testthat 3e

DESCRIPTION

@@ -55,6 +55,7 @@ Suggests:
     loo (>= 2.0.0),
     qs2,
     rmarkdown,
-    testthat (>= 2.1.0),
+    testthat (>= 3.3.0),
     Rcpp
 VignetteBuilder: knitr
+Config/testthat/edition: 3

tests/testthat/_snaps/cpp_opts.md

@@ -0,0 +1,8 @@
+# validate_cpp_options works
+
+    STAN_OPENCL set to FALSE Since this is a non-empty value, it will result in the corresponding ccp option being turned ON. To turn this option off, use cpp_options = list(stan_opencl = NULL).
+
+# exe_info cpp_options comparison works
+
+    Recompiling is recommended due to missing exe_info.
+

tests/testthat/_snaps/data/process-data-float-rounding.json

@@ -0,0 +1,4 @@
+{
+  "a": 3,
+  "b": 2.0
+}

tests/testthat/_snaps/data/process-data-int-matrix.json

@@ -0,0 +1,7 @@
+{
+  "k": [
+    [18, 18, 16],
+    [13, 9, 6],
+    [4, 4, 4]
+  ]
+}

tests/testthat/_snaps/data/process-data-int-real.json

@@ -0,0 +1,4 @@
+{
+  "a": 1,
+  "b": 2.0
+}

tests/testthat/_snaps/data/process-data-large-real.json

@@ -0,0 +1,4 @@
+{
+  "a": 1,
+  "b": 1774000000.0
+}

tests/testthat/_snaps/example.md

@@ -0,0 +1,47 @@
+# print_example_program outputs stay stable
+
+    Code
+      cat(print_example_program("schools"))
+    Output
+      data {
+        int<lower=1> J;
+        vector<lower=0>[J] sigma;
+        vector[J] y;
+      }
+      parameters {
+        real mu;
+        real<lower=0> tau;
+        vector[J] theta;
+      }
+      model {
+        target += normal_lpdf(tau | 0, 10);
+        target += normal_lpdf(mu | 0, 10);
+        target += normal_lpdf(theta | mu, tau);
+        target += normal_lpdf(y | theta, sigma);
+      }
+
+---
+
+    Code
+      cat(print_example_program("schools_ncp"))
+    Output
+      data {
+        int<lower=1> J;
+        vector<lower=0>[J] sigma;
+        vector[J] y;
+      }
+      parameters {
+        real mu;
+        real<lower=0> tau;
+        vector[J] theta_raw;
+      }
+      transformed parameters {
+        vector[J] theta = mu + tau * theta_raw;
+      }
+      model {
+        target += normal_lpdf(tau | 0, 10);
+        target += normal_lpdf(mu | 0, 10);
+        target += normal_lpdf(theta_raw | 0, 1);
+        target += normal_lpdf(y | theta, sigma);
+      }
+

tests/testthat/_snaps/fit-gq.md

@@ -0,0 +1,79 @@
+# print() method works after gq
+
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    y_rep[2]
+    y_rep[3]
+    y_rep[4]
+    y_rep[5]
+    y_rep[6]
+    y_rep[7]
+    y_rep[8]
+    y_rep[9]
+    y_rep[10]
+
+    # showing 10 of 11 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95
+    y_rep[1]
+
+    # showing 1 of 11 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mad
+    y_rep[1]
+    y_rep[2]
+    y_rep[3]
+    y_rep[4]
+    y_rep[5]
+    y_rep[6]
+    y_rep[7]
+    y_rep[8]
+    y_rep[9]
+    y_rep[10]
+
+    # showing 10 of 11 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+
+---
+
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    y_rep[2]
+
+    # showing 2 of 11 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    y_rep[2]
+    y_rep[3]
+    y_rep[4]
+    y_rep[5]
+    y_rep[6]
+    y_rep[7]
+    y_rep[8]
+    y_rep[9]
+    y_rep[10]
+    sum_y
+
+---
+
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    y_rep[2]
+
+    # showing 2 of 10 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    y_rep[2]
+    y_rep[3]
+    y_rep[4]
+    y_rep[5]
+    y_rep[6]
+    y_rep[7]
+    y_rep[8]
+    y_rep[9]
+    y_rep[10]
+
+---
+
+    variable mean median sd mad q5 q95
+    y_rep[1]
+    sum_y
+    y_rep[3]
+

tests/testthat/_snaps/fit-laplace.md

@@ -0,0 +1,17 @@
+# summary() and print() methods works after laplace
+
+        variable   mean median   sd  mad     q5    q95
+     lp__        -65.92 -65.65 1.36 1.20 -68.50 -64.28
+     lp_approx__  -2.04  -1.75 1.40 1.21  -4.68  -0.35
+     alpha         0.39   0.38 0.22 0.23   0.03   0.74
+     beta[1]      -0.65  -0.65 0.25 0.26  -1.05  -0.25
+     beta[2]      -0.28  -0.28 0.22 0.23  -0.63   0.09
+     beta[3]       0.65   0.66 0.26 0.26   0.21   1.07
+
+---
+
+     variable   mean median   sd  mad     q5    q95
+         lp__ -65.92 -65.65 1.36 1.20 -68.50 -64.28
+
+     # showing 1 of 6 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+

tests/testthat/_snaps/fit-mcmc.md

@@ -0,0 +1,85 @@
+# print() method works after mcmc
+
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    lp__
+    alpha
+    beta[1]
+    beta[2]
+    beta[3]
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    lp__
+
+    # showing 1 of 5 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable ess_sd
+    lp__
+    alpha
+    beta[1]
+    beta[2]
+    beta[3]
+
+---
+
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    lp__
+    mu
+    tau
+    theta_raw[1]
+    theta_raw[2]
+    theta_raw[3]
+    theta_raw[4]
+    theta_raw[5]
+    theta_raw[6]
+    theta_raw[7]
+
+    # showing 10 of 19 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    lp__
+    mu
+
+    # showing 2 of 19 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    lp__
+    mu
+    tau
+    theta_raw[1]
+    theta_raw[2]
+    theta_raw[3]
+    theta_raw[4]
+    theta_raw[5]
+    theta_raw[6]
+    theta_raw[7]
+    theta_raw[8]
+    theta[1]
+    theta[2]
+    theta[3]
+    theta[4]
+    theta[5]
+    theta[6]
+    theta[7]
+    theta[8]
+
+---
+
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    theta[1]
+    theta[2]
+
+    # showing 2 of 8 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    theta[1]
+    theta[2]
+    theta[3]
+    theta[4]
+    theta[5]
+    theta[6]
+    theta[7]
+    theta[8]
+
+---
+
+    variable mean median sd mad q5 q95 rhat ess_bulk ess_tail
+    theta[1]
+    tau
+    mu
+    theta_raw[3]
+

tests/testthat/_snaps/fit-mle.md

@@ -0,0 +1,20 @@
+# print() method works after optimization
+
+     variable estimate
+      lp__      -63.92
+      alpha       0.36
+      beta[1]    -0.63
+      beta[2]    -0.26
+      beta[3]     0.65
+
+---
+
+     variable estimate
+         lp__   -63.92
+
+     # showing 1 of 5 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+
+---
+
+    Can't find the following variable(s): unknown
+

tests/testthat/_snaps/fit-vb.md

@@ -0,0 +1,71 @@
+# print() method works after vb
+
+        variable   mean median   sd  mad     q5    q95
+     lp__        -66.75 -66.18 2.16 1.79 -70.59 -64.40
+     lp_approx__  -2.04  -1.74 1.39 1.26  -4.91  -0.40
+     alpha         0.30   0.29 0.21 0.20  -0.03   0.64
+     beta[1]      -0.59  -0.58 0.37 0.37  -1.18   0.02
+     beta[2]      -0.25  -0.25 0.22 0.23  -0.64   0.09
+     beta[3]       0.60   0.61 0.27 0.28   0.13   1.02
+     variable   mean median   sd  mad     q5    q95
+         lp__ -66.75 -66.18 2.16 1.79 -70.59 -64.40
+
+     # showing 1 of 6 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+
+---
+
+         variable   mean median   sd  mad     q5    q95
+     lp__         -47.27 -46.75 2.69 2.15 -51.93 -43.98
+     lp_approx__   -5.05  -4.68 2.27 2.08  -9.18  -1.98
+     mu             6.55   6.52 3.82 3.78   0.24  12.67
+     tau            3.87   3.05 2.81 2.00   1.01   9.44
+     theta_raw[1]   0.44   0.44 0.98 0.97  -1.15   1.97
+     theta_raw[2]   0.14   0.12 0.92 0.89  -1.39   1.63
+     theta_raw[3]  -0.21  -0.18 1.00 1.01  -1.86   1.38
+     theta_raw[4]   0.11   0.12 0.88 0.88  -1.35   1.55
+     theta_raw[5]  -0.11  -0.12 1.00 1.03  -1.66   1.57
+     theta_raw[6]   0.04   0.03 0.78 0.81  -1.26   1.31
+
+     # showing 10 of 20 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+         variable   mean median   sd  mad     q5    q95
+     lp__         -47.27 -46.75 2.69 2.15 -51.93 -43.98
+     lp_approx__   -5.05  -4.68 2.27 2.08  -9.18  -1.98
+     mu             6.55   6.52 3.82 3.78   0.24  12.67
+     tau            3.87   3.05 2.81 2.00   1.01   9.44
+     theta_raw[1]   0.44   0.44 0.98 0.97  -1.15   1.97
+     theta_raw[2]   0.14   0.12 0.92 0.89  -1.39   1.63
+     theta_raw[3]  -0.21  -0.18 1.00 1.01  -1.86   1.38
+     theta_raw[4]   0.11   0.12 0.88 0.88  -1.35   1.55
+     theta_raw[5]  -0.11  -0.12 1.00 1.03  -1.66   1.57
+     theta_raw[6]   0.04   0.03 0.78 0.81  -1.26   1.31
+     theta_raw[7]   0.34   0.33 0.98 0.99  -1.24   1.96
+     theta_raw[8]   0.10   0.10 0.97 0.97  -1.47   1.68
+     theta[1]       8.21   7.82 6.46 5.22  -1.00  17.39
+     theta[2]       7.23   7.00 6.04 4.97  -2.01  16.92
+     theta[3]       5.75   5.92 6.03 5.26  -3.41  14.73
+     theta[4]       6.90   6.98 5.90 5.03  -2.08  16.23
+     theta[5]       6.03   5.78 6.50 5.13  -3.18  16.17
+     theta[6]       6.74   6.84 5.36 4.86  -1.99  15.91
+     theta[7]       7.80   7.57 6.21 5.41  -1.44  18.38
+     theta[8]       7.07   6.85 5.94 5.30  -2.19  17.13
+
+---
+
+     variable   mean median   sd  mad     q5    q95
+     theta[1]   8.21   7.82 6.46 5.22  -1.00  17.39
+     theta[2]   7.23   7.00 6.04 4.97  -2.01  16.92
+     theta[3]   5.75   5.92 6.03 5.26  -3.41  14.73
+     theta[4]   6.90   6.98 5.90 5.03  -2.08  16.23
+     theta[5]   6.03   5.78 6.50 5.13  -3.18  16.17
+     theta[6]   6.74   6.84 5.36 4.86  -1.99  15.91
+     theta[7]   7.80   7.57 6.21 5.41  -1.44  18.38
+     theta[8]   7.07   6.85 5.94 5.30  -2.19  17.13
+     tau        3.87   3.05 2.81 2.00   1.01   9.44
+     lp__     -47.27 -46.75 2.69 2.15 -51.93 -43.98
+
+     # showing 10 of 11 rows (change via 'max_rows' argument or 'cmdstanr_max_rows' option)
+
+---
+
+    Can't find the following variable(s): unknown
+