release/v1.0.4: updating version numbers

stan-dev · Jun 30, 2022 · 4b7f10f · 4b7f10f
1 parent b9b90ee
commit 4b7f10f
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Showing 38 changed files with 535 additions and 534 deletions.
diff --git a/cmdstanpy/_version.py b/cmdstanpy/_version.py
@@ -1,3 +1,3 @@
 """PyPi Version"""
 
-__version__ = '1.0.3'
+__version__ = '1.0.4'
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 1.0.3 documentation</title>
+    <title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/compiler_opts.html b/docs/_modules/cmdstanpy/compiler_opts.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.compiler_opts &#8212; CmdStanPy 1.0.3 documentation</title>
+    <title>cmdstanpy.compiler_opts &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</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 1.0.3 documentation</title>
+    <title>cmdstanpy.model &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

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 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</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 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit.mcmc &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

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 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit.metadata &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</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 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit.mle &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/runset.html b/docs/_modules/cmdstanpy/stanfit/runset.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.runset &#8212; CmdStanPy 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit.runset &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/stanfit/vb.html b/docs/_modules/cmdstanpy/stanfit/vb.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.stanfit.vb &#8212; CmdStanPy 1.0.3 documentation</title>
+    <title>cmdstanpy.stanfit.vb &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 

diff --git a/docs/_modules/cmdstanpy/utils.html b/docs/_modules/cmdstanpy/utils.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>cmdstanpy.utils &#8212; CmdStanPy 1.0.3 documentation</title>
+    <title>cmdstanpy.utils &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>
 
@@ -321,7 +321,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
         <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="sa">f</span><span class="s1">&#39;No CmdStan directory, path </span><span class="si">{</span><span class="n">path</span><span class="si">}</span><span class="s1"> does not exist.&#39;</span><span class="p">)</span>
     <span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;bin&#39;</span><span class="p">,</span> <span class="s1">&#39;stanc&#39;</span> <span class="o">+</span> <span class="n">EXTENSION</span><span class="p">)):</span>
         <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span>
-            <span class="s1">&#39;CmdStan installataion missing binaries. &#39;</span>
+            <span class="sa">f</span><span class="s1">&#39;CmdStan installataion missing binaries in </span><span class="si">{</span><span class="n">path</span><span class="si">}</span><span class="s1">/bin. &#39;</span>
             <span class="s1">&#39;Re-install cmdstan by running command &quot;install_cmdstan &#39;</span>
             <span class="s1">&#39;--overwrite&quot;, or Python code &quot;import cmdstanpy; &#39;</span>
             <span class="s1">&#39;cmdstanpy.install_cmdstan(overwrite=True)&quot;&#39;</span>
@@ -381,8 +381,9 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
 <span class="sd">    &quot;&quot;&quot;</span>
     <span class="k">try</span><span class="p">:</span>
         <span class="n">makefile</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">cmdstan_path</span><span class="p">(),</span> <span class="s1">&#39;makefile&#39;</span><span class="p">)</span>
-    <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+    <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
         <span class="n">get_logger</span><span class="p">()</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s1">&#39;No CmdStan installation found.&#39;</span><span class="p">)</span>
+        <span class="n">get_logger</span><span class="p">()</span><span class="o">.</span><span class="n">debug</span><span class="p">(</span><span class="s2">&quot;</span><span class="si">%s</span><span class="s2">&quot;</span><span class="p">,</span> <span class="n">e</span><span class="p">)</span>
         <span class="k">return</span> <span class="kc">None</span>
 
     <span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">makefile</span><span class="p">):</span>
@@ -467,7 +468,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
         <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">toolchain_root</span><span class="p">,</span> <span class="s1">&#39;mingw64&#39;</span><span class="p">)):</span>
             <span class="n">compiler_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span>
                 <span class="n">toolchain_root</span><span class="p">,</span>
-                <span class="s1">&#39;mingw64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw32&#39;</span><span class="p">,</span>
+                <span class="s1">&#39;mingw64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span> <span class="o">**</span> <span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw32&#39;</span><span class="p">,</span>
                 <span class="s1">&#39;bin&#39;</span><span class="p">,</span>
             <span class="p">)</span>
             <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">compiler_path</span><span class="p">):</span>
@@ -491,7 +492,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
         <span class="k">elif</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">toolchain_root</span><span class="p">,</span> <span class="s1">&#39;mingw_64&#39;</span><span class="p">)):</span>
             <span class="n">compiler_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span>
                 <span class="n">toolchain_root</span><span class="p">,</span>
-                <span class="s1">&#39;mingw_64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw_32&#39;</span><span class="p">,</span>
+                <span class="s1">&#39;mingw_64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span> <span class="o">**</span> <span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw_32&#39;</span><span class="p">,</span>
                 <span class="s1">&#39;bin&#39;</span><span class="p">,</span>
             <span class="p">)</span>
             <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">compiler_path</span><span class="p">):</span>
@@ -543,7 +544,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
                 <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">(</span><span class="s1">&#39;35&#39;</span><span class="p">,</span> <span class="s1">&#39;3.5&#39;</span><span class="p">,</span> <span class="s1">&#39;3&#39;</span><span class="p">):</span>
                     <span class="n">compiler_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span>
                         <span class="n">toolchain_root</span><span class="p">,</span>
-                        <span class="s1">&#39;mingw64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw32&#39;</span><span class="p">,</span>
+                        <span class="s1">&#39;mingw64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span> <span class="o">**</span> <span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw32&#39;</span><span class="p">,</span>
                         <span class="s1">&#39;bin&#39;</span><span class="p">,</span>
                     <span class="p">)</span>
                     <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">compiler_path</span><span class="p">):</span>
@@ -568,7 +569,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
                 <span class="k">else</span><span class="p">:</span>
                     <span class="n">compiler_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span>
                         <span class="n">toolchain_root</span><span class="p">,</span>
-                        <span class="s1">&#39;mingw_64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw_32&#39;</span><span class="p">,</span>
+                        <span class="s1">&#39;mingw_64&#39;</span> <span class="k">if</span> <span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">maxsize</span> <span class="o">&gt;</span> <span class="mi">2</span> <span class="o">**</span> <span class="mi">32</span><span class="p">)</span> <span class="k">else</span> <span class="s1">&#39;mingw_32&#39;</span><span class="p">,</span>
                         <span class="s1">&#39;bin&#39;</span><span class="p">,</span>
                     <span class="p">)</span>
                     <span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">compiler_path</span><span class="p">):</span>
@@ -1529,7 +1530,7 @@ <h1>Source code for cmdstanpy.utils</h1><div class="highlight"><pre>
         <span class="n">logger</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span><span class="s1">&#39;CmdStan installation failed.</span><span class="se">\n</span><span class="si">%s</span><span class="s1">&#39;</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
         <span class="k">return</span> <span class="kc">False</span>
 
-    <span class="n">set_cmdstan_path</span><span class="p">(</span><span class="n">args</span><span class="o">.</span><span class="n">dir</span><span class="p">)</span>
+    <span class="n">set_cmdstan_path</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">args</span><span class="o">.</span><span class="n">dir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">&quot;cmdstan-</span><span class="si">{</span><span class="n">args</span><span class="o">.</span><span class="n">version</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">))</span>
 
     <span class="k">return</span> <span class="kc">True</span></div>
 

diff --git a/docs/_modules/index.html b/docs/_modules/index.html
@@ -5,7 +5,7 @@
   <head>
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <title>Overview: module code &#8212; CmdStanPy 1.0.3 documentation</title>
+    <title>Overview: module code &#8212; CmdStanPy 1.0.4 documentation</title>
 
   <!-- Loaded before other Sphinx assets -->
   <link href="../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
@@ -56,7 +56,7 @@
   <div id="navbar-start">
 
     <!-- This will display the version of the docs -->
-<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.3</a>
+<a class='navbar-brand' href='index.html'>CmdStanPy 1.0.4</a>
 
   </div>