updates

Author: sunxd3

src/BUGSExamples/BUGSExamples.jl

@@ -67,6 +67,9 @@ function load_example_volume(volume_num::Int)
         include("Volume_2/05_Eyes.jl")
         include("Volume_2/10_BiRats.jl")
         vol_2 = (
+            dugongs = dugongs,
+            orange_trees = orange_trees,
+            orange_trees_multivariate = orange_trees_multivariate,
             birats = birats,
             eyes = eyes
         )

src/BUGSExamples/Volume_2/01_Dugongs.jl

@@ -3,14 +3,14 @@ name = "Dugongs: nonlinear growth curve"
 model_def = @bugs begin
     for i in 1:N
         Y[i] ~ dnorm(mu[i], tau)
-        mu[i] < -alpha - beta * pow(gamma, x[i])
+        mu[i] = alpha - beta * pow(gamma, x[i])
     end
     alpha ~ dunif(0, 100)
     beta ~ dunif(0, 100)
     gamma ~ dunif(0.5, 1.0)
     tau ~ dgamma(0.001, 0.001)
-    sigma < -1 / sqrt(tau)
-    U3 < -logit(gamma)
+    sigma = 1 / sqrt(tau)
+    U3 = logit(gamma)
 end
 
 original = """
@@ -48,5 +48,5 @@ reference_results = (
     sigma = (mean = 0.09917, std = 0.01503)
 )
 
-dugong = Example(
+dugongs = Example(
     name, model_def, original, data, inits, inits_alternative, reference_results)

src/BUGSExamples/Volume_2/02_Orange_trees.jl

@@ -14,7 +14,7 @@ model_def = @bugs begin
         end
     end
     tauC ~ dgamma(1.0E-3, 1.0E-3)
-    sigma.C < -1 / sqrt(tauC)
+    var"sigma.C" = 1 / sqrt(tauC)
     for k in 1:3
         mu[k] ~ dnorm(0, 1.0E-4)
         tau[k] ~ dgamma(1.0E-3, 1.0E-3)
@@ -89,5 +89,5 @@ reference_results = (
         quantile_97_5 = 10.68, n_eff = 5001, Rhat = 20000)
 )
 
-orange_tree = Example(
+orange_trees = Example(
     name, model_def, original, data, inits, inits_alternative, reference_results)

src/BUGSExamples/Volume_2/03_Multivariate_Orange_trees.jl

@@ -97,5 +97,5 @@ reference_results = (
         quantile_2_5 = 5.947, quantile_97_5 = 10.66, n_eff = 5001, Rhat = 20000)
 )
 
-orange_tree_multivariate = Example(
+orange_trees_multivariate = Example(
     name, model_def, original, data, inits, inits_alternative, reference_results)