t3.060_iaggad.yaml +121 -0
  131. package/AISB/catalog/aisb.t3.060_iaggad.zh.yaml +100 -0
  132. package/AISB/catalog/aisb.t3.061_hsgkn.yaml +136 -0
  133. package/AISB/catalog/aisb.t3.061_hsgkn.zh.yaml +113 -0
  134. package/AISB/catalog/aisb.t3.062_visionts.yaml +237 -0
  135. package/AISB/catalog/aisb.t3.062_visionts.zh.yaml +216 -0
  136. package/AISB/catalog/aisb.t3.063_tsrag.yaml +162 -0
  137. package/AISB/catalog/aisb.t3.063_tsrag.zh.yaml +138 -0
  138. package/AISB/catalog/aisb.t3.064_pir.yaml +221 -0
  139. package/AISB/catalog/aisb.t3.064_pir.zh.yaml +197 -0
  140. package/AISB/catalog/aisb.t3.065_proteinbinding.yaml +234 -0
  141. package/AISB/catalog/aisb.t3.065_proteinbinding.zh.yaml +167 -0
  142. package/AISB/catalog/aisb.t3.066_tropicalattention.yaml +267 -0
  143. package/AISB/catalog/aisb.t3.066_tropicalattention.zh.yaml +229 -0
  144. package/AISB/catalog/aisb.t3.067_kanad.yaml +193 -0
  145. package/AISB/catalog/aisb.t3.067_kanad.zh.yaml +167 -0
  146. package/AISB/catalog/aisb.t3.068_sempo.yaml +187 -0
  147. package/AISB/catalog/aisb.t3.068_sempo.zh.yaml +148 -0
  148. package/AISB/catalog/aisb.t3.069_treehfd.yaml +129 -0
  149. package/AISB/catalog/aisb.t3.069_treehfd.zh.yaml +111 -0
  150. package/AISB/catalog/aisb.t3.070_certifiedunlearning.yaml +224 -0
  151. package/AISB/catalog/aisb.t3.070_certifiedunlearning.zh.yaml +171 -0
  152. package/AISB/catalog/aisb.t3.071_neuralmjd.yaml +142 -0
  153. package/AISB/catalog/aisb.t3.071_neuralmjd.zh.yaml +120 -0
  154. package/AISB/catalog/aisb.t3.072_fedgmt.yaml +181 -0
  155. package/AISB/catalog/aisb.t3.072_fedgmt.zh.yaml +158 -0
  156. package/AISB/catalog/aisb.t3.073_rld.yaml +161 -0
  157. package/AISB/catalog/aisb.t3.073_rld.zh.yaml +129 -0
  158. package/AISB/catalog/aisb.t3.074_lsvi.yaml +163 -0
  159. package/AISB/catalog/aisb.t3.074_lsvi.zh.yaml +129 -0
  160. package/AISB/catalog/aisb.t3.075_treeslicedentropy.yaml +201 -0
  161. package/AISB/catalog/aisb.t3.075_treeslicedentropy.zh.yaml +148 -0
  162. package/AISB/catalog/aisb.t3.076_aanet.yaml +169 -0
  163. package/AISB/catalog/aisb.t3.076_aanet.zh.yaml +129 -0
  164. package/AISB/catalog/aisb.t3.077_cmnn.yaml +199 -0
  165. package/AISB/catalog/aisb.t3.077_cmnn.zh.yaml +165 -0
  166. package/AISB/catalog/aisb.t3.078_conformalanomaly.yaml +146 -0
  167. package/AISB/catalog/aisb.t3.078_conformalanomaly.zh.yaml +117 -0
  168. package/AISB/catalog/aisb.t3.079_dpfkmeans.yaml +131 -0
  169. package/AISB/catalog/aisb.t3.079_dpfkmeans.zh.yaml +104 -0
  170. package/AISB/catalog/aisb.t3.080_latentscorereweight.yaml +169 -0
  171. package/AISB/catalog/aisb.t3.080_latentscorereweight.zh.yaml +123 -0
  172. package/AISB/catalog/aisb.t3.081_qmamba.yaml +150 -0
  173. package/AISB/catalog/aisb.t3.081_qmamba.zh.yaml +117 -0
  174. package/AISB/catalog/aisb.t3.082_onlinellmrouting.yaml +160 -0
  175. package/AISB/catalog/aisb.t3.082_onlinellmrouting.zh.yaml +133 -0
  176. package/AISB/catalog/aisb.t3.083_starformer.yaml +178 -0
  177. package/AISB/catalog/aisb.t3.083_starformer.zh.yaml +140 -0
  178. package/AISB/catalog/aisb.t3.084_ift.yaml +139 -0
  179. package/AISB/catalog/aisb.t3.084_ift.zh.yaml +111 -0
  180. package/AISB/catalog/aisb.t3.085_neuralsurv.yaml +183 -0
  181. package/AISB/catalog/aisb.t3.085_neuralsurv.zh.yaml +143 -0
  182. package/AISB/catalog/aisb.t3.086_stella.yaml +197 -0
  183. package/AISB/catalog/aisb.t3.086_stella.zh.yaml +142 -0
  184. package/AISB/catalog/aisb.t3.087_moses.yaml +167 -0
  185. package/AISB/catalog/aisb.t3.087_moses.zh.yaml +132 -0
  186. package/AISB/catalog/aisb.t3.088_channelnorm.yaml +140 -0
  187. package/AISB/catalog/aisb.t3.088_channelnorm.zh.yaml +109 -0
  188. package/AISB/catalog/aisb.t3.089_causalvelocity.yaml +730 -0
  189. package/AISB/catalog/aisb.t3.089_causalvelocity.zh.yaml +668 -0
  190. package/AISB/catalog/aisb.t3.090_rstib.yaml +144 -0
  191. package/AISB/catalog/aisb.t3.090_rstib.zh.yaml +109 -0
  192. package/AISB/catalog/aisb.t3.091_timeawarecausal.yaml +132 -0
  193. package/AISB/catalog/aisb.t3.091_timeawarecausal.zh.yaml +107 -0
  194. package/AISB/catalog/aisb.t3.092_kmeanslocalopt.yaml +138 -0
  195. package/AISB/catalog/aisb.t3.092_kmeanslocalopt.zh.yaml +110 -0
  196. package/AISB/catalog/aisb.t3.093_fedwmsam.yaml +134 -0
  197. package/AISB/catalog/aisb.t3.093_fedwmsam.zh.yaml +106 -0
  198. package/AISB/catalog/aisb.t3.094_boundre.yaml +147 -0
  199. package/AISB/catalog/aisb.t3.094_boundre.zh.yaml +114 -0
  200. package/AISB/catalog/aisb.t3.095_fastfeaturecp.yaml +153 -0
  201. package/AISB/catalog/aisb.t3.095_fastfeaturecp.zh.yaml +118 -0
  202. package/AISB/catalog/aisb.t3.096_m3svm.yaml +189 -0
  203. package/AISB/catalog/aisb.t3.096_m3svm.zh.yaml +149 -0
  204. package/AISB/catalog/aisb.t3.097_wassersteintl.yaml +212 -0
  205. package/AISB/catalog/aisb.t3.097_wassersteintl.zh.yaml +169 -0
  206. package/AISB/catalog/aisb.t3.098_xmahalanobis.yaml +171 -0
  207. package/AISB/catalog/aisb.t3.098_xmahalanobis.zh.yaml +127 -0
  208. package/AISB/catalog/aisb.t3.099_ollalanding.yaml +248 -0
  209. package/AISB/catalog/aisb.t3.099_ollalanding.zh.yaml +182 -0
  210. package/AISB/catalog/aisb.t3.100_invmissingdata.yaml +179 -0
  211. package/AISB/catalog/aisb.t3.100_invmissingdata.zh.yaml +150 -0
  212. package/AISB/catalog/aisb.t3.101_acia.yaml +164 -0
  213. package/AISB/catalog/aisb.t3.101_acia.zh.yaml +109 -0
  214. package/AISB/catalog/aisb.t3.102_stochasticff.yaml +178 -0
  215. package/AISB/catalog/aisb.t3.102_stochasticff.zh.yaml +130 -0
  216. package/AISB/catalog/aisb.t3.103_qdcp.yaml +150 -0
  217. package/AISB/catalog/aisb.t3.103_qdcp.zh.yaml +116 -0
  218. package/AISB/catalog/aisb.t3.104_balancedactiveinf.yaml +137 -0
  219. package/AISB/catalog/aisb.t3.104_balancedactiveinf.zh.yaml +104 -0
  220. package/AISB/catalog/aisb.t3.105_binaryclasseval.yaml +161 -0
  221. package/AISB/catalog/aisb.t3.105_binaryclasseval.zh.yaml +130 -0
  222. package/AISB/image/001_aisb.t3.001_savvy.jpg +0 -0
  223. package/AISB/image/002_aisb.t3.002_pinet.jpg +0 -0
  224. package/AISB/image/003_aisb.t3.003_dmsqd.jpg +0 -0
  225. package/AISB/image/004_aisb.t3.004_decentralattn.jpg +0 -0
  226. package/AISB/image/005_aisb.t3.005_tsae.jpg +0 -0
  227. package/AISB/image/006_aisb.t3.006_physense.jpg +0 -0
  228. package/AISB/image/007_aisb.t3.007_reasoningiqa.jpg +0 -0
  229. package/AISB/image/008_aisb.t3.008_meanflows.jpg +0 -0
  230. package/AISB/image/009_aisb.t3.009_scoremissing.jpg +0 -0
  231. package/AISB/image/010_aisb.t3.010_suitabilityfilter.jpg +0 -0
  232. package/AISB/image/011_aisb.t3.011_osd.jpg +0 -0
  233. package/AISB/image/012_aisb.t3.012_efficientqat.jpg +0 -0
  234. package/AISB/image/013_aisb.t3.013_appl.jpg +0 -0
  235. package/AISB/image/014_aisb.t3.014_piguard.jpg +0 -0
  236. package/AISB/image/015_aisb.t3.015_frspec.jpg +0 -0
  237. package/AISB/image/016_aisb.t3.016_mathfusion.jpg +0 -0
  238. package/AISB/image/017_aisb.t3.017_multimodalglp.jpg +0 -0
  239. package/AISB/image/018_aisb.t3.018_cotsynth.jpg +0 -0
  240. package/AISB/image/019_aisb.t3.019_dyscaleut.jpg +0 -0
  241. package/AISB/image/020_aisb.t3.020_aristotle.jpg +0 -0
  242. package/AISB/image/021_aisb.t3.021_tokenrecycling.jpg +0 -0
  243. package/AISB/image/022_aisb.t3.022_chainofreasoning.jpg +0 -0
  244. package/AISB/image/023_aisb.t3.023_guidedembed.jpg +0 -0
  245. package/AISB/image/024_aisb.t3.024_outputcentric.jpg +0 -0
  246. package/AISB/image/025_aisb.t3.025_deeper.jpg +0 -0
  247. package/AISB/image/026_aisb.t3.026_gartkg.jpg +0 -0
  248. package/AISB/image/027_aisb.t3.027_citeeval.jpg +0 -0
  249. package/AISB/image/028_aisb.t3.028_sbam.jpg +0 -0
  250. package/AISB/image/029_aisb.t3.029_cdqgeoembed.jpg +0 -0
  251. package/AISB/image/030_aisb.t3.030_processrm.jpg +0 -0
  252. package/AISB/image/031_aisb.t3.031_circuitstability.jpg +0 -0
  253. package/AISB/image/032_aisb.t3.032_ptsolver.jpg +0 -0
  254. package/AISB/image/033_aisb.t3.033_gcse.jpg +0 -0
  255. package/AISB/image/034_aisb.t3.034_ensemblewm.jpg +0 -0
  256. package/AISB/image/035_aisb.t3.035_moralvalueswa.jpg +0 -0
  257. package/AISB/image/036_aisb.t3.036_weakstrongpref.jpg +0 -0
  258. package/AISB/image/037_aisb.t3.037_dementiamask.jpg +0 -0
  259. package/AISB/image/038_aisb.t3.038_tinysam.jpg +0 -0
  260. package/AISB/image/039_aisb.t3.039_calf.jpg +0 -0
  261. package/AISB/image/040_aisb.t3.040_graniteguardian.jpg +0 -0
  262. package/AISB/image/041_aisb.t3.041_amdm.jpg +0 -0
  263. package/AISB/image/042_aisb.t3.042_xpatch.jpg +0 -0
  264. package/AISB/image/043_aisb.t3.043_vhm.jpg +0 -0
  265. package/AISB/image/044_aisb.t3.044_rgvi.jpg +0 -0
  266. package/AISB/image/045_aisb.t3.045_pslstm.jpg +0 -0
  267. package/AISB/image/046_aisb.t3.046_nonstatts.jpg +0 -0
  268. package/AISB/image/047_aisb.t3.047_timepfn.jpg +0 -0
  269. package/AISB/image/048_aisb.t3.048_proxyspex.jpg +0 -0
  270. package/AISB/image/049_aisb.t3.049_hogwildinference.jpg +0 -0
  271. package/AISB/image/050_aisb.t3.050_causalpfn.jpg +0 -0
  272. package/AISB/image/051_aisb.t3.051_flashtp.jpg +0 -0
  273. package/AISB/image/052_aisb.t3.052_nsdiff.jpg +0 -0
  274. package/AISB/image/053_aisb.t3.053_k2vae.jpg +0 -0
  275. package/AISB/image/054_aisb.t3.054_timebase.jpg +0 -0
  276. package/AISB/image/055_aisb.t3.055_csbrain.jpg +0 -0
  277. package/AISB/image/056_aisb.t3.056_infosam.jpg +0 -0
  278. package/AISB/image/057_aisb.t3.057_mdreid.jpg +0 -0
  279. package/AISB/image/058_aisb.t3.058_mindglitch.jpg +0 -0
  280. package/AISB/image/059_aisb.t3.059_selfsupervised.jpg +0 -0
  281. package/AISB/image/060_aisb.t3.060_iaggad.jpg +0 -0
  282. package/AISB/image/061_aisb.t3.061_hsgkn.jpg +0 -0
  283. package/AISB/image/062_aisb.t3.062_visionts.jpg +0 -0
  284. package/AISB/image/063_aisb.t3.063_tsrag.jpg +0 -0
  285. package/AISB/image/064_aisb.t3.064_pir.jpg +0 -0
  286. package/AISB/image/065_aisb.t3.065_proteinbinding.jpg +0 -0
  287. package/AISB/image/066_aisb.t3.066_tropicalattention.jpg +0 -0
  288. package/AISB/image/067_aisb.t3.067_kanad.jpg +0 -0
  289. package/AISB/image/068_aisb.t3.068_sempo.jpg +0 -0
  290. package/AISB/image/069_aisb.t3.069_treehfd.jpg +0 -0
  291. package/AISB/image/070_aisb.t3.070_certifiedunlearning.jpg +0 -0
  292. package/AISB/image/071_aisb.t3.071_neuralmjd.jpg +0 -0
  293. package/AISB/image/072_aisb.t3.072_fedgmt.jpg +0 -0
  294. package/AISB/image/073_aisb.t3.073_rld.jpg +0 -0
  295. package/AISB/image/074_aisb.t3.074_lsvi.jpg +0 -0
  296. package/AISB/image/075_aisb.t3.075_treeslicedentropy.jpg +0 -0
  297. package/AISB/image/076_aisb.t3.076_aanet.jpg +0 -0
  298. package/AISB/image/077_aisb.t3.077_cmnn.jpg +0 -0
  299. package/AISB/image/078_aisb.t3.078_conformalanomaly.jpg +0 -0
  300. package/AISB/image/079_aisb.t3.079_dpfkmeans.jpg +0 -0
  301. package/AISB/image/080_aisb.t3.080_latentscorereweight.jpg +0 -0
  302. package/AISB/image/081_aisb.t3.081_qmamba.jpg +0 -0
  303. package/AISB/image/082_aisb.t3.082_onlinellmrouting.jpg +0 -0
  304. package/AISB/image/083_aisb.t3.083_starformer.jpg +0 -0
  305. package/AISB/image/084_aisb.t3.084_ift.jpg +0 -0
  306. package/AISB/image/085_aisb.t3.085_neuralsurv.jpg +0 -0
  307. package/AISB/image/086_aisb.t3.086_stella.jpg +0 -0
  308. package/AISB/image/087_aisb.t3.087_moses.jpg +0 -0
  309. package/AISB/image/088_aisb.t3.088_channelnorm.jpg +0 -0
  310. package/AISB/image/089_aisb.t3.089_causalvelocity.jpg +0 -0
  311. package/AISB/image/090_aisb.t3.090_rstib.jpg +0 -0
  312. package/AISB/image/091_aisb.t3.091_timeawarecausal.jpg +0 -0
  313. package/AISB/image/092_aisb.t3.092_kmeanslocalopt.jpg +0 -0
  314. package/AISB/image/093_aisb.t3.093_fedwmsam.jpg +0 -0
  315. package/AISB/image/094_aisb.t3.094_boundre.jpg +0 -0
  316. package/AISB/image/095_aisb.t3.095_fastfeaturecp.jpg +0 -0
  317. package/AISB/image/096_aisb.t3.096_m3svm.jpg +0 -0
  318. package/AISB/image/097_aisb.t3.097_wassersteintl.jpg +0 -0
  319. package/AISB/image/098_aisb.t3.098_xmahalanobis.jpg +0 -0
  320. package/AISB/image/099_aisb.t3.099_ollalanding.jpg +0 -0
  321. package/AISB/image/100_aisb.t3.100_invmissingdata.jpg +0 -0
  322. package/AISB/image/101_aisb.t3.101_acia.jpg +0 -0
  323. package/AISB/image/102_aisb.t3.102_stochasticff.jpg +0 -0
  324. package/AISB/image/103_aisb.t3.103_qdcp.jpg +0 -0
  325. package/AISB/image/104_aisb.t3.104_balancedactiveinf.jpg +0 -0
  326. package/AISB/image/105_aisb.t3.105_binaryclasseval.jpg +0 -0
  327. package/AISB/image/106_aisb.t1.reasoning_lite.jpg +0 -0
  328. package/AISB/image/107_aisb.t2.paper_audit.jpg +0 -0
  329. package/AISB/image/108_aisb.t3.multi_gpu_search.jpg +0 -0
  330. package/AISB/image/109_aisb.t3.tdc_admet.jpg +0 -0
  331. package/AISB/image/aisb.b1.agentic_coding.svg +16 -0
  332. package/AISB/image/aisb.b10.climate_earth.svg +16 -0
  333. package/AISB/image/aisb.b11.model_efficiency.svg +16 -0
  334. package/AISB/image/aisb.b12.embodied_ai.svg +16 -0
  335. package/AISB/image/aisb.b2.agent_systems.svg +16 -0
  336. package/AISB/image/aisb.b3.self_evolving_rl.svg +16 -0
  337. package/AISB/image/aisb.b4.lm_reasoning.svg +16 -0
  338. package/AISB/image/aisb.b5.math_proof.svg +16 -0
  339. package/AISB/image/aisb.b6.research_process.svg +16 -0
  340. package/AISB/image/aisb.b7.multimodal_fusion.svg +16 -0
  341. package/AISB/image/aisb.b8.lifesci_drug.svg +16 -0
  342. package/AISB/image/aisb.b9.material_science.svg +16 -0
  343. package/README.md +196 -32
  344. package/bin/ds.js +924 -66
  345. package/docs/en/00_QUICK_START.md +195 -18
  346. package/docs/en/01_SETTINGS_REFERENCE.md +468 -96
  347. package/docs/en/02_START_RESEARCH_GUIDE.md +26 -5
  348. package/docs/en/03_QQ_CONNECTOR_GUIDE.md +14 -3
  349. package/docs/en/04_LINGZHU_CONNECTOR_GUIDE.md +2 -0
  350. package/docs/en/05_TUI_GUIDE.md +171 -2
  351. package/docs/en/07_MEMORY_AND_MCP.md +38 -2
  352. package/docs/en/09_DOCTOR.md +78 -7
  353. package/docs/en/10_WEIXIN_CONNECTOR_GUIDE.md +38 -1
  354. package/docs/en/11_LICENSE_AND_RISK.md +4 -0
  355. package/docs/en/12_GUIDED_WORKFLOW_TOUR.md +15 -0
  356. package/docs/en/14_PROMPT_SKILLS_AND_MCP_GUIDE.md +9 -0
  357. package/docs/en/15_CODEX_PROVIDER_SETUP.md +624 -180
  358. package/docs/en/16_TELEGRAM_CONNECTOR_GUIDE.md +14 -0
  359. package/docs/en/17_WHATSAPP_CONNECTOR_GUIDE.md +14 -0
  360. package/docs/en/18_FEISHU_CONNECTOR_GUIDE.md +14 -0
  361. package/docs/en/21_LOCAL_MODEL_BACKENDS_GUIDE.md +386 -0
  362. package/docs/en/22_BENCHSTORE_YAML_REFERENCE.md +469 -0
  363. package/docs/en/23_BENCHSTORE_GITHUB_RELEASES_SPEC.md +316 -0
  364. package/docs/en/24_CLAUDE_CODE_PROVIDER_SETUP.md +469 -0
  365. package/docs/en/25_OPENCODE_PROVIDER_SETUP.md +653 -0
  366. package/docs/en/26_CITATION_AND_ATTRIBUTION.md +119 -0
  367. package/docs/en/27_KIMI_CODE_PROVIDER_SETUP.md +180 -0
  368. package/docs/en/28_DISCORD_CONNECTOR_GUIDE.md +61 -0
  369. package/docs/en/29_SLACK_CONNECTOR_GUIDE.md +60 -0
  370. package/docs/en/30_SETTINGS_CONTROL_CENTER_GUIDE.md +371 -0
  371. package/docs/en/{19_LOCAL_BROWSER_AUTH.md → 31_LOCAL_BROWSER_AUTH.md} +1 -1
  372. package/docs/en/32_WINDOWS_WSL2_DEPLOYMENT_GUIDE.md +273 -0
  373. package/docs/en/33_WORKSPACE_EXPLORER_QA.md +121 -0
  374. package/docs/en/91_DEVELOPMENT.md +266 -0
  375. package/docs/en/99_ACKNOWLEDGEMENTS.md +24 -19
  376. package/docs/en/README.md +48 -7
  377. package/docs/images/admin/admin-connectors-health-en.png +0 -0
  378. package/docs/images/admin/admin-controllers-en.png +0 -0
  379. package/docs/images/admin/admin-diagnostics-en.png +0 -0
  380. package/docs/images/admin/admin-errors-en.png +0 -0
  381. package/docs/images/admin/admin-issues-en.png +0 -0
  382. package/docs/images/admin/admin-logs-en.png +0 -0
  383. package/docs/images/admin/admin-quest-detail-en.png +0 -0
  384. package/docs/images/admin/admin-quests-en.png +0 -0
  385. package/docs/images/admin/admin-repairs-en.png +0 -0
  386. package/docs/images/admin/admin-runtime-en.png +0 -0
  387. package/docs/images/admin/admin-search-en.png +0 -0
  388. package/docs/images/admin/admin-stats-en.png +0 -0
  389. package/docs/images/admin/admin-summary-en.png +0 -0
  390. package/docs/images/connectors/connector-discord-en.png +0 -0
  391. package/docs/images/connectors/connector-feishu-en.png +0 -0
  392. package/docs/images/connectors/connector-lingzhu-en.png +0 -0
  393. package/docs/images/connectors/connector-qq-en.png +0 -0
  394. package/docs/images/connectors/connector-slack-en.png +0 -0
  395. package/docs/images/connectors/connector-telegram-en.png +0 -0
  396. package/docs/images/connectors/connector-weixin-en.png +0 -0
  397. package/docs/images/connectors/connector-whatsapp-en.png +0 -0
  398. package/docs/images/settings/settings-baselines-en.png +0 -0
  399. package/docs/images/settings/settings-config-en.png +0 -0
  400. package/docs/images/settings/settings-connectors-overview-en.png +0 -0
  401. package/docs/images/settings/settings-deepxiv-en.png +0 -0
  402. package/docs/images/settings/settings-mcp-servers-en.png +0 -0
  403. package/docs/images/settings/settings-plugins-en.png +0 -0
  404. package/docs/images/settings/settings-runners-en.png +0 -0
  405. package/docs/zh/00_QUICK_START.md +142 -18
  406. package/docs/zh/01_SETTINGS_REFERENCE.md +219 -98
  407. package/docs/zh/02_START_RESEARCH_GUIDE.md +26 -5
  408. package/docs/zh/05_TUI_GUIDE.md +171 -2
  409. package/docs/zh/07_MEMORY_AND_MCP.md +29 -2
  410. package/docs/zh/09_DOCTOR.md +54 -8
  411. package/docs/zh/10_WEIXIN_CONNECTOR_GUIDE.md +24 -1
  412. package/docs/zh/11_LICENSE_AND_RISK.md +4 -0
  413. package/docs/zh/12_GUIDED_WORKFLOW_TOUR.md +15 -0
  414. package/docs/zh/14_PROMPT_SKILLS_AND_MCP_GUIDE.md +9 -0
  415. package/docs/zh/15_CODEX_PROVIDER_SETUP.md +552 -181
  416. package/docs/zh/21_LOCAL_MODEL_BACKENDS_GUIDE.md +384 -0
  417. package/docs/zh/22_BENCHSTORE_YAML_REFERENCE.md +459 -0
  418. package/docs/zh/23_BENCHSTORE_GITHUB_RELEASES_SPEC.md +287 -0
  419. package/docs/zh/23_CLAUDE_RUNNER_GUIDE.md +103 -0
  420. package/docs/zh/24_CLAUDE_CODE_PROVIDER_SETUP.md +460 -0
  421. package/docs/zh/25_OPENCODE_PROVIDER_SETUP.md +660 -0
  422. package/docs/zh/26_CITATION_AND_ATTRIBUTION.md +102 -0
  423. package/docs/zh/27_KIMI_CODE_PROVIDER_SETUP.md +51 -0
  424. package/docs/zh/{19_LOCAL_BROWSER_AUTH.md → 31_LOCAL_BROWSER_AUTH.md} +1 -1
  425. package/docs/zh/32_WINDOWS_WSL2_DEPLOYMENT_GUIDE.md +264 -0
  426. package/docs/zh/33_WORKSPACE_EXPLORER_QA.md +127 -0
  427. package/docs/zh/99_ACKNOWLEDGEMENTS.md +23 -19
  428. package/docs/zh/README.md +33 -7
  429. package/install.sh +168 -20
  430. package/package.json +5 -1
  431. package/pyproject.toml +2 -1
  432. package/src/deepscientist/__init__.py +1 -1
  433. package/src/deepscientist/acp/envelope.py +13 -0
  434. package/src/deepscientist/admin/__init__.py +3 -0
  435. package/src/deepscientist/admin/charts.py +681 -0
  436. package/src/deepscientist/admin/logs.py +119 -0
  437. package/src/deepscientist/admin/repairs.py +217 -0
  438. package/src/deepscientist/admin/service.py +1310 -0
  439. package/src/deepscientist/admin/system_info.py +700 -0
  440. package/src/deepscientist/admin/tasks.py +465 -0
  441. package/src/deepscientist/admin/tool_metrics.py +600 -0
  442. package/src/deepscientist/artifact/guidance.py +8 -4
  443. package/src/deepscientist/artifact/schemas.py +115 -0
  444. package/src/deepscientist/artifact/service.py +4268 -260
  445. package/src/deepscientist/bash_exec/monitor.py +30 -3
  446. package/src/deepscientist/bash_exec/service.py +134 -1
  447. package/src/deepscientist/benchstore/__init__.py +4 -0
  448. package/src/deepscientist/benchstore/prompt_builder.py +224 -0
  449. package/src/deepscientist/benchstore/service.py +1716 -0
  450. package/src/deepscientist/bridges/connectors.py +8 -2
  451. package/src/deepscientist/channels/weixin_ilink.py +8 -1
  452. package/src/deepscientist/cli.py +92 -17
  453. package/src/deepscientist/codex_cli_compat.py +187 -74
  454. package/src/deepscientist/config/models.py +82 -11
  455. package/src/deepscientist/config/service.py +1077 -93
  456. package/src/deepscientist/connector/weixin_support.py +48 -17
  457. package/src/deepscientist/daemon/api/handlers.py +827 -235
  458. package/src/deepscientist/daemon/api/router.py +81 -1
  459. package/src/deepscientist/daemon/app.py +1512 -85
  460. package/src/deepscientist/diagnostics/__init__.py +6 -0
  461. package/src/deepscientist/diagnostics/runner_failures.py +277 -0
  462. package/src/deepscientist/doctor.py +407 -56
  463. package/src/deepscientist/evidence_packets.py +590 -0
  464. package/src/deepscientist/home.py +52 -4
  465. package/src/deepscientist/kimi_cli_compat.py +50 -0
  466. package/src/deepscientist/latex_runtime.py +2 -2
  467. package/src/deepscientist/mcp/context.py +2 -0
  468. package/src/deepscientist/mcp/schemas.py +114 -0
  469. package/src/deepscientist/mcp/server.py +1566 -126
  470. package/src/deepscientist/memory/service.py +203 -16
  471. package/src/deepscientist/process_control.py +8 -1
  472. package/src/deepscientist/prompts/builder.py +850 -88
  473. package/src/deepscientist/quest/__init__.py +2 -2
  474. package/src/deepscientist/quest/layout.py +12 -1
  475. package/src/deepscientist/quest/node_traces.py +10 -0
  476. package/src/deepscientist/quest/service.py +1852 -161
  477. package/src/deepscientist/quest/stage_views.py +1 -1
  478. package/src/deepscientist/runners/__init__.py +18 -0
  479. package/src/deepscientist/runners/base.py +89 -1
  480. package/src/deepscientist/runners/builtins.py +13 -1
  481. package/src/deepscientist/runners/claude.py +391 -0
  482. package/src/deepscientist/runners/codex.py +480 -35
  483. package/src/deepscientist/runners/codex_telemetry.py +127 -0
  484. package/src/deepscientist/runners/kimi.py +334 -0
  485. package/src/deepscientist/runners/metadata.py +68 -0
  486. package/src/deepscientist/runners/opencode.py +414 -0
  487. package/src/deepscientist/runners/runtime_overrides.py +100 -0
  488. package/src/deepscientist/runners/simple_cli.py +538 -0
  489. package/src/deepscientist/runtime_storage.py +303 -0
  490. package/src/deepscientist/shared.py +80 -16
  491. package/src/deepscientist/skills/installer.py +37 -0
  492. package/src/deepscientist/skills/registry.py +2 -0
  493. package/src/deepscientist/tinytex.py +2 -2
  494. package/src/deepscientist/tui.py +10 -3
  495. package/src/prompts/benchstore/system.md +77 -0
  496. package/src/prompts/connectors/qq.md +33 -2
  497. package/src/prompts/connectors/weixin.md +208 -23
  498. package/src/prompts/contracts/admin_ops.md +74 -0
  499. package/src/prompts/contracts/admin_ops_knowledge.md +138 -0
  500. package/src/prompts/contracts/shared_interaction.md +5 -10
  501. package/src/prompts/start_setup/system.md +422 -0
  502. package/src/prompts/system.md +411 -304
  503. package/src/prompts/system_copilot.md +89 -0
  504. package/src/skills/analysis-campaign/SKILL.md +239 -578
  505. package/src/skills/analysis-campaign/references/artifact-flow-examples.md +102 -0
  506. package/src/skills/analysis-campaign/references/boundary-cases.md +98 -0
  507. package/src/skills/analysis-campaign/references/campaign-checklist-template.md +39 -24
  508. package/src/skills/analysis-campaign/references/campaign-design.md +26 -10
  509. package/src/skills/analysis-campaign/references/campaign-plan-template.md +53 -54
  510. package/src/skills/analysis-campaign/references/operational-guidance.md +97 -0
  511. package/src/skills/analysis-campaign/references/writing-facing-slice-examples.md +10 -20
  512. package/src/skills/baseline/SKILL.md +183 -461
  513. package/src/skills/baseline/references/artifact-flow-examples.md +106 -0
  514. package/src/skills/baseline/references/artifact-payload-examples.md +1 -1
  515. package/src/skills/baseline/references/baseline-checklist-template.md +27 -35
  516. package/src/skills/baseline/references/baseline-plan-template.md +37 -76
  517. package/src/skills/baseline/references/boundary-cases.md +86 -0
  518. package/src/skills/baseline/references/codebase-audit-checklist.md +2 -6
  519. package/src/skills/baseline/references/comparability-contract.md +7 -12
  520. package/src/skills/baseline/references/operational-guidance.md +56 -0
  521. package/src/skills/baseline/references/route-selection.md +5 -25
  522. package/src/skills/decision/SKILL.md +113 -306
  523. package/src/skills/decision/references/checkpoint-memory-template.md +47 -0
  524. package/src/skills/decision/references/operational-guidance.md +94 -0
  525. package/src/skills/decision/references/research-route-criteria.md +7 -8
  526. package/src/skills/decision/references/strategic-decision-template.md +13 -26
  527. package/src/skills/experiment/SKILL.md +132 -670
  528. package/src/skills/experiment/references/execution-playbook.md +374 -0
  529. package/src/skills/experiment/references/main-experiment-checklist-template.md +26 -2
  530. package/src/skills/experiment/references/main-experiment-plan-template.md +28 -17
  531. package/src/skills/experiment/references/operational-guidance.md +108 -0
  532. package/src/skills/finalize/SKILL.md +62 -0
  533. package/src/skills/finalize/references/checkpoint-memory-template.md +49 -0
  534. package/src/skills/finalize/references/resume-packet-template.md +7 -0
  535. package/src/skills/idea/SKILL.md +228 -15
  536. package/src/skills/idea/references/controlled-brainstorming-playbook.md +78 -0
  537. package/src/skills/idea/references/current-board-packet-template.md +61 -0
  538. package/src/skills/idea/references/high-value-idea-sourcing.md +119 -0
  539. package/src/skills/idea/references/idea-generation-playbook.md +21 -0
  540. package/src/skills/idea/references/idea-thinking-flow.md +6 -0
  541. package/src/skills/idea/references/literature-survey-template.md +3 -0
  542. package/src/skills/idea/references/objective-contract-template.md +54 -0
  543. package/src/skills/idea/references/outline-seeding-example.md +56 -0
  544. package/src/skills/idea/references/pre-idea-draft-template.md +105 -0
  545. package/src/skills/idea/references/related-work-playbook.md +75 -2
  546. package/src/skills/idea/references/research-history-playbook.md +114 -0
  547. package/src/skills/idea/references/selection-gate.md +58 -6
  548. package/src/skills/intake-audit/SKILL.md +43 -2
  549. package/src/skills/intake-audit/references/state-audit-template.md +10 -0
  550. package/src/skills/nature-data/SKILL.md +128 -0
  551. package/src/skills/nature-data/UPSTREAM_LICENSE.txt +21 -0
  552. package/src/skills/nature-data/agents/openai.yaml +4 -0
  553. package/src/skills/nature-data/references/chinese-author-alignment.md +84 -0
  554. package/src/skills/nature-data/references/fair-metadata-checklist.md +105 -0
  555. package/src/skills/nature-data/references/policy-principles.md +103 -0
  556. package/src/skills/nature-data/references/repository-and-identifiers.md +96 -0
  557. package/src/skills/nature-data/references/source-basis.md +54 -0
  558. package/src/skills/nature-data/references/statement-patterns.md +153 -0
  559. package/src/skills/nature-figure/SKILL.md +197 -0
  560. package/src/skills/nature-figure/UPSTREAM_LICENSE.txt +21 -0
  561. package/src/skills/nature-figure/agents/openai.yaml +4 -0
  562. package/src/skills/nature-figure/evals/evals.json +37 -0
  563. package/src/skills/nature-figure/references/api.md +428 -0
  564. package/src/skills/nature-figure/references/backend-selection.md +100 -0
  565. package/src/skills/nature-figure/references/chart-types.md +281 -0
  566. package/src/skills/nature-figure/references/common-patterns.md +349 -0
  567. package/src/skills/nature-figure/references/design-theory.md +436 -0
  568. package/src/skills/nature-figure/references/figure-contract.md +93 -0
  569. package/src/skills/nature-figure/references/nature-2026-observations.md +112 -0
  570. package/src/skills/nature-figure/references/qa-contract.md +119 -0
  571. package/src/skills/nature-figure/references/r-template-index.md +66 -0
  572. package/src/skills/nature-figure/references/r-workflow.md +161 -0
  573. package/src/skills/nature-figure/references/tutorials.md +250 -0
  574. package/src/skills/nature-paper2ppt/SKILL.md +507 -0
  575. package/src/skills/nature-paper2ppt/UPSTREAM_LICENSE.txt +21 -0
  576. package/src/skills/nature-paper2ppt/agents/openai.yaml +4 -0
  577. package/src/skills/nature-polishing/SKILL.md +385 -0
  578. package/src/skills/nature-polishing/UPSTREAM_LICENSE.txt +21 -0
  579. package/src/skills/nature-polishing/agents/openai.yaml +4 -0
  580. package/src/skills/nature-polishing/references/phrasebank-playbook.md +162 -0
  581. package/src/skills/nature-polishing/references/section-moves.md +240 -0
  582. package/src/skills/nature-polishing/references/style-guardrails.md +94 -0
  583. package/src/skills/nature-polishing/references/writing-strategy.md +148 -0
  584. package/src/skills/optimize/SKILL.md +177 -1568
  585. package/src/skills/optimize/references/brief-shaping-playbook.md +95 -0
  586. package/src/skills/optimize/references/candidate-board-template.md +13 -0
  587. package/src/skills/optimize/references/candidate-ranking-template.md +51 -0
  588. package/src/skills/optimize/references/codegen-route-playbook.md +50 -0
  589. package/src/skills/optimize/references/debug-response-template.md +29 -0
  590. package/src/skills/optimize/references/frontier-review-template.md +32 -0
  591. package/src/skills/optimize/references/fusion-playbook.md +36 -0
  592. package/src/skills/optimize/references/method-brief-template.md +73 -0
  593. package/src/skills/optimize/references/operational-guidance.md +621 -0
  594. package/src/skills/optimize/references/optimization-memory-template.md +30 -0
  595. package/src/skills/optimize/references/optimize-checklist-template.md +18 -0
  596. package/src/skills/optimize/references/plateau-response-playbook.md +28 -0
  597. package/src/skills/optimize/references/prompt-patterns.md +49 -0
  598. package/src/skills/paper-outline/SKILL.md +227 -0
  599. package/src/skills/paper-outline/references/outline-patterns.md +87 -0
  600. package/src/skills/paper-plot/SKILL.md +79 -0
  601. package/src/skills/paper-plot/agents/openai.yaml +4 -0
  602. package/src/skills/paper-plot/references/bar_grouped_hatch.md +96 -0
  603. package/src/skills/paper-plot/references/bar_paired_delta.md +72 -0
  604. package/src/skills/paper-plot/references/line_confidence_band.md +75 -0
  605. package/src/skills/paper-plot/references/line_loss_with_inset.md +65 -0
  606. package/src/skills/paper-plot/references/line_training_curve.md +44 -0
  607. package/src/skills/paper-plot/references/radar_dual_series.md +59 -0
  608. package/src/skills/paper-plot/references/scatter_broken_axis.md +59 -0
  609. package/src/skills/paper-plot/references/scatter_tsne_cluster.md +72 -0
  610. package/src/skills/paper-plot/scripts/bar_memevolve.py +109 -0
  611. package/src/skills/paper-plot/scripts/bar_spice.py +166 -0
  612. package/src/skills/paper-plot/scripts/line_aime.py +94 -0
  613. package/src/skills/paper-plot/scripts/line_loss_inset.py +157 -0
  614. package/src/skills/paper-plot/scripts/line_selfdistill.py +168 -0
  615. package/src/skills/paper-plot/scripts/radar_dora.py +151 -0
  616. package/src/skills/paper-plot/scripts/scatter_break.py +169 -0
  617. package/src/skills/paper-plot/scripts/scatter_tsne.py +133 -0
  618. package/src/skills/rebuttal/SKILL.md +9 -0
  619. package/src/skills/references/tool-usage-by-stage.md +438 -0
  620. package/src/skills/review/SKILL.md +105 -7
  621. package/src/skills/science/PROVENANCE.md +44 -0
  622. package/src/skills/science/SKILL.md +137 -0
  623. package/src/skills/science/references/artifact-science-tool.md +110 -0
  624. package/src/skills/science/references/claim-type-discipline.md +56 -0
  625. package/src/skills/science/references/domain-index.md +422 -0
  626. package/src/skills/science/references/hpc-via-bash-exec.md +42 -0
  627. package/src/skills/science/references/package-check-playbook.md +64 -0
  628. package/src/skills/science/references/package-index.min.json +3616 -0
  629. package/src/skills/science/references/packages/abinit.md +80 -0
  630. package/src/skills/science/references/packages/acts.md +73 -0
  631. package/src/skills/science/references/packages/aiida-core.md +80 -0
  632. package/src/skills/science/references/packages/alamode.md +80 -0
  633. package/src/skills/science/references/packages/amuse.md +88 -0
  634. package/src/skills/science/references/packages/anndata.md +88 -0
  635. package/src/skills/science/references/packages/arbor.md +80 -0
  636. package/src/skills/science/references/packages/arc.md +73 -0
  637. package/src/skills/science/references/packages/astropy.md +88 -0
  638. package/src/skills/science/references/packages/astroquery.md +88 -0
  639. package/src/skills/science/references/packages/atomate2.md +80 -0
  640. package/src/skills/science/references/packages/atomsmltr.md +73 -0
  641. package/src/skills/science/references/packages/awkward.md +73 -0
  642. package/src/skills/science/references/packages/batman.md +88 -0
  643. package/src/skills/science/references/packages/biopython.md +88 -0
  644. package/src/skills/science/references/packages/bloqade.md +73 -0
  645. package/src/skills/science/references/packages/brian2.md +73 -0
  646. package/src/skills/science/references/packages/bullet3.md +73 -0
  647. package/src/skills/science/references/packages/calculix.md +80 -0
  648. package/src/skills/science/references/packages/cantera.md +73 -0
  649. package/src/skills/science/references/packages/cavity-md-ipi.md +80 -0
  650. package/src/skills/science/references/packages/ccdproc.md +88 -0
  651. package/src/skills/science/references/packages/celerite2.md +88 -0
  652. package/src/skills/science/references/packages/cellrank.md +73 -0
  653. package/src/skills/science/references/packages/cesm.md +80 -0
  654. package/src/skills/science/references/packages/chemicals.md +73 -0
  655. package/src/skills/science/references/packages/chempy.md +73 -0
  656. package/src/skills/science/references/packages/cirq.md +73 -0
  657. package/src/skills/science/references/packages/coffea.md +73 -0
  658. package/src/skills/science/references/packages/cp2k.md +88 -0
  659. package/src/skills/science/references/packages/custodian.md +80 -0
  660. package/src/skills/science/references/packages/dart.md +73 -0
  661. package/src/skills/science/references/packages/datamol.md +88 -0
  662. package/src/skills/science/references/packages/dd4hep.md +73 -0
  663. package/src/skills/science/references/packages/dealii.md +80 -0
  664. package/src/skills/science/references/packages/deepchem.md +88 -0
  665. package/src/skills/science/references/packages/delphes.md +73 -0
  666. package/src/skills/science/references/packages/devito.md +80 -0
  667. package/src/skills/science/references/packages/dftb.md +88 -0
  668. package/src/skills/science/references/packages/dftd4.md +88 -0
  669. package/src/skills/science/references/packages/dftk-jl.md +80 -0
  670. package/src/skills/science/references/packages/dolfinx.md +80 -0
  671. package/src/skills/science/references/packages/drake.md +73 -0
  672. package/src/skills/science/references/packages/dumux.md +73 -0
  673. package/src/skills/science/references/packages/elk.md +80 -0
  674. package/src/skills/science/references/packages/elmerfem.md +80 -0
  675. package/src/skills/science/references/packages/enzo-e.md +88 -0
  676. package/src/skills/science/references/packages/espresso.md +80 -0
  677. package/src/skills/science/references/packages/exoplanet.md +88 -0
  678. package/src/skills/science/references/packages/fairroot.md +73 -0
  679. package/src/skills/science/references/packages/fbpic.md +80 -0
  680. package/src/skills/science/references/packages/fdtdbath-meep.md +80 -0
  681. package/src/skills/science/references/packages/geant4.md +73 -0
  682. package/src/skills/science/references/packages/geosx.md +80 -0
  683. package/src/skills/science/references/packages/gprmax.md +80 -0
  684. package/src/skills/science/references/packages/gromacs.md +80 -0
  685. package/src/skills/science/references/packages/gwaslab.md +73 -0
  686. package/src/skills/science/references/packages/gz-sim.md +73 -0
  687. package/src/skills/science/references/packages/hail.md +88 -0
  688. package/src/skills/science/references/packages/hiphive.md +80 -0
  689. package/src/skills/science/references/packages/hoomd-blue.md +80 -0
  690. package/src/skills/science/references/packages/itensor.md +73 -0
  691. package/src/skills/science/references/packages/itensors-jl.md +73 -0
  692. package/src/skills/science/references/packages/jdftx.md +73 -0
  693. package/src/skills/science/references/packages/jobflow.md +80 -0
  694. package/src/skills/science/references/packages/kadanoffbaym-jl.md +73 -0
  695. package/src/skills/science/references/packages/kite.md +80 -0
  696. package/src/skills/science/references/packages/kratos.md +80 -0
  697. package/src/skills/science/references/packages/kwant.md +73 -0
  698. package/src/skills/science/references/packages/lammps.md +80 -0
  699. package/src/skills/science/references/packages/lightkurve.md +88 -0
  700. package/src/skills/science/references/packages/limix.md +73 -0
  701. package/src/skills/science/references/packages/maxwelllink.md +80 -0
  702. package/src/skills/science/references/packages/mcdc.md +73 -0
  703. package/src/skills/science/references/packages/meep.md +80 -0
  704. package/src/skills/science/references/packages/mfem.md +80 -0
  705. package/src/skills/science/references/packages/mitgcm.md +73 -0
  706. package/src/skills/science/references/packages/modflow6.md +73 -0
  707. package/src/skills/science/references/packages/molecool.md +73 -0
  708. package/src/skills/science/references/packages/mom6.md +73 -0
  709. package/src/skills/science/references/packages/moose.md +80 -0
  710. package/src/skills/science/references/packages/mpas-model.md +73 -0
  711. package/src/skills/science/references/packages/mujoco.md +73 -0
  712. package/src/skills/science/references/packages/mumax3.md +73 -0
  713. package/src/skills/science/references/packages/nekrs.md +80 -0
  714. package/src/skills/science/references/packages/nessi.md +73 -0
  715. package/src/skills/science/references/packages/nest-simulator.md +73 -0
  716. package/src/skills/science/references/packages/netket.md +73 -0
  717. package/src/skills/science/references/packages/neuron.md +73 -0
  718. package/src/skills/science/references/packages/nextflow.md +88 -0
  719. package/src/skills/science/references/packages/nwchem.md +88 -0
  720. package/src/skills/science/references/packages/openbabel.md +88 -0
  721. package/src/skills/science/references/packages/openems.md +80 -0
  722. package/src/skills/science/references/packages/openff-toolkit.md +88 -0
  723. package/src/skills/science/references/packages/openfoam-dev.md +80 -0
  724. package/src/skills/science/references/packages/openmc.md +73 -0
  725. package/src/skills/science/references/packages/openmm.md +80 -0
  726. package/src/skills/science/references/packages/openmoc.md +73 -0
  727. package/src/skills/science/references/packages/openmx.md +80 -0
  728. package/src/skills/science/references/packages/opensees.md +80 -0
  729. package/src/skills/science/references/packages/opensn.md +80 -0
  730. package/src/skills/science/references/packages/opm-simulators.md +73 -0
  731. package/src/skills/science/references/packages/oqupy.md +73 -0
  732. package/src/skills/science/references/packages/packmol.md +80 -0
  733. package/src/skills/science/references/packages/palabos.md +80 -0
  734. package/src/skills/science/references/packages/parflow.md +80 -0
  735. package/src/skills/science/references/packages/pennylane.md +88 -0
  736. package/src/skills/science/references/packages/perceval.md +73 -0
  737. package/src/skills/science/references/packages/phono3py.md +73 -0
  738. package/src/skills/science/references/packages/phonopy.md +73 -0
  739. package/src/skills/science/references/packages/photutils.md +88 -0
  740. package/src/skills/science/references/packages/picongpu.md +80 -0
  741. package/src/skills/science/references/packages/plink-ng.md +88 -0
  742. package/src/skills/science/references/packages/precice.md +73 -0
  743. package/src/skills/science/references/packages/psc.md +80 -0
  744. package/src/skills/science/references/packages/psi4.md +88 -0
  745. package/src/skills/science/references/packages/pybinding.md +73 -0
  746. package/src/skills/science/references/packages/pyfr.md +80 -0
  747. package/src/skills/science/references/packages/pyhf.md +73 -0
  748. package/src/skills/science/references/packages/pyiron_base.md +80 -0
  749. package/src/skills/science/references/packages/pylcp.md +73 -0
  750. package/src/skills/science/references/packages/pylith.md +80 -0
  751. package/src/skills/science/references/packages/pynbody.md +88 -0
  752. package/src/skills/science/references/packages/pysam.md +88 -0
  753. package/src/skills/science/references/packages/pyscf.md +88 -0
  754. package/src/skills/science/references/packages/q-e.md +73 -0
  755. package/src/skills/science/references/packages/qibo.md +73 -0
  756. package/src/skills/science/references/packages/qiskit.md +73 -0
  757. package/src/skills/science/references/packages/quantica-jl.md +73 -0
  758. package/src/skills/science/references/packages/quantumoptics-jl.md +73 -0
  759. package/src/skills/science/references/packages/quimb.md +73 -0
  760. package/src/skills/science/references/packages/qulacs.md +73 -0
  761. package/src/skills/science/references/packages/qutip.md +73 -0
  762. package/src/skills/science/references/packages/rdkit.md +88 -0
  763. package/src/skills/science/references/packages/rmg-py.md +73 -0
  764. package/src/skills/science/references/packages/root.md +73 -0
  765. package/src/skills/science/references/packages/scanpy.md +88 -0
  766. package/src/skills/science/references/packages/scikit-allel.md +88 -0
  767. package/src/skills/science/references/packages/scikit-bio.md +88 -0
  768. package/src/skills/science/references/packages/scqubits.md +73 -0
  769. package/src/skills/science/references/packages/scuff-em.md +80 -0
  770. package/src/skills/science/references/packages/scvi-tools.md +73 -0
  771. package/src/skills/science/references/packages/seissol.md +73 -0
  772. package/src/skills/science/references/packages/sfepy.md +80 -0
  773. package/src/skills/science/references/packages/sisl.md +73 -0
  774. package/src/skills/science/references/packages/smilei.md +80 -0
  775. package/src/skills/science/references/packages/snakemake.md +88 -0
  776. package/src/skills/science/references/packages/specfem3d-globe.md +80 -0
  777. package/src/skills/science/references/packages/specutils.md +88 -0
  778. package/src/skills/science/references/packages/spglib.md +80 -0
  779. package/src/skills/science/references/packages/squidpy.md +88 -0
  780. package/src/skills/science/references/packages/starry.md +88 -0
  781. package/src/skills/science/references/packages/strawberryfields.md +73 -0
  782. package/src/skills/science/references/packages/su2.md +80 -0
  783. package/src/skills/science/references/packages/sunny-jl.md +73 -0
  784. package/src/skills/science/references/packages/sw4.md +73 -0
  785. package/src/skills/science/references/packages/swift.md +88 -0
  786. package/src/skills/science/references/packages/tdnegf.md +73 -0
  787. package/src/skills/science/references/packages/tenpy.md +73 -0
  788. package/src/skills/science/references/packages/thermo.md +73 -0
  789. package/src/skills/science/references/packages/tkwant.md +73 -0
  790. package/src/skills/science/references/packages/tvb-root.md +73 -0
  791. package/src/skills/science/references/packages/uproot5.md +73 -0
  792. package/src/skills/science/references/packages/vampire.md +80 -0
  793. package/src/skills/science/references/packages/wannier_tools.md +73 -0
  794. package/src/skills/science/references/packages/warpx.md +80 -0
  795. package/src/skills/science/references/packages/wrf.md +73 -0
  796. package/src/skills/science/references/packages/xtb.md +88 -0
  797. package/src/skills/science/references/packages/yt.md +73 -0
  798. package/src/skills/science/references/science-task-brief-template.md +71 -0
  799. package/src/skills/scout/SKILL.md +83 -425
  800. package/src/skills/scout/references/literature-scout-template.md +5 -24
  801. package/src/skills/scout/references/operational-guidance.md +191 -0
  802. package/src/skills/scout/references/paper-triage-playbook.md +11 -35
  803. package/src/skills/write/SKILL.md +744 -1246
  804. package/src/skills/write/references/experiments_analysis_patterns.md +129 -0
  805. package/src/skills/write/references/oral_package_patterns.md +252 -0
  806. package/src/skills/write/references/oral_writing_principles.md +291 -0
  807. package/src/skills/write/references/section_rewrite_checklist.md +234 -0
  808. package/src/tui/dist/app/AppContainer.js +1314 -27
  809. package/src/tui/dist/components/Composer.js +26 -1
  810. package/src/tui/dist/components/ConfigScreen.js +2 -1
  811. package/src/tui/dist/components/InputPrompt.js +25 -9
  812. package/src/tui/dist/components/MainContent.js +18 -3
  813. package/src/tui/dist/components/QuestScreen.js +3 -2
  814. package/src/tui/dist/components/UtilityScreen.js +37 -0
  815. package/src/tui/dist/hooks/useSafeInput.js +10 -0
  816. package/src/tui/dist/index.js +13 -1
  817. package/src/tui/dist/layouts/DefaultAppLayout.js +11 -8
  818. package/src/tui/dist/lib/api.js +89 -1
  819. package/src/tui/package.json +1 -1
  820. package/src/ui/dist/assets/{AnalysisPlugin-DnSm0GZn.js → AnalysisPlugin-CA94NGmI.js} +1 -1
  821. package/src/ui/dist/assets/CliPlugin-DHBzphZU.js +79 -0
  822. package/src/ui/dist/assets/CodeEditorPlugin-BOFwD2rn.js +2 -0
  823. package/src/ui/dist/assets/{CodeViewerPlugin-itb0tltR.js → CodeViewerPlugin-CqDpgjik.js} +4 -4
  824. package/src/ui/dist/assets/{DocViewerPlugin-DqKkiCI6.js → DocViewerPlugin-UDBgt8-4.js} +3 -3
  825. package/src/ui/dist/assets/GitCommitViewerPlugin-BmHtZ0bZ.js +6 -0
  826. package/src/ui/dist/assets/{GitDiffViewerPlugin-DxL2ezFG.js → GitDiffViewerPlugin-CAxjNorQ.js} +2 -2
  827. package/src/ui/dist/assets/{GitSnapshotViewer-B_RQm1YZ.js → GitSnapshotViewer-CweA6VON.js} +2 -2
  828. package/src/ui/dist/assets/{ImageViewerPlugin-tHqlXY3n.js → ImageViewerPlugin-C8wHGvGN.js} +5 -5
  829. package/src/ui/dist/assets/LabPlugin-COyyLUol.js +32 -0
  830. package/src/ui/dist/assets/{LatexPlugin-B495DTXC.js → LatexPlugin-BQjAaA5J.js} +4 -4
  831. package/src/ui/dist/assets/{MarkdownViewerPlugin-DG28-61B.js → MarkdownViewerPlugin-Dy1NE2dI.js} +3 -3
  832. package/src/ui/dist/assets/{MarketplacePlugin-BiOGT-Kj.js → MarketplacePlugin-DMIZtEJ2.js} +2 -2
  833. package/src/ui/dist/assets/NotebookEditor-CFHMq_Qt.js +91 -0
  834. package/src/ui/dist/assets/{NotebookEditor-CVsj8h_T.js → NotebookEditor-WFyd8Ybt.js} +23 -23
  835. package/src/ui/dist/assets/{PdfLoader-CASDQmxJ.js → PdfLoader-CLE5u5TS.js} +3 -3
  836. package/src/ui/dist/assets/{PdfMarkdownPlugin-BFhwoKsY.js → PdfMarkdownPlugin-_iNK_H83.js} +1 -1
  837. package/src/ui/dist/assets/PdfViewerPlugin-DgWsbInT.js +22 -0
  838. package/src/ui/dist/assets/SearchPlugin-DrZmn5iw.js +11 -0
  839. package/src/ui/dist/assets/{TextViewerPlugin-CB4DYfWO.js → TextViewerPlugin-D1-T3aC7.js} +4 -4
  840. package/src/ui/dist/assets/branding/runner-claude.svg +107 -0
  841. package/src/ui/dist/assets/branding/runner-codex.svg +10 -0
  842. package/src/ui/dist/assets/branding/runner-kimi.svg +14 -0
  843. package/src/ui/dist/assets/branding/runner-opencode.svg +7 -0
  844. package/src/ui/dist/assets/cli-store-CoZ-x5Ip.js +1 -0
  845. package/src/ui/dist/assets/{code-DLC6G24T.js → code-DbsmSd3Y.js} +1 -1
  846. package/src/ui/dist/assets/file-diff-panel-DsvyRz47.js +1 -0
  847. package/src/ui/dist/assets/{wrap-text-CwMn-iqb.js → file-jump-queue-DeQBikaw.js} +3 -3
  848. package/src/ui/dist/assets/{file-socket-Cu4Qln7Y.js → file-socket-DA5XIx88.js} +1 -1
  849. package/src/ui/dist/assets/fonts/ds-fonts.css +50 -4
  850. package/src/ui/dist/assets/images/deepxiv/register-guide.png +0 -0
  851. package/src/ui/dist/assets/index-39vY9LmZ.js +1 -0
  852. package/src/ui/dist/assets/{index-wQ7RIIRd.js → index-BsO46tJA.js} +1 -1
  853. package/src/ui/dist/assets/index-CHzJ2xtB.js +3530 -0
  854. package/src/ui/dist/assets/index-DH-zxoZ3.css +33 -0
  855. package/src/ui/dist/assets/{plugin-notebook-HbW2K-1c.js → plugin-notebook-JRhysCqj.js} +2 -2
  856. package/src/ui/dist/assets/{project-sync-CsX08Qno.js → project-sync-DPmWKmKD.js} +1 -1
  857. package/src/ui/dist/assets/{zoom-out-R-GWEhzS.js → zoom-out-DAukFWen.js} +3 -3
  858. package/src/ui/dist/index.html +3 -3
  859. package/src/skills/analysis-campaign/references/artifact-orchestration.md +0 -58
  860. package/src/skills/baseline/references/memory-playbook.md +0 -40
  861. package/src/skills/baseline/references/publishable-baseline-package.md +0 -30
  862. package/src/skills/write/references/outline-evidence-contract-example.md +0 -107
  863. package/src/skills/write/references/paper-experiment-matrix-template.md +0 -131
  864. package/src/skills/write/references/paper-section-playbook.md +0 -64
  865. package/src/skills/write/references/reviewer-first-writing.md +0 -64
  866. package/src/skills/write/references/revision-checklist.md +0 -70
  867. package/src/skills/write/references/section-contracts.md +0 -82
  868. package/src/skills/write/references/sentence-level-proofing.md +0 -49
  869. package/src/ui/dist/assets/AiManusChatView-COFACy7V.js +0 -204
  870. package/src/ui/dist/assets/CliPlugin-CvwCmDQ5.js +0 -109
  871. package/src/ui/dist/assets/CodeEditorPlugin-cOqSa0xq.js +0 -2
  872. package/src/ui/dist/assets/GitCommitViewerPlugin-DVgNHBCS.js +0 -1
  873. package/src/ui/dist/assets/LabCopilotPanel-ClMbq5Yu.js +0 -14
  874. package/src/ui/dist/assets/LabPlugin-L_SuE8ow.js +0 -22
  875. package/src/ui/dist/assets/NotebookEditor-C-4Kt1p9.js +0 -81
  876. package/src/ui/dist/assets/PdfViewerPlugin-DcOzU9vd.js +0 -17
  877. package/src/ui/dist/assets/SearchPlugin-CHj7M58O.js +0 -16
  878. package/src/ui/dist/assets/VNCViewer-CjlbyCB3.js +0 -11
  879. package/src/ui/dist/assets/bot-CFkZY-JP.js +0 -6
  880. package/src/ui/dist/assets/chevron-up-Dq5ofbht.js +0 -6
  881. package/src/ui/dist/assets/file-content-Dv4LoZec.js +0 -1
  882. package/src/ui/dist/assets/file-diff-panel-Denq-lC3.js +0 -1
  883. package/src/ui/dist/assets/file-jump-queue-DA-SdG__.js +0 -1
  884. package/src/ui/dist/assets/git-commit-horizontal-BUh6G52n.js +0 -6
  885. package/src/ui/dist/assets/image-B9HUUddG.js +0 -6
  886. package/src/ui/dist/assets/index-B2B1sg-M.js +0 -1
  887. package/src/ui/dist/assets/index-Cgla8biy.css +0 -33
  888. package/src/ui/dist/assets/index-DRyx7vAc.js +0 -1
  889. package/src/ui/dist/assets/index-Gbl53BNp.js +0 -2496
  890. package/src/ui/dist/assets/pdf-effect-queue-ZtnHFCAi.js +0 -6
  891. package/src/ui/dist/assets/popover-DL6h35vr.js +0 -1
  892. package/src/ui/dist/assets/select-DvmXt1yY.js +0 -11
  893. package/src/ui/dist/assets/sigma-7jpXazui.js +0 -6
  894. package/src/ui/dist/assets/trash-xA7kFt8i.js +0 -11
  895. package/src/ui/dist/assets/useCliAccess-DsMwDjOp.js +0 -1
  896. package/src/ui/dist/assets/useFileDiffOverlay-FuhcnKiw.js +0 -1
@@ -0,0 +1,163 @@
1
+ id: aisb.t3.074_lsvi
2
+ name: Least Squares Variational Inference
3
+ version: 0.1.0
4
+ one_line: Gradient-free variational inference via least-squares updates on tempered
5
+ log-target evaluations, supporting Gaussian BBVI and exponential-family posteriors
6
+ without gradient estimators.
7
+ task_description: 'This packaged benchmark implements LSVI (Least Squares Variational
8
+ Inference), a gradient-free, Monte Carlo-based scheme for variational inference
9
+ within exponential families. Instead of gradient-based optimization, LSVI performs
10
+ successive ordinary least squares regression on tempered log-target evaluations
11
+ under the variational approximation. Each iteration solves a fixed-point equation
12
+ via OLS, yielding a bias-corrected stochastic natural gradient descent step. The
13
+ approach avoids unstable gradient estimators required when gradients of log pi are
14
+ unavailable, such as for discrete distributions or likelihood-free inference. The
15
+ benchmark includes Gaussian variational family implementations that eliminate Fisher
16
+ information matrix inversion: O(d) complexity for mean-field Gaussians and O(d^3)
17
+ for full-covariance cases. Primary evaluation uses the Pima Indians diabetes logistic
18
+ regression task, measuring KL divergence to the true posterior via the kl_objective
19
+ metric.
20
+
21
+ '
22
+ task_mode: evaluation_driven
23
+ requires_execution: true
24
+ requires_paper: true
25
+ integrity_level: cas_plus_canary
26
+ snapshot_status: runnable
27
+ support_level: turnkey
28
+ time_band: 2-6h
29
+ cost_band: low
30
+ difficulty: medium
31
+ data_access: public
32
+ primary_outputs:
33
+ - kl_objective
34
+ - variational_inference_report
35
+ launch_profiles:
36
+ - id: gaussian_logreg
37
+ label: Gaussian Logistic Regression
38
+ description: 'Execute the packaged least-squares variational inference experiment
39
+ using Gaussian variational approximation on the Pima Indians diabetes binary classification
40
+ task. Runs 8 random seeds with 8000-step phase-1 and 1500-step phase-2 optimization.
41
+ Outputs KL divergence metrics and variational parameter trajectories.
42
+
43
+ '
44
+ dataset_download:
45
+ primary_method: bundled
46
+ sources:
47
+ - type: package
48
+ path: LSVI/
49
+ description: Benchmark code and experiments are bundled in the archive
50
+ notes:
51
+ - Pima Indians dataset is included in the package under experiments/logisticRegression/
52
+ - No external data fetching required
53
+ credential_requirements:
54
+ mode: none
55
+ items: []
56
+ notes:
57
+ - All data and code are self-contained in the package
58
+ resources:
59
+ minimum:
60
+ cpu_cores: 8
61
+ ram_gb: 16
62
+ disk_gb: 20
63
+ gpu_count: 0
64
+ gpu_vram_gb: 0
65
+ notes:
66
+ - CPU-only execution fully supported via JAX CPU backend
67
+ - 8-core CPU recommended for parallel seed execution
68
+ recommended:
69
+ cpu_cores: 16
70
+ ram_gb: 32
71
+ disk_gb: 50
72
+ gpu_count: 0
73
+ gpu_vram_gb: 0
74
+ notes:
75
+ - Additional cores reduce wall-clock time for multi-seed experiments
76
+ - GPU is optional; JAX supports GPU acceleration if available
77
+ environment:
78
+ python: '3.10'
79
+ cuda: null
80
+ pytorch: null
81
+ flash_attn: null
82
+ key_packages:
83
+ - jax>=0.4.0
84
+ - jaxlib
85
+ - numpy>=1.21
86
+ - scipy
87
+ notes:
88
+ - JAX is the primary computation library; no PyTorch dependency
89
+ - GPU support is optional via CUDA-enabled jaxlib
90
+ - CPU-only execution is the primary tested configuration
91
+ - See bundled requirements.txt or setup.py for full dependency list
92
+ risk_flags: []
93
+ risk_notes:
94
+ - No external API calls; fully offline benchmark
95
+ - CPU-bound execution eliminates GPU availability risk
96
+ - Long runtime (up to 6h) but low computational cost
97
+ recommended_when: 'Use this benchmark for evaluating probabilistic inference methods
98
+ that must operate without gradient access, including discrete variable models, likelihood-free
99
+ inference, and non-differentiable posteriors. The CPU-friendly execution profile
100
+ makes it suitable for resource-constrained environments or methodological research
101
+ on variational inference.
102
+
103
+ '
104
+ not_recommended_when: 'Do not use this benchmark for evaluating large-scale deep learning
105
+ methods, GPU-accelerated neural network training, or tasks requiring automatic differentiation
106
+ of the target density. It does not test gradient-based VI alternatives like reparameterization
107
+ tricks or score-function estimators.
108
+
109
+ '
110
+ paper:
111
+ title: Least squares variational inference
112
+ venue: NeurIPS
113
+ year: 2025
114
+ url: https://arxiv.org/abs/2502.18475
115
+ authors:
116
+ - Yvann Le Fay
117
+ - Nicolas Chopin
118
+ - Simon Barthelme
119
+ affiliation:
120
+ - ENSAE, CREST, IP Paris
121
+ - GIPSA-Lab, CNRS
122
+ download:
123
+ url: https://github.com/ResearAI/DeepScientist/releases/download/aisb-v0.0.1/aisb.t3.074_lsvi.zip
124
+ archive_type: zip
125
+ local_dir_name: paper-74-LSVI
126
+ provider: github_release
127
+ repo: ResearAI/DeepScientist
128
+ tag: aisb-v0.0.1
129
+ asset_name: aisb.t3.074_lsvi.zip
130
+ sha256: 2f33740ed8cefdcd2bfd419c0ad454037de523a1b5a515e8da465918cc54af7a
131
+ size_bytes: 71181
132
+ display:
133
+ palette_seed: cream-slate-gaussian
134
+ art_style: probabilistic-notebook
135
+ accent_priority: medium
136
+ image_path: ../image/074_aisb.t3.074_lsvi.jpg
137
+ capability_tags:
138
+ - variational_inference
139
+ - bayesian_inference
140
+ - gradient_free_optimization
141
+ - probabilistic_modeling
142
+ - research_code_optimization
143
+ aisb_direction: T3
144
+ track_fit:
145
+ - paper_track
146
+ - benchmark_track
147
+ code_anchors:
148
+ primary_executable:
149
+ path: LSVI/experiments/logisticRegression/pima_logistic_regression/gaussian.py
150
+ description: Gaussian variational inference experiment for Pima logistic regression
151
+ with BBVI baseline
152
+ variational_modules:
153
+ path: LSVI/variational/
154
+ description: Core variational inference implementations including LSVI, Laplace
155
+ approximation, and exponential family distributions
156
+ metric_contract:
157
+ primary_metric: kl_objective
158
+ backing: LSVI/experiments/logisticRegression/pima_logistic_regression/gaussian.py
159
+ provenance: code-backed
160
+ caveats:
161
+ - No benchmark execution was performed during this packaging pass
162
+ - Runtime metric values require validation before publication
163
+ - Top-level README is absent in the current snapshot
@@ -0,0 +1,129 @@
1
+ id: aisb.t3.074_lsvi
2
+ name: Least Squares Variational Inference
3
+ version: 0.1.0
4
+ one_line: 通过对温度化对数目标评估做最小二乘更新实现无梯度变分推断,支持高斯 BBVI 与指数族后验,无需梯度估计器。
5
+ task_description: 该基准封装了 LSVI(最小二乘变分推断),一种在指数族中进行变分推断的无梯度蒙特卡洛方法。LSVI 不做梯度优化,而是在变分近似分布下对温度化对数目标进行连续 OLS 回归。每次迭代通过 OLS 求解不动点方程,得到偏差校正的随机自然梯度下降步。该方法适用于无法获得 log pi 梯度的场景(如离散分布或无似然推断),可避免不稳定梯度估计器。基准包含无需 Fisher 信息矩阵求逆的高斯变分族实现:均值场 O(d),全协方差 O(d^3)。主要评测任务为 Pima Indians 糖尿病逻辑回归,使用 kl_objective 衡量与真实后验的 KL 散度。
6
+ task_mode: evaluation_driven
7
+ requires_execution: true
8
+ requires_paper: true
9
+ integrity_level: cas_plus_canary
10
+ snapshot_status: runnable
11
+ support_level: turnkey
12
+ time_band: 2-6h
13
+ cost_band: low
14
+ difficulty: medium
15
+ data_access: public
16
+ primary_outputs:
17
+ - kl_objective
18
+ - variational_inference_report
19
+ launch_profiles:
20
+ - id: gaussian_logreg
21
+ label: 高斯逻辑回归
22
+ description: 在 Pima Indians 糖尿病二分类任务上运行封装的最小二乘变分推断实验。使用 8 个随机种子,阶段一 8000 步、阶段二 1500 步优化,输出 KL 散度与变分参数轨迹。
23
+ dataset_download:
24
+ primary_method: bundled
25
+ sources:
26
+ - type: package
27
+ path: LSVI/
28
+ description: Benchmark code and experiments are bundled in the archive
29
+ notes:
30
+ - Pima Indians dataset is included in the package under experiments/logisticRegression/
31
+ - No external data fetching required
32
+ credential_requirements:
33
+ mode: none
34
+ items: []
35
+ notes:
36
+ - All data and code are self-contained in the package
37
+ resources:
38
+ minimum:
39
+ cpu_cores: 8
40
+ ram_gb: 16
41
+ disk_gb: 20
42
+ gpu_count: 0
43
+ gpu_vram_gb: 0
44
+ notes:
45
+ - CPU-only execution fully supported via JAX CPU backend
46
+ - 8-core CPU recommended for parallel seed execution
47
+ recommended:
48
+ cpu_cores: 16
49
+ ram_gb: 32
50
+ disk_gb: 50
51
+ gpu_count: 0
52
+ gpu_vram_gb: 0
53
+ notes:
54
+ - Additional cores reduce wall-clock time for multi-seed experiments
55
+ - GPU is optional; JAX supports GPU acceleration if available
56
+ environment:
57
+ python: '3.10'
58
+ cuda: null
59
+ pytorch: null
60
+ flash_attn: null
61
+ key_packages:
62
+ - jax>=0.4.0
63
+ - jaxlib
64
+ - numpy>=1.21
65
+ - scipy
66
+ notes:
67
+ - JAX is the primary computation library; no PyTorch dependency
68
+ - GPU support is optional via CUDA-enabled jaxlib
69
+ - CPU-only execution is the primary tested configuration
70
+ - See bundled requirements.txt or setup.py for full dependency list
71
+ risk_flags: []
72
+ risk_notes:
73
+ - No external API calls; fully offline benchmark
74
+ - CPU-bound execution eliminates GPU availability risk
75
+ - Long runtime (up to 6h) but low computational cost
76
+ recommended_when: 当你需要评估在无梯度条件下工作的概率推断方法时使用本基准,包括离散变量模型、无似然推断与不可微后验。其 CPU 友好配置也适合资源受限环境中的变分推断研究。
77
+ not_recommended_when: 不适用于评估大规模深度学习、GPU 加速神经网络训练,或需要目标密度自动微分的任务。它也不覆盖重参数化技巧或 score-function 估计等梯度型 VI 方案。
78
+ paper:
79
+ title: Least squares variational inference
80
+ venue: NeurIPS
81
+ year: 2025
82
+ url: https://arxiv.org/abs/2502.18475
83
+ authors:
84
+ - Yvann Le Fay
85
+ - Nicolas Chopin
86
+ - Simon Barthelme
87
+ affiliation:
88
+ - ENSAE, CREST, IP Paris
89
+ - GIPSA-Lab, CNRS
90
+ download:
91
+ url: https://github.com/ResearAI/DeepScientist/releases/download/aisb-v0.0.1/aisb.t3.074_lsvi.zip
92
+ archive_type: zip
93
+ local_dir_name: paper-74-LSVI
94
+ provider: github_release
95
+ repo: ResearAI/DeepScientist
96
+ tag: aisb-v0.0.1
97
+ asset_name: aisb.t3.074_lsvi.zip
98
+ sha256: 2f33740ed8cefdcd2bfd419c0ad454037de523a1b5a515e8da465918cc54af7a
99
+ size_bytes: 71181
100
+ display:
101
+ palette_seed: cream-slate-gaussian
102
+ art_style: probabilistic-notebook
103
+ accent_priority: medium
104
+ image_path: ../image/074_aisb.t3.074_lsvi.jpg
105
+ capability_tags:
106
+ - variational_inference
107
+ - bayesian_inference
108
+ - gradient_free_optimization
109
+ - probabilistic_modeling
110
+ - research_code_optimization
111
+ aisb_direction: T3
112
+ track_fit:
113
+ - paper_track
114
+ - benchmark_track
115
+ code_anchors:
116
+ primary_executable:
117
+ path: LSVI/experiments/logisticRegression/pima_logistic_regression/gaussian.py
118
+ description: Gaussian variational inference experiment for Pima logistic regression with BBVI baseline
119
+ variational_modules:
120
+ path: LSVI/variational/
121
+ description: Core variational inference implementations including LSVI, Laplace approximation, and exponential family distributions
122
+ metric_contract:
123
+ primary_metric: kl_objective
124
+ backing: LSVI/experiments/logisticRegression/pima_logistic_regression/gaussian.py
125
+ provenance: code-backed
126
+ caveats:
127
+ - No benchmark execution was performed during this packaging pass
128
+ - Runtime metric values require validation before publication
129
+ - Top-level README is absent in the current snapshot
@@ -0,0 +1,201 @@
1
+ id: aisb.t3.075_treeslicedentropy
2
+ name: Tree-Sliced Entropy Partial Transport
3
+ version: 0.1.0
4
+ one_line: GPU-accelerated unbalanced partial transport via tree-sliced entropy for
5
+ point clouds, image generation, and image-to-image translation.
6
+ task_description: 'This packaged benchmark covers PartialTSW (Partial Tree-Sliced
7
+ Wasserstein), an extension of Tree-Sliced Wasserstein distances to unbalanced/partial
8
+ transport settings with closed-form formulations suitable for dynamic-support distributions
9
+ in generative modeling. The task requires selecting a concrete experiment family
10
+ (point cloud gradient flow, image generation with JAX/diffusers, or image-to-image
11
+ translation) and running the corresponding transport objective or ablation sweep.
12
+ Evaluation focuses on convergence quality (relative_bias_pct), runtime performance
13
+ (mean_time_s), and stability (coefficient_of_variation) rather than internal optimizer
14
+ accuracy targets. The benchmark is code-backed by three executable anchors: convergence
15
+ analysis (`analysis/convergence/simple_convergence.py`), runtime benchmarking varying
16
+ sample count (`analysis/runtime_plot/runtime_plot_compare_n_partial.py`), and runtime
17
+ benchmarking varying dimensionality (`analysis/runtime_plot/runtime_plot_compare_d_partial.py`).
18
+
19
+ '
20
+ task_mode: experiment_driven
21
+ requires_execution: true
22
+ requires_paper: true
23
+ integrity_level: cas_plus_canary
24
+ snapshot_status: external_eval_required
25
+ support_level: recovery
26
+ time_band: 2-4d
27
+ cost_band: high
28
+ difficulty: hard
29
+ data_access: public
30
+ primary_outputs:
31
+ - relative_bias_pct
32
+ - mean_time_s
33
+ - coefficient_of_variation
34
+ launch_profiles:
35
+ - id: convergence_eval
36
+ label: Convergence Evaluation
37
+ description: 'Run `analysis/convergence/simple_convergence.py` to assess estimator
38
+ bias and stability across varying tree counts (L) and lines per tree (k). Uses
39
+ PyTorch with GPU acceleration. Outputs relative bias percentage and coefficient
40
+ of variation per configuration.
41
+
42
+ '
43
+ - id: runtime_n_scaling
44
+ label: Runtime Scaling (Sample Count)
45
+ description: 'Run `analysis/runtime_plot/runtime_plot_compare_n_partial.py` to benchmark
46
+ runtime and GPU memory across sample sizes N ∈ [10², 10⁵]. Compares PartialTSW
47
+ against UOT baselines (sopt, spot, pawl, sliced_unbalanced_ot). Includes warm-up
48
+ runs for stable timing.
49
+
50
+ '
51
+ - id: runtime_d_scaling
52
+ label: Runtime Scaling (Dimension)
53
+ description: 'Run `analysis/runtime_plot/runtime_plot_compare_d_partial.py` to benchmark
54
+ runtime and GPU memory across dimensions d ∈ [1, 2048] with fixed N=10⁴. Compares
55
+ PartialTSW against UOT baselines. Includes warm-up runs for stable timing.
56
+
57
+ '
58
+ - id: experiment_family
59
+ label: Experiment Family Workflow
60
+ description: 'Select and execute one packaged experiment family: point_cloud (gradient
61
+ flow), image_gen (JAX/diffusers ablation sweep across multiple GPUs), or img2img
62
+ (image-to-image translation with class imbalance handling). Each family has distinct
63
+ data requirements and runtime profiles.
64
+
65
+ '
66
+ dataset_download:
67
+ primary_method: mixed
68
+ sources:
69
+ - torchvision (auto-download for MNIST-based experiments)
70
+ - manual (pretrained checkpoints for image generation, assets for img2img)
71
+ notes:
72
+ - Convergence and runtime eval scripts use synthetic Gaussian data and require no
73
+ external datasets.
74
+ - Image generation experiments may auto-download simple datasets through torchvision.
75
+ - Image-to-image translation and some ablation routes require manual asset preparation
76
+ or pretrained checkpoints before evaluation.
77
+ - Treat dataset setup as experiment-family specific; there is no universal dataset
78
+ route.
79
+ credential_requirements:
80
+ mode: none
81
+ items: []
82
+ notes:
83
+ - No explicit API or dataset credential variables were detected in the shipped source
84
+ snapshot.
85
+ - Image generation sweep uses explicit GPU slot scheduling (not cloud credential-based).
86
+ resources:
87
+ minimum:
88
+ cpu_cores: 16
89
+ ram_gb: 64
90
+ disk_gb: 150
91
+ gpu_count: 1
92
+ gpu_vram_gb: 24
93
+ notes: GPU required for meaningful runtime benchmarks; CPU-only execution is impractical
94
+ for N≥10⁴ or d≥64 configurations.
95
+ recommended:
96
+ cpu_cores: 32
97
+ ram_gb: 128
98
+ disk_gb: 300
99
+ gpu_count: 1
100
+ gpu_vram_gb: 48
101
+ notes: '48 GB VRAM accommodates full dimension sweep (up to d=2048) and larger
102
+ sample counts. Image generation ablation grid benefits from additional GPU slots
103
+ if available.
104
+
105
+ '
106
+ environment:
107
+ python: '3.11'
108
+ cuda: '11.8'
109
+ pytorch: 2.1.0
110
+ flash_attn: null
111
+ key_packages:
112
+ - jax==0.4.23
113
+ - jaxlib==0.4.23
114
+ - transformers==4.51.3
115
+ - diffusers==0.33.1
116
+ - torch>=2.1.0
117
+ - ot (POT library for baseline comparisons)
118
+ - tqdm
119
+ - matplotlib
120
+ - pandas
121
+ - numpy
122
+ notes:
123
+ - The packaged repository mixes PyTorch (analysis scripts), JAX/jaxlib (image generation),
124
+ and diffusion-style experiment routes rather than one narrow runtime profile.
125
+ - Analysis scripts default to CUDA with `torch.device('cuda' if torch.cuda.is_available()
126
+ else 'cpu')`.
127
+ - Image generation sweep script (`experiments/image_gen/exp.sh`) schedules 72 jobs
128
+ round-robin across allocated GPU slots; wall-clock time scales with GPU count.
129
+ - Baseline comparisons in runtime benchmarks import sopt, spot, pawl, sliced_unbalanced_ot,
130
+ and unbalanced_sliced_ot from the bundled baselines module.
131
+ risk_flags:
132
+ - route_caveat
133
+ - multi_route_experiment_family
134
+ - mixed_runtime_environment
135
+ - multi_gpu_scheduling_dependent
136
+ risk_notes:
137
+ - The packaged repository is structurally complete, but the optimizer target is not
138
+ one root command; point-cloud, image-generation, image-to-image, and analysis routes
139
+ differ materially in setup and execution.
140
+ - The packaged `experiments/image_gen/exp.sh` schedules 72 jobs round-robin across
141
+ the listed GPUs, so a full ablation sweep on one GPU is naturally multi-day.
142
+ - The runtime environment mixes PyTorch (convergence, runtime analysis), JAX/jaxlib
143
+ (image generation), and diffusion libraries; ensure both CUDA toolchains are compatible.
144
+ - Some subroutes can auto-download simple datasets such as MNIST, while others require
145
+ manual assets or pretrained checkpoints before evaluation.
146
+ - Convergence eval uses synthetic Gaussian data only; generative downstream quality
147
+ must be evaluated separately via experiment family routes.
148
+ recommended_when: 'Use this benchmark when you need a geometry-heavy optimal transport
149
+ benchmark with support for unbalanced measures, are prepared to explicitly select
150
+ one experiment family, and have GPU infrastructure suitable for multi-day ablation
151
+ sweeps. Ideal for comparing partial transport solvers on convergence bias, runtime
152
+ scaling, or generative applications with class imbalance.
153
+
154
+ '
155
+ not_recommended_when: 'Do not use this benchmark if you require a single one-command
156
+ execution, a CPU-first workflow, a single compact dataset with no experiment branching,
157
+ or pre-computed metrics without execution. Not suitable for environments without
158
+ CUDA-capable GPUs.
159
+
160
+ '
161
+ paper:
162
+ title: Tree-Sliced Entropy Partial Transport
163
+ venue: NeurIPS 2025
164
+ year: 2025
165
+ url: https://openreview.net/forum?id=41ZbysfW4h
166
+ authors:
167
+ - Viet-Hoang Tran (National University of Singapore)
168
+ - Thanh Tran (VinUniversity)
169
+ - Thanh Chu (National University of Singapore)
170
+ - Tam Le (Institute of Statistical Mathematics)
171
+ - Tan M. Nguyen (National University of Singapore)
172
+ download:
173
+ url: https://github.com/ResearAI/DeepScientist/releases/download/aisb-v0.0.1/aisb.t3.075_treeslicedentropy.zip
174
+ archive_type: zip
175
+ local_dir_name: paper-75-TreeSlicedEntropy
176
+ provider: github_release
177
+ repo: ResearAI/DeepScientist
178
+ tag: aisb-v0.0.1
179
+ asset_name: aisb.t3.075_treeslicedentropy.zip
180
+ sha256: c73a8da6a3b04ef4a24eb1345993f985e84234db16636906626f07cb762fa33c
181
+ size_bytes: 774639
182
+ display:
183
+ palette_seed: jade-bone-transport
184
+ art_style: geometric-minimal
185
+ accent_priority: high
186
+ image_path: ../../../AISB/image/075_aisb.t3.075_treeslicedentropy.jpg
187
+ capability_tags:
188
+ - optimal_transport
189
+ - tree_sliced_wasserstein
190
+ - partial_transport
191
+ - unbalanced_measures
192
+ - generative_modeling
193
+ - probabilistic_geometry
194
+ - scientific_ml
195
+ - research_code_optimization
196
+ aisb_direction: T3
197
+ track_fit:
198
+ - paper_track
199
+ - benchmark_track
200
+ commercial:
201
+ annual_fee: null
@@ -0,0 +1,148 @@
1
+ id: aisb.t3.075_treeslicedentropy
2
+ name: Tree-Sliced Entropy Partial Transport
3
+ version: 0.1.0
4
+ one_line: 基于树切片熵的 GPU 加速非平衡部分传输方法,覆盖点云、图像生成与图像到图像转换。
5
+ task_description: 该基准覆盖 PartialTSW(部分树切片 Wasserstein),将 Tree-Sliced Wasserstein 扩展到非平衡/部分传输设置,并给出适用于生成建模中动态支撑分布的闭式形式。任务要求选择具体实验族(点云梯度流、JAX/diffusers 图像生成、或图像到图像转换)并运行对应目标或消融。评估聚焦收敛质量(relative_bias_pct)、运行性能(mean_time_s)与稳定性(coefficient_of_variation),而非内部优化器精度目标。代码锚点包括三类可执行脚本:收敛分析、按样本数的运行时基准、按维度的运行时基准。
6
+ task_mode: experiment_driven
7
+ requires_execution: true
8
+ requires_paper: true
9
+ integrity_level: cas_plus_canary
10
+ snapshot_status: external_eval_required
11
+ support_level: recovery
12
+ time_band: 2-4d
13
+ cost_band: high
14
+ difficulty: hard
15
+ data_access: public
16
+ primary_outputs:
17
+ - relative_bias_pct
18
+ - mean_time_s
19
+ - coefficient_of_variation
20
+ launch_profiles:
21
+ - id: convergence_eval
22
+ label: Convergence Evaluation
23
+ description: 'Run `analysis/convergence/simple_convergence.py` to assess estimator bias and stability across varying tree counts (L) and lines per tree (k). Uses PyTorch with GPU acceleration. Outputs relative bias percentage and coefficient of variation per configuration.
24
+
25
+ '
26
+ - id: runtime_n_scaling
27
+ label: Runtime Scaling (Sample Count)
28
+ description: 'Run `analysis/runtime_plot/runtime_plot_compare_n_partial.py` to benchmark runtime and GPU memory across sample sizes N ∈ [10², 10⁵]. Compares PartialTSW against UOT baselines (sopt, spot, pawl, sliced_unbalanced_ot). Includes warm-up runs for stable timing.
29
+
30
+ '
31
+ - id: runtime_d_scaling
32
+ label: Runtime Scaling (Dimension)
33
+ description: 'Run `analysis/runtime_plot/runtime_plot_compare_d_partial.py` to benchmark runtime and GPU memory across dimensions d ∈ [1, 2048] with fixed N=10⁴. Compares PartialTSW against UOT baselines. Includes warm-up runs for stable timing.
34
+
35
+ '
36
+ - id: experiment_family
37
+ label: Experiment Family Workflow
38
+ description: 'Select and execute one packaged experiment family: point_cloud (gradient flow), image_gen (JAX/diffusers ablation sweep across multiple GPUs), or img2img (image-to-image translation with class imbalance handling). Each family has distinct data requirements and runtime profiles.
39
+
40
+ '
41
+ dataset_download:
42
+ primary_method: mixed
43
+ sources:
44
+ - torchvision (auto-download for MNIST-based experiments)
45
+ - manual (pretrained checkpoints for image generation, assets for img2img)
46
+ notes:
47
+ - Convergence and runtime eval scripts use synthetic Gaussian data and require no external datasets.
48
+ - Image generation experiments may auto-download simple datasets through torchvision.
49
+ - Image-to-image translation and some ablation routes require manual asset preparation or pretrained checkpoints before evaluation.
50
+ - Treat dataset setup as experiment-family specific; there is no universal dataset route.
51
+ credential_requirements:
52
+ mode: none
53
+ items: []
54
+ notes:
55
+ - No explicit API or dataset credential variables were detected in the shipped source snapshot.
56
+ - Image generation sweep uses explicit GPU slot scheduling (not cloud credential-based).
57
+ resources:
58
+ minimum:
59
+ cpu_cores: 16
60
+ ram_gb: 64
61
+ disk_gb: 150
62
+ gpu_count: 1
63
+ gpu_vram_gb: 24
64
+ notes: GPU required for meaningful runtime benchmarks; CPU-only execution is impractical for N≥10⁴ or d≥64 configurations.
65
+ recommended:
66
+ cpu_cores: 32
67
+ ram_gb: 128
68
+ disk_gb: 300
69
+ gpu_count: 1
70
+ gpu_vram_gb: 48
71
+ notes: '48 GB VRAM accommodates full dimension sweep (up to d=2048) and larger sample counts. Image generation ablation grid benefits from additional GPU slots if available.
72
+
73
+ '
74
+ environment:
75
+ python: '3.11'
76
+ cuda: '11.8'
77
+ pytorch: 2.1.0
78
+ flash_attn: null
79
+ key_packages:
80
+ - jax==0.4.23
81
+ - jaxlib==0.4.23
82
+ - transformers==4.51.3
83
+ - diffusers==0.33.1
84
+ - torch>=2.1.0
85
+ - ot (POT library for baseline comparisons)
86
+ - tqdm
87
+ - matplotlib
88
+ - pandas
89
+ - numpy
90
+ notes:
91
+ - The packaged repository mixes PyTorch (analysis scripts), JAX/jaxlib (image generation), and diffusion-style experiment routes rather than one narrow runtime profile.
92
+ - Analysis scripts default to CUDA with `torch.device('cuda' if torch.cuda.is_available() else 'cpu')`.
93
+ - Image generation sweep script (`experiments/image_gen/exp.sh`) schedules 72 jobs round-robin across allocated GPU slots; wall-clock time scales with GPU count.
94
+ - Baseline comparisons in runtime benchmarks import sopt, spot, pawl, sliced_unbalanced_ot, and unbalanced_sliced_ot from the bundled baselines module.
95
+ risk_flags:
96
+ - route_caveat
97
+ - multi_route_experiment_family
98
+ - mixed_runtime_environment
99
+ - multi_gpu_scheduling_dependent
100
+ risk_notes:
101
+ - The packaged repository is structurally complete, but the optimizer target is not one root command; point-cloud, image-generation, image-to-image, and analysis routes differ materially in setup and execution.
102
+ - The packaged `experiments/image_gen/exp.sh` schedules 72 jobs round-robin across the listed GPUs, so a full ablation sweep on one GPU is naturally multi-day.
103
+ - The runtime environment mixes PyTorch (convergence, runtime analysis), JAX/jaxlib (image generation), and diffusion libraries; ensure both CUDA toolchains are compatible.
104
+ - Some subroutes can auto-download simple datasets such as MNIST, while others require manual assets or pretrained checkpoints before evaluation.
105
+ - Convergence eval uses synthetic Gaussian data only; generative downstream quality must be evaluated separately via experiment family routes.
106
+ recommended_when: 当你需要支持非平衡测度的几何最优传输基准、能够明确选择实验族、并具备可支撑多日消融的 GPU 资源时使用本基准。适合比较部分传输求解器在收敛偏差、运行时扩展性和类别不平衡生成任务中的表现。
107
+ not_recommended_when: 如果你需要单命令执行、CPU 优先流程、无分支的紧凑数据集,或无需执行即可获得预计算指标,不建议使用本基准。在无 CUDA GPU 的环境下也不适用。
108
+ paper:
109
+ title: Tree-Sliced Entropy Partial Transport
110
+ venue: NeurIPS 2025
111
+ year: 2025
112
+ url: https://openreview.net/forum?id=41ZbysfW4h
113
+ authors:
114
+ - Viet-Hoang Tran (National University of Singapore)
115
+ - Thanh Tran (VinUniversity)
116
+ - Thanh Chu (National University of Singapore)
117
+ - Tam Le (Institute of Statistical Mathematics)
118
+ - Tan M. Nguyen (National University of Singapore)
119
+ download:
120
+ url: https://github.com/ResearAI/DeepScientist/releases/download/aisb-v0.0.1/aisb.t3.075_treeslicedentropy.zip
121
+ archive_type: zip
122
+ local_dir_name: paper-75-TreeSlicedEntropy
123
+ provider: github_release
124
+ repo: ResearAI/DeepScientist
125
+ tag: aisb-v0.0.1
126
+ asset_name: aisb.t3.075_treeslicedentropy.zip
127
+ sha256: c73a8da6a3b04ef4a24eb1345993f985e84234db16636906626f07cb762fa33c
128
+ size_bytes: 774639
129
+ display:
130
+ palette_seed: jade-bone-transport
131
+ art_style: geometric-minimal
132
+ accent_priority: high
133
+ image_path: ../../../AISB/image/075_aisb.t3.075_treeslicedentropy.jpg
134
+ capability_tags:
135
+ - optimal_transport
136
+ - tree_sliced_wasserstein
137
+ - partial_transport
138
+ - unbalanced_measures
139
+ - generative_modeling
140
+ - probabilistic_geometry
141
+ - scientific_ml
142
+ - research_code_optimization
143
+ aisb_direction: T3
144
+ track_fit:
145
+ - paper_track
146
+ - benchmark_track
147
+ commercial:
148
+ annual_fee: null