release/v1.2.5: updating version numbers

stan-dev · Dec 11, 2024 · dfcd3fc · dfcd3fc
1 parent d7adc35
commit dfcd3fc
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Showing 48 changed files with 1,393 additions and 1,366 deletions.
diff --git a/cmdstanpy/_version.py b/cmdstanpy/_version.py
@@ -1,3 +1,3 @@
 """PyPi Version"""
 
-__version__ = '1.2.4'
+__version__ = '1.2.5'
diff --git a/docs/_modules/cmdstanpy/cmdstan_args.html b/docs/_modules/cmdstanpy/cmdstan_args.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/compilation.html b/docs/_modules/cmdstanpy/compilation.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.compilation &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.compilation &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/install_cmdstan.html b/docs/_modules/cmdstanpy/install_cmdstan.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.install_cmdstan &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.install_cmdstan &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/model.html b/docs/_modules/cmdstanpy/model.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.model &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.model &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 
@@ -379,9 +379,9 @@ <h1>Source code for cmdstanpy.model</h1><div class="highlight"><pre>
                 <span class="bp">self</span><span class="o">.</span><span class="n">_compiler_options</span><span class="o">.</span><span class="n">add_include_path</span><span class="p">(</span><span class="n">path</span><span class="p">)</span>
 
             <span class="c1"># try to detect models w/out parameters, needed for sampler</span>
-            <span class="k">if</span> <span class="ow">not</span> <span class="n">cmdstan_version_before</span><span class="p">(</span>
-                <span class="mi">2</span><span class="p">,</span> <span class="mi">27</span>
-            <span class="p">):</span>  <span class="c1"># unknown end of version range</span>
+            <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="n">cmdstan_version_before</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">27</span><span class="p">))</span> <span class="ow">and</span> <span class="n">cmdstan_version_before</span><span class="p">(</span>
+                <span class="mi">2</span><span class="p">,</span> <span class="mi">36</span>
+            <span class="p">):</span>
                 <span class="k">try</span><span class="p">:</span>
                     <span class="n">model_info</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">src_info</span><span class="p">()</span>
                     <span class="k">if</span> <span class="s1">&#39;parameters&#39;</span> <span class="ow">in</span> <span class="n">model_info</span><span class="p">:</span>

diff --git a/docs/_modules/cmdstanpy/stanfit.html b/docs/_modules/cmdstanpy/stanfit.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/gq.html b/docs/_modules/cmdstanpy/stanfit/gq.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.gq &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit.gq &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/laplace.html b/docs/_modules/cmdstanpy/stanfit/laplace.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.laplace &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit.laplace &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/mcmc.html b/docs/_modules/cmdstanpy/stanfit/mcmc.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.mcmc &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit.mcmc &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 
@@ -586,7 +586,7 @@ <h1>Source code for cmdstanpy.stanfit.mcmc</h1><div class="highlight"><pre>
                     <span class="bp">self</span><span class="o">.</span><span class="n">_step_size</span><span class="p">[</span><span class="n">chain</span><span class="p">]</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">step_size</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
                     <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">cmdstan_config</span><span class="p">[</span><span class="s1">&#39;metric&#39;</span><span class="p">]</span> <span class="o">!=</span> <span class="s1">&#39;unit_e&#39;</span><span class="p">:</span>
                         <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>  <span class="c1"># metric type</span>
-                        <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span>
+                        <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
                         <span class="n">num_unconstrained_params</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">))</span>
                         <span class="k">if</span> <span class="n">chain</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>  <span class="c1"># can&#39;t allocate w/o num params</span>
                             <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">metric_type</span> <span class="o">==</span> <span class="s1">&#39;diag_e&#39;</span><span class="p">:</span>
@@ -603,18 +603,21 @@ <h1>Source code for cmdstanpy.stanfit.mcmc</h1><div class="highlight"><pre>
                                     <span class="p">),</span>
                                     <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">,</span>
                                 <span class="p">)</span>
-                        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">metric_type</span> <span class="o">==</span> <span class="s1">&#39;diag_e&#39;</span><span class="p">:</span>
-                            <span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-                            <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
-                        <span class="k">else</span><span class="p">:</span>
-                            <span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-                            <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
-                            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">num_unconstrained_params</span><span class="p">):</span>
-                                <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+                        <span class="k">if</span> <span class="n">line</span><span class="p">:</span>
+                            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">metric_type</span> <span class="o">==</span> <span class="s1">&#39;diag_e&#39;</span><span class="p">:</span>
                                 <span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-                                <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
+                                <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
+                            <span class="k">else</span><span class="p">:</span>
+                                <span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+                                <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
                                     <span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span>
                                 <span class="p">]</span>
+                                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">num_unconstrained_params</span><span class="p">):</span>
+                                    <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
+                                    <span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+                                    <span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
+                                        <span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span>
+                                    <span class="p">]</span>
                     <span class="k">else</span><span class="p">:</span>  <span class="c1"># unit_e changed in 2.34 to have an extra line</span>
                         <span class="n">pos</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">tell</span><span class="p">()</span>
                         <span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>

diff --git a/docs/_modules/cmdstanpy/stanfit/metadata.html b/docs/_modules/cmdstanpy/stanfit/metadata.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.metadata &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit.metadata &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/mle.html b/docs/_modules/cmdstanpy/stanfit/mle.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.mle &#8212; CmdStanPy 1.2.4 documentation</title>
+    <title>cmdstanpy.stanfit.mle &#8212; CmdStanPy 1.2.5 documentation</title>
 
     <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
 <link href="../../../_static/styles/pydata-sphinx-theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -61,7 +61,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.4</a>
+<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.2.5</a>
 
   </div>