@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 +1,316 @@
1
+ # 23 BenchStore GitHub Releases Spec
2
+
3
+ This document defines the **release and distribution contract** for BenchStore benchmark source packages when the delivery backend is **GitHub Releases**.
4
+
5
+ It is intentionally narrower than the YAML reference:
6
+
7
+ - [22 BenchStore YAML Reference](./22_BENCHSTORE_YAML_REFERENCE.md) defines the catalog schema
8
+ - this document defines how benchmark source packages should be built, named, published, and consumed when they are downloaded from GitHub Releases
9
+
10
+ The target is a stable workflow where:
11
+
12
+ 1. a benchmark source package is prepared from a local curated snapshot
13
+ 2. the package is uploaded as a GitHub Release asset
14
+ 3. BenchStore downloads that exact asset through `download.url`
15
+ 4. the downloaded asset can be verified and unpacked deterministically
16
+
17
+ ## 1. Scope
18
+
19
+ This spec applies to benchmark source packages that:
20
+
21
+ - are listed in `AISB/catalog/*.yaml`
22
+ - are installed through BenchStore `Download` / `Install`
23
+ - are distributed through GitHub Release assets
24
+
25
+ This spec does **not** require datasets, checkpoints, or credentials to be bundled into the same asset.
26
+
27
+ ## 2. Release model
28
+
29
+ The recommended model is:
30
+
31
+ - use **one GitHub repository** as the release host
32
+ - publish **many benchmark zip files** into one benchmark-assets release
33
+ - include one machine-readable `manifest.json` in the same release
34
+
35
+ Recommended repository:
36
+
37
+ - `ResearAI/DeepScientist`
38
+
39
+ Recommended release tag style:
40
+
41
+ - `benchstore-assets-2026-04-13`
42
+ - `benchstore-assets-r1`
43
+ - `benchstore-assets-2026q2`
44
+
45
+ Do **not** mix benchmark assets into ordinary application-version tags such as `v1.6.0` unless you are fully willing to couple software release cadence and benchmark asset cadence.
46
+
47
+ ## 3. Asset granularity
48
+
49
+ Each benchmark must remain an **independent archive asset**.
50
+
51
+ Recommended asset naming rule:
52
+
53
+ - `<benchmark_id>-v<package_version>.zip`
54
+
55
+ Examples:
56
+
57
+ - `aisb.t3.001_savvy-v0.1.0.zip`
58
+ - `aisb.t3.048_proxyspex-v0.1.0.zip`
59
+ - `aisb.t3.084_ift-v0.1.0.zip`
60
+
61
+ Why this is required:
62
+
63
+ - one benchmark can be updated without rebuilding every other benchmark
64
+ - BenchStore can map one catalog entry to one asset deterministically
65
+ - checksums and install records stay benchmark-specific
66
+
67
+ ## 4. Manifest requirement
68
+
69
+ Each benchmark-assets release should contain:
70
+
71
+ - benchmark zip assets
72
+ - one `manifest.json`
73
+
74
+ Recommended `manifest.json` shape:
75
+
76
+ ```json
77
+ {
78
+ "schema_version": 1,
79
+ "release_id": "benchstore-assets-2026-04-13",
80
+ "published_at": "2026-04-13T00:00:00Z",
81
+ "repo": "ResearAI/DeepScientist",
82
+ "assets": [
83
+ {
84
+ "benchmark_id": "aisb.t3.001_savvy",
85
+ "version": "0.1.0",
86
+ "asset_name": "aisb.t3.001_savvy-v0.1.0.zip",
87
+ "archive_type": "zip",
88
+ "sha256": "<sha256>",
89
+ "size_bytes": 12345678,
90
+ "published_at": "2026-04-13T00:00:00Z"
91
+ }
92
+ ]
93
+ }
94
+ ```
95
+
96
+ The manifest is recommended even if BenchStore currently installs directly from `download.url`.
97
+ It gives you one durable source of truth for:
98
+
99
+ - integrity verification
100
+ - bulk updates
101
+ - release audits
102
+ - future migration away from hardcoded URLs
103
+
104
+ ## 5. What a benchmark archive must contain
105
+
106
+ A release asset should contain only the **source package needed for benchmark installation and later quest-local use**.
107
+
108
+ It should usually contain:
109
+
110
+ - source code
111
+ - README and install notes
112
+ - requirements / pyproject / package metadata
113
+ - benchmark-local configs and scripts
114
+ - `json/metric_contract.json` if the package is built from a prepared local baseline root
115
+ - small benchmark-owned support files that are legal to redistribute
116
+
117
+ It should usually **not** contain:
118
+
119
+ - datasets
120
+ - model checkpoints unless redistribution is clearly allowed
121
+ - API secrets, auth files, local cookies, or tokens
122
+ - generated logs, caches, outputs, or user-specific artifacts
123
+ - local machine absolute paths
124
+ - `.git`, `.ds`, `.codex`, `.claude`, `node_modules`, `dist`, `build`, `__pycache__`, `.pytest_cache`, `wandb`
125
+
126
+ ## 6. Release-safe packaging rules
127
+
128
+ Before publishing a benchmark archive, the packager must:
129
+
130
+ 1. copy from a curated local source snapshot, not from a live quest worktree with unknown transient state
131
+ 2. remove generated artifacts and local runtime residue
132
+ 3. remove secrets and workstation-specific auth material
133
+ 4. preserve upstream source identity where legally possible
134
+ 5. keep the archive root deterministic
135
+ 6. compute and record `sha256`
136
+
137
+ Recommended archive root layout:
138
+
139
+ - archive root directory name should match `download.local_dir_name`
140
+
141
+ For example, if YAML says:
142
+
143
+ ```yaml
144
+ download:
145
+ local_dir_name: aisb.t3.048_proxyspex
146
+ ```
147
+
148
+ then the zip should unpack into:
149
+
150
+ - `aisb.t3.048_proxyspex/...`
151
+
152
+ not into a random temporary folder name.
153
+
154
+ ## 7. YAML contract for GitHub Releases
155
+
156
+ BenchStore currently needs only these fields to install a package:
157
+
158
+ ```yaml
159
+ download:
160
+ url: https://github.com/ResearAI/DeepScientist/releases/download/benchstore-assets-2026-04-13/aisb.t3.048_proxyspex-v0.1.0.zip
161
+ archive_type: zip
162
+ local_dir_name: aisb.t3.048_proxyspex
163
+ ```
164
+
165
+ For GitHub Releases, the recommended full contract is:
166
+
167
+ ```yaml
168
+ download:
169
+ provider: github_release
170
+ repo: ResearAI/DeepScientist
171
+ tag: benchstore-assets-2026-04-13
172
+ asset_name: aisb.t3.048_proxyspex-v0.1.0.zip
173
+ url: https://github.com/ResearAI/DeepScientist/releases/download/benchstore-assets-2026-04-13/aisb.t3.048_proxyspex-v0.1.0.zip
174
+ archive_type: zip
175
+ local_dir_name: aisb.t3.048_proxyspex
176
+ version: 0.1.0
177
+ sha256: <sha256>
178
+ size_bytes: 12345678
179
+ published_at: 2026-04-13T00:00:00Z
180
+ source_repo: https://github.com/ResearAI/DeepScientist
181
+ source_commit: <git_commit_sha>
182
+ ```
183
+
184
+ Rules:
185
+
186
+ - `download.url` must point to a concrete immutable release asset, not a moving branch archive such as `main.zip`
187
+ - `download.archive_type` must match the real asset type
188
+ - `download.local_dir_name` must match the expected unpacked root directory
189
+ - `download.sha256` should be provided for all public release assets
190
+ - `download.provider` should be `github_release` for this mode
191
+ - `download.repo`, `download.tag`, and `download.asset_name` should be filled even if `download.url` is already present
192
+
193
+ ## 8. Paper and data separation
194
+
195
+ GitHub Release source assets should contain benchmark code, not the whole research universe.
196
+
197
+ Keep these separate:
198
+
199
+ - `paper.url`: paper or benchmark paper link
200
+ - `download.*`: benchmark source package link
201
+ - `dataset_download.*`: dataset acquisition route
202
+ - `credential_requirements.*`: tokens or API keys needed later
203
+
204
+ Do not overload `paper.url` with repository or archive links when the entry actually has a paper.
205
+
206
+ Do not overload `download.url` with dataset links when the field is meant for source installation.
207
+
208
+ ## 9. Versioning rules
209
+
210
+ `version` should be treated as the **BenchStore package version**, not necessarily the paper version and not necessarily the upstream repository tag.
211
+
212
+ Bump the package version when:
213
+
214
+ - packaged source contents change
215
+ - release-safe cleanup changes the public archive contents
216
+ - bundled configs or install-critical files change
217
+
218
+ A pure YAML description edit that does not change the archive asset does not require a new asset version.
219
+
220
+ ## 10. Publishing workflow
221
+
222
+ Recommended workflow:
223
+
224
+ 1. prepare a clean staging directory from the curated benchmark root
225
+ 2. apply release-safe exclusions
226
+ 3. ensure the unpacked root directory name is deterministic
227
+ 4. build zip
228
+ 5. compute `sha256` and `size_bytes`
229
+ 6. update `manifest.json`
230
+ 7. upload assets to the benchmark-assets GitHub release
231
+ 8. update `AISB/catalog/*.yaml`
232
+ 9. verify one installation through BenchStore before calling the release complete
233
+
234
+ ## 11. BenchStore install behavior
235
+
236
+ For GitHub Releases, BenchStore should continue to behave as a backend-mediated installer:
237
+
238
+ 1. fetch `download.url`
239
+ 2. save archive under runtime downloads
240
+ 3. optionally verify `download.sha256`
241
+ 4. extract archive to a temporary directory
242
+ 5. resolve a deterministic install root
243
+ 6. move into the final install location
244
+ 7. write an install record with asset metadata
245
+
246
+ Recommended future install record fields:
247
+
248
+ - `download_provider`
249
+ - `download_repo`
250
+ - `download_tag`
251
+ - `download_asset_name`
252
+ - `expected_sha256`
253
+ - `archive_sha256`
254
+ - `size_bytes`
255
+
256
+ ## 12. What not to do
257
+
258
+ Do not:
259
+
260
+ - publish moving `main` or `master` branch zip URLs as production asset URLs
261
+ - publish one giant archive that contains every benchmark unless BenchStore explicitly changes to support that mode
262
+ - rely on GitHub release notes alone as the machine-readable index
263
+ - ship datasets, secrets, or local runtime debris in release archives
264
+ - overwrite a previously published asset in-place without changing version or tag
265
+
266
+ ## 13. Publishing all current entries
267
+
268
+ If you want **every currently aligned BenchStore entry** to be downloadable through the frontend `Download` button, that is acceptable.
269
+
270
+ The important rule is:
271
+
272
+ - **downloadable** does not mean **fully runnable**
273
+ - **published** does not mean **recommendable for every user**
274
+
275
+ When publishing all entries, keep the existing risk metadata instead of hiding it.
276
+
277
+ Recommended interpretation:
278
+
279
+ - entries without `risk_flags` are standard release packages
280
+ - entries with `risk_flags: [route_caveat]` are still valid source packages, but the user must see the route warning in BenchStore
281
+ - entries with `risk_flags: [source_snapshot_incomplete]` are still valid source snapshots, but the package should be understood as incomplete or blocked for faithful reproduction
282
+
283
+ In other words:
284
+
285
+ - you may publish all current aligned entries
286
+ - you should **not** flatten them into one false notion of "all are equally ready"
287
+ - BenchStore should continue to differentiate recommendation, warning, and installability
288
+
289
+ ## 14. What must be supplemented before an all-entry release
290
+
291
+ If you publish all entries, then every published benchmark package should have these minimum pieces completed:
292
+
293
+ 1. `download.url`
294
+ 2. `download.archive_type`
295
+ 3. `download.local_dir_name`
296
+ 4. `download.sha256`
297
+ 5. `download.size_bytes`
298
+ 6. `paper.url` set to a real paper link, or `null` if the entry has no real external paper page
299
+ 7. `risk_flags` and `risk_notes` preserved when the entry is caveated or incomplete
300
+ 8. `dataset_download` and `credential_requirements` preserved as user-facing truth, not hidden because the code package was published
301
+
302
+ For all-entry publication, the minimum honesty rule is:
303
+
304
+ - never remove risk metadata just because a zip exists
305
+ - never replace a missing paper link with an example link
306
+ - never imply that a source snapshot package contains datasets or checkpoints when it does not
307
+
308
+ ## 15. Relationship to the YAML reference
309
+
310
+ This document is the distribution guide for GitHub Releases.
311
+ The YAML reference remains the field-by-field catalog reference.
312
+
313
+ Use both together:
314
+
315
+ - [22 BenchStore YAML Reference](./22_BENCHSTORE_YAML_REFERENCE.md)
316
+ - this document for GitHub Releases publication and install behavior