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release/v1.0.7: updating version numbers
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2 changes: 1 addition & 1 deletion cmdstanpy/_version.py
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@@ -1,3 +1,3 @@
"""PyPi Version"""

__version__ = '1.0.6'
__version__ = '1.0.7'
4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/cmdstan_args.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
<link href="../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
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<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.7</a>

</div>

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4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/compiler_opts.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.compiler_opts &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.compiler_opts &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
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<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.7</a>

</div>

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4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/model.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.model &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.model &#8212; CmdStanPy 1.0.7 documentation</title>

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<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.7</a>

</div>

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4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/stanfit.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.stanfit &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.stanfit &#8212; CmdStanPy 1.0.7 documentation</title>

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Expand Down Expand Up @@ -56,7 +56,7 @@
<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.0.7</a>

</div>

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15 changes: 10 additions & 5 deletions docs/_modules/cmdstanpy/stanfit/gq.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.stanfit.gq &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.stanfit.gq &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
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<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.7</a>

</div>

Expand Down Expand Up @@ -692,10 +692,15 @@ <h1>Source code for cmdstanpy.stanfit.gq</h1><div class="highlight"><pre>
<span class="n">col_idxs</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">stan_vars_cols</span><span class="p">[</span><span class="n">var</span><span class="p">]</span>
<span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">col_idxs</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
<span class="n">dims</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">stan_vars_dims</span><span class="p">[</span><span class="n">var</span><span class="p">])</span>
<span class="c1"># pylint: disable=redundant-keyword-arg</span>
<span class="n">draws</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_draws</span><span class="p">[</span><span class="n">draw1</span><span class="p">:,</span> <span class="p">:,</span> <span class="n">col_idxs</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>

<span class="n">draws</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_draws</span><span class="p">[</span><span class="n">draw1</span><span class="p">:,</span> <span class="p">:,</span> <span class="n">col_idxs</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">stan_vars_types</span><span class="p">[</span><span class="n">var</span><span class="p">]</span> <span class="o">==</span> <span class="n">BaseType</span><span class="o">.</span><span class="n">COMPLEX</span><span class="p">:</span>
<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span>
<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="p">::</span><span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">::</span><span class="mi">2</span><span class="p">]</span>
<span class="n">dims</span> <span class="o">=</span> <span class="n">dims</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>

<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>

<span class="k">return</span> <span class="n">draws</span></div>

<div class="viewcode-block" id="CmdStanGQ.stan_variables"><a class="viewcode-back" href="../../../api.html#cmdstanpy.CmdStanGQ.stan_variables">[docs]</a> <span class="k">def</span> <span class="nf">stan_variables</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">inc_warmup</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="n">Dict</span><span class="p">[</span><span class="nb">str</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">]:</span>
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13 changes: 9 additions & 4 deletions docs/_modules/cmdstanpy/stanfit/mcmc.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.stanfit.mcmc &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.stanfit.mcmc &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
<link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
Expand Down Expand Up @@ -56,7 +56,7 @@
<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.7</a>

</div>

Expand Down Expand Up @@ -916,9 +916,14 @@ <h1>Source code for cmdstanpy.stanfit.mcmc</h1><div class="highlight"><pre>
<span class="n">col_idxs</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">stan_vars_cols</span><span class="p">[</span><span class="n">var</span><span class="p">]</span>
<span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">col_idxs</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
<span class="n">dims</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">stan_vars_dims</span><span class="p">[</span><span class="n">var</span><span class="p">])</span>
<span class="n">draws</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_draws</span><span class="p">[</span><span class="n">draw1</span><span class="p">:,</span> <span class="p">:,</span> <span class="n">col_idxs</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>
<span class="n">draws</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_draws</span><span class="p">[</span><span class="n">draw1</span><span class="p">:,</span> <span class="p">:,</span> <span class="n">col_idxs</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">stan_vars_types</span><span class="p">[</span><span class="n">var</span><span class="p">]</span> <span class="o">==</span> <span class="n">BaseType</span><span class="o">.</span><span class="n">COMPLEX</span><span class="p">:</span>
<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span>
<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="p">::</span><span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">draws</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">::</span><span class="mi">2</span><span class="p">]</span>
<span class="n">dims</span> <span class="o">=</span> <span class="n">dims</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>

<span class="n">draws</span> <span class="o">=</span> <span class="n">draws</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>

<span class="k">return</span> <span class="n">draws</span></div>

<div class="viewcode-block" id="CmdStanMCMC.stan_variables"><a class="viewcode-back" href="../../../api.html#cmdstanpy.CmdStanMCMC.stan_variables">[docs]</a> <span class="k">def</span> <span class="nf">stan_variables</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">-&gt;</span> <span class="n">Dict</span><span class="p">[</span><span class="nb">str</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">]:</span>
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4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/stanfit/metadata.html
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.stanfit.metadata &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.stanfit.metadata &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
<link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
Expand Down Expand Up @@ -56,7 +56,7 @@
<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.7</a>

</div>

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15 changes: 10 additions & 5 deletions docs/_modules/cmdstanpy/stanfit/mle.html
View file
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<head>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
<title>cmdstanpy.stanfit.mle &#8212; CmdStanPy 1.0.6 documentation</title>
<title>cmdstanpy.stanfit.mle &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
<link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
Expand Down Expand Up @@ -56,7 +56,7 @@
<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.7</a>

</div>

Expand Down Expand Up @@ -387,12 +387,17 @@ <h1>Source code for cmdstanpy.stanfit.mle</h1><div class="highlight"><pre>
<span class="n">dims</span> <span class="o">=</span> <span class="p">(</span><span class="n">num_rows</span><span class="p">,)</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">stan_vars_dims</span><span class="p">[</span><span class="n">var</span><span class="p">]</span>
<span class="c1"># pylint: disable=redundant-keyword-arg</span>
<span class="k">if</span> <span class="n">num_rows</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
<span class="n">result</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_all_iters</span><span class="p">[:,</span> <span class="n">col_idxs</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>
<span class="n">result</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_all_iters</span><span class="p">[:,</span> <span class="n">col_idxs</span><span class="p">]</span>
<span class="k">else</span><span class="p">:</span>
<span class="n">result</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_mle</span><span class="p">[</span><span class="n">col_idxs</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">[</span><span class="mi">1</span><span class="p">:],</span> <span class="n">order</span><span class="o">=</span><span class="s2">&quot;F&quot;</span><span class="p">)</span>
<span class="n">result</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_mle</span><span class="p">[</span><span class="n">col_idxs</span><span class="p">]</span>
<span class="n">dims</span> <span class="o">=</span> <span class="n">dims</span><span class="p">[</span><span class="mi">1</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">stan_vars_types</span><span class="p">[</span><span class="n">var</span><span class="p">]</span> <span class="o">==</span> <span class="n">BaseType</span><span class="o">.</span><span class="n">COMPLEX</span><span class="p">:</span>
<span class="n">result</span> <span class="o">=</span> <span class="n">result</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">result</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">]</span>
<span class="n">result</span> <span class="o">=</span> <span class="n">result</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="p">::</span><span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">result</span><span class="p">[</span><span class="o">...</span><span class="p">,</span> <span class="mi">1</span><span class="p">::</span><span class="mi">2</span><span class="p">]</span>
<span class="n">dims</span> <span class="o">=</span> <span class="n">dims</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>

<span class="n">result</span> <span class="o">=</span> <span class="n">result</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dims</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="s1">&#39;F&#39;</span><span class="p">)</span>

<span class="k">return</span> <span class="n">result</span>

<span class="k">else</span><span class="p">:</span> <span class="c1"># scalar var</span>
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4 changes: 2 additions & 2 deletions docs/_modules/cmdstanpy/stanfit/runset.html
View file
Expand Up @@ -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 1.0.6 documentation</title>
<title>cmdstanpy.stanfit.runset &#8212; CmdStanPy 1.0.7 documentation</title>

<!-- Loaded before other Sphinx assets -->
<link href="../../../_static/styles/theme.css?digest=1999514e3f237ded88cf" rel="stylesheet">
Expand Down Expand Up @@ -56,7 +56,7 @@
<div id="navbar-start">

<!-- This will display the version of the docs -->
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.6</a>
<a class='navbar-brand' href='../../../index.html'>CmdStanPy 1.0.7</a>

</div>

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