Merge pull request #306 from stan-dev/ref-draws

Adding ref draws - round 3

Author: MansMeg

posterior_database/posteriors/Rate_2_data-Rate_2_model.json

@@ -7,7 +7,7 @@
     "theta2": 1,
     "delta": 1
   },
-  "reference_posterior_name": null,
+  "reference_posterior_name": "Rate_2_data-Rate_2_model",
   "added_date": "2021-06-30",
   "added_by": "Kane Lindsay",
   "name": "Rate_2_data-Rate_2_model",

posterior_database/posteriors/Rate_5_data-Rate_5_model.json

@@ -7,7 +7,7 @@
     "postpredk1": 1,
     "postpredk2": 1
   },
-  "reference_posterior_name": null,
+  "reference_posterior_name": "Rate_5_data-Rate_5_model",
   "added_date": "2021-06-30",
   "added_by": "Kane Lindsay",
   "name": "Rate_5_data-Rate_5_model",

posterior_database/posteriors/radon_all-radon_pooled.json

@@ -1,11 +1,12 @@
 {
   "name": "radon_all-radon_pooled",
-  "keywords": ["stan case study"],
+  "keywords": [
+    "stan case study"
+  ],
   "urls": "https://mc-stan.org/users/documentation/case-studies/radon.html",
-  "urls": null,
   "model_name": "radon_pooled",
   "data_name": "radon_all",
-  "reference_posterior_name": null,
+  "reference_posterior_name": "radon_all-radon_pooled",
   "references": "gelman2006data",
   "dimensions": {
     "alpha": 1,

posterior_database/posteriors/radon_mn-radon_pooled.json

@@ -4,7 +4,7 @@
   "urls": "https://mc-stan.org/users/documentation/case-studies/radon.html",
   "model_name": "radon_pooled",
   "data_name": "radon_mn",
-  "reference_posterior_name": null,
+  "reference_posterior_name": "radon_mn-radon_pooled",
   "references": "gelman2006data",
   "dimensions": {
     "alpha": 1,

posterior_database/reference_posteriors/draws/draws/Rate_2_data-Rate_2_model.json.zip

@@ -0,0 +1,45 @@
+{
+  "name": "Rate_2_data-Rate_2_model",
+  "inference": {
+    "method": "stan_sampling",
+    "method_arguments": {
+      "chains": 10,
+      "iter": 20000,
+      "warmup": 10000,
+      "thin": 10,
+      "seed": 2544,
+      "control": {
+        "adapt_delta": 0.8
+      }
+    }
+  },
+  "diagnostics": {
+    "diagnostics_information": {
+      "names": ["theta1", "theta2"]
+    },
+    "ndraws": 10000,
+    "nchains": 10,
+    "effective_sample_size_bulk": [10091.871860022728, 10222.708662061308],
+    "effective_sample_size_tail": [9689.1938272425359, 10037.771293476999],
+    "r_hat": [1.00023035233106, 0.999881228734353],
+    "divergent_transitions": [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+    "expected_fraction_of_missing_information": [2.07901542566069, 2.0184524198474, 1.89222714015946, 1.99558591313082, 1.89814994909878, 1.91206041720845, 1.97174657870289, 1.93400180313051, 1.9682195887105, 1.9906213747076],
+    "mean_lag1_ac": [-0.00355662507484341, -0.00886436147670544]
+  },
+  "checks_made": {
+    "ndraws_is_10k": true,
+    "nchains_is_gte_4": true,
+    "r_hat_below_1_01": true,
+    "efmi_above_0_2": true,
+    "abs_mean_lag1_ac_below_0_05": true
+  },
+  "comments": null,
+  "added_by": "Jakob Torgander",
+  "added_date": "2025-08-29",
+  "versions": {
+    "cmdstan_version": "2.35.0",
+    "r_Makevars": "\nCXX14FLAGS += -O3 -mtune=native -arch arm64 -ftemplate-depth-256\n",
+    "r_version": "R version 4.5.1 (2025-06-13)",
+    "r_session": "R version 4.5.1 (2025-06-13)\nPlatform: aarch64-apple-darwin20\nRunning under: macOS Sequoia 15.6\n\nMatrix products: default\nBLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib \nLAPACK: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.1\n\nlocale:\n[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8\n\ntime zone: Europe/Stockholm\ntzcode source: internal\n\nattached base packages:\n[1] stats     graphics  grDevices utils     datasets  methods   base     \n\nother attached packages:\n [1] posteriordb_0.3.3 testthat_3.2.3    cmdstanr_0.9.0   \n [4] devtools_2.4.5    usethis_3.1.0     jsonlite_2.0.0   \n [7] posterior_1.6.1   lubridate_1.9.4   forcats_1.0.0    \n[10] stringr_1.5.1     dplyr_1.1.4       purrr_1.1.0      \n[13] readr_2.1.5       tidyr_1.3.1       tibble_3.3.0     \n[16] ggplot2_3.5.2     tidyverse_2.0.0  \n\nloaded via a namespace (and not attached):\n [1] tidyselect_1.2.1     farver_2.1.2         fastmap_1.2.0       \n [4] gh_1.5.0             tensorA_0.36.2.1     promises_1.3.3      \n [7] digest_0.6.37        timechange_0.3.0     mime_0.13           \n[10] lifecycle_1.0.4      waldo_0.6.2          ellipsis_0.3.2      \n[13] processx_3.8.6       magrittr_2.0.3       compiler_4.5.1      \n[16] rlang_1.1.6          sass_0.4.10          tools_4.5.1         \n[19] yaml_2.3.10          data.table_1.17.8    knitr_1.50          \n[22] htmlwidgets_1.6.4    bit_4.6.0            pkgbuild_1.4.8      \n[25] RColorBrewer_1.1-3   pkgload_1.4.0        abind_1.4-8         \n[28] miniUI_0.1.2         withr_3.0.2          desc_1.4.3          \n[31] grid_4.5.1           urlchecker_1.0.1     profvis_0.4.0       \n[34] xtable_1.8-4         scales_1.4.0         cli_3.6.5           \n[37] rmarkdown_2.29       crayon_1.5.3         generics_0.1.4      \n[40] remotes_2.5.0        rstudioapi_0.17.1    tzdb_0.5.0          \n[43] sessioninfo_1.2.3    cachem_1.1.0         parallel_4.5.1      \n[46] matrixStats_1.5.0    vctrs_0.6.5          hms_1.1.3           \n[49] bit64_4.6.0-1        jquerylib_0.1.4      glue_1.8.0          \n[52] ps_1.9.1             distributional_0.5.0 stringi_1.8.7       \n[55] gtable_0.3.6         later_1.4.2          pillar_1.11.0       \n[58] htmltools_0.5.8.1    brio_1.1.5           R6_2.6.1            \n[61] rprojroot_2.1.0      vroom_1.6.5          evaluate_1.0.4      \n[64] shiny_1.11.1         backports_1.5.0      memoise_2.0.1       \n[67] httpuv_1.6.16        bslib_0.9.0          Rcpp_1.1.0          \n[70] checkmate_2.3.2      xfun_0.52            fs_1.6.6            \n[73] pkgconfig_2.0.3     "
+  }
+}

posterior_database/reference_posteriors/draws/draws/Rate_5_data-Rate_5_model.json.zip

@@ -0,0 +1,45 @@
+{
+  "name": "Rate_5_data-Rate_5_model",
+  "inference": {
+    "method": "stan_sampling",
+    "method_arguments": {
+      "chains": 10,
+      "iter": 20000,
+      "warmup": 10000,
+      "thin": 10,
+      "seed": 2544,
+      "control": {
+        "adapt_delta": 0.8
+      }
+    }
+  },
+  "diagnostics": {
+    "diagnostics_information": {
+      "names": "theta"
+    },
+    "ndraws": 10000,
+    "nchains": 10,
+    "effective_sample_size_bulk": 10092.909756473744,
+    "effective_sample_size_tail": 9964.0302168736216,
+    "r_hat": 1.00024861025683,
+    "divergent_transitions": [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+    "expected_fraction_of_missing_information": [2.01220184967282, 2.00818232294778, 2.04753376621172, 2.0131395472257, 1.99107421621141, 2.00881771935933, 1.99606901556846, 1.99607979639697, 2.1382026220669, 1.94883050784907],
+    "mean_lag1_ac": -0.00297005877076142
+  },
+  "checks_made": {
+    "ndraws_is_10k": true,
+    "nchains_is_gte_4": true,
+    "r_hat_below_1_01": true,
+    "efmi_above_0_2": true,
+    "abs_mean_lag1_ac_below_0_05": true
+  },
+  "comments": null,
+  "added_by": "Jakob Torgander",
+  "added_date": "2025-08-29",
+  "versions": {
+    "cmdstan_version": "2.35.0",
+    "r_Makevars": "\nCXX14FLAGS += -O3 -mtune=native -arch arm64 -ftemplate-depth-256\n",
+    "r_version": "R version 4.5.1 (2025-06-13)",
+    "r_session": "R version 4.5.1 (2025-06-13)\nPlatform: aarch64-apple-darwin20\nRunning under: macOS Sequoia 15.6\n\nMatrix products: default\nBLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib \nLAPACK: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.1\n\nlocale:\n[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8\n\ntime zone: Europe/Stockholm\ntzcode source: internal\n\nattached base packages:\n[1] stats     graphics  grDevices utils     datasets  methods   base     \n\nother attached packages:\n [1] posteriordb_0.3.3 testthat_3.2.3    cmdstanr_0.9.0   \n [4] devtools_2.4.5    usethis_3.1.0     jsonlite_2.0.0   \n [7] posterior_1.6.1   lubridate_1.9.4   forcats_1.0.0    \n[10] stringr_1.5.1     dplyr_1.1.4       purrr_1.1.0      \n[13] readr_2.1.5       tidyr_1.3.1       tibble_3.3.0     \n[16] ggplot2_3.5.2     tidyverse_2.0.0  \n\nloaded via a namespace (and not attached):\n [1] tidyselect_1.2.1     farver_2.1.2         fastmap_1.2.0       \n [4] gh_1.5.0             tensorA_0.36.2.1     promises_1.3.3      \n [7] digest_0.6.37        timechange_0.3.0     mime_0.13           \n[10] lifecycle_1.0.4      waldo_0.6.2          ellipsis_0.3.2      \n[13] processx_3.8.6       magrittr_2.0.3       compiler_4.5.1      \n[16] rlang_1.1.6          sass_0.4.10          tools_4.5.1         \n[19] yaml_2.3.10          data.table_1.17.8    knitr_1.50          \n[22] htmlwidgets_1.6.4    bit_4.6.0            pkgbuild_1.4.8      \n[25] RColorBrewer_1.1-3   pkgload_1.4.0        abind_1.4-8         \n[28] miniUI_0.1.2         withr_3.0.2          desc_1.4.3          \n[31] grid_4.5.1           urlchecker_1.0.1     profvis_0.4.0       \n[34] xtable_1.8-4         scales_1.4.0         cli_3.6.5           \n[37] rmarkdown_2.29       crayon_1.5.3         generics_0.1.4      \n[40] remotes_2.5.0        rstudioapi_0.17.1    tzdb_0.5.0          \n[43] sessioninfo_1.2.3    cachem_1.1.0         parallel_4.5.1      \n[46] matrixStats_1.5.0    vctrs_0.6.5          hms_1.1.3           \n[49] bit64_4.6.0-1        jquerylib_0.1.4      glue_1.8.0          \n[52] ps_1.9.1             distributional_0.5.0 stringi_1.8.7       \n[55] gtable_0.3.6         later_1.4.2          pillar_1.11.0       \n[58] htmltools_0.5.8.1    brio_1.1.5           R6_2.6.1            \n[61] rprojroot_2.1.0      vroom_1.6.5          evaluate_1.0.4      \n[64] shiny_1.11.1         backports_1.5.0      memoise_2.0.1       \n[67] httpuv_1.6.16        bslib_0.9.0          Rcpp_1.1.0          \n[70] checkmate_2.3.2      xfun_0.52            fs_1.6.6            \n[73] pkgconfig_2.0.3     "
+  }
+}