deploy: c4ef36b

_sources/generated/autoexamples/01-simple-simulator.rst

@@ -478,7 +478,7 @@ As mentioned, parallelization with automatic broadcasting is supported...
 
 .. rst-class:: sphx-glr-timing
 
-   **Total running time of the script:** (0 minutes 13.757 seconds)
+   **Total running time of the script:** (0 minutes 13.531 seconds)
 
 
 .. _sphx_glr_download_generated_autoexamples_01-simple-simulator.py:

_sources/generated/autoexamples/02-synth-data.rst

@@ -187,7 +187,7 @@ Assume a constant refocusing train
  .. code-block:: none
 
 
-    (<matplotlib.image.AxesImage object at 0x7f3d03b34460>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+    (<matplotlib.image.AxesImage object at 0x7fa16c161690>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 
 
 
@@ -267,7 +267,7 @@ from Sigpy.
  .. code-block:: none
 
 
-    (<matplotlib.image.AxesImage object at 0x7f3d00541360>, (-0.5, 255.5, 255.5, -0.5), (-0.5, 255.5, 255.5, -0.5), <matplotlib.colorbar.Colorbar object at 0x7f3d000c1450>)
+    (<matplotlib.image.AxesImage object at 0x7fa168cee830>, (-0.5, 255.5, 255.5, -0.5), (-0.5, 255.5, 255.5, -0.5), <matplotlib.colorbar.Colorbar object at 0x7fa16894f9d0>)
 
 
 
@@ -330,7 +330,7 @@ Reconstruction shows the effect of undersampling:
  .. code-block:: none
 
 
-    (<matplotlib.image.AxesImage object at 0x7f3d00074460>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+    (<matplotlib.image.AxesImage object at 0x7fa1688114b0>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 
 
 
@@ -342,7 +342,7 @@ datasets, such as in Synth-MOLED.
 
 .. rst-class:: sphx-glr-timing
 
-   **Total running time of the script:** (0 minutes 12.168 seconds)
+   **Total running time of the script:** (0 minutes 12.064 seconds)
 
 
 .. _sphx_glr_download_generated_autoexamples_02-synth-data.py:

_sources/generated/autoexamples/03-fitting.rst

@@ -132,7 +132,7 @@ now generate the data
  .. code-block:: none
 
 
-    (<matplotlib.image.AxesImage object at 0x7f3d00076e60>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+    (<matplotlib.image.AxesImage object at 0x7fa168833e50>, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 
 
 
@@ -412,14 +412,14 @@ Done! We can now try it:
  .. code-block:: none
 
 
-    (<matplotlib.image.AxesImage object at 0x7f3cf8e5af80>, (-0.5, 255.5, 255.5, -0.5), <matplotlib.colorbar.Colorbar object at 0x7f3cf8e5b490>, Text(0.5, 1.0, 'recon M0'))
+    (<matplotlib.image.AxesImage object at 0x7fa168668550>, (-0.5, 255.5, 255.5, -0.5), <matplotlib.colorbar.Colorbar object at 0x7fa16866af20>, Text(0.5, 1.0, 'recon M0'))
 
 
 
 
 .. rst-class:: sphx-glr-timing
 
-   **Total running time of the script:** (0 minutes 2.695 seconds)
+   **Total running time of the script:** (0 minutes 2.604 seconds)
 
 
 .. _sphx_glr_download_generated_autoexamples_03-fitting.py:

_sources/generated/autoexamples/04-derivatives.rst

@@ -354,7 +354,7 @@ Run and plot timings:
 
 .. rst-class:: sphx-glr-timing
 
-   **Total running time of the script:** (0 minutes 15.625 seconds)
+   **Total running time of the script:** (0 minutes 15.703 seconds)
 
 
 .. _sphx_glr_download_generated_autoexamples_04-derivatives.py:

_sources/generated/autoexamples/sg_execution_times.rst

@@ -6,7 +6,7 @@
 
 Computation times
 =================
-**00:44.245** total execution time for 4 files **from generated/autoexamples**:
+**00:43.902** total execution time for 4 files **from generated/autoexamples**:
 
 .. container::
 
@@ -33,14 +33,14 @@ Computation times
      - Time
      - Mem (MB)
    * - :ref:`sphx_glr_generated_autoexamples_04-derivatives.py` (``04-derivatives.py``)
-     - 00:15.625
+     - 00:15.703
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_01-simple-simulator.py` (``01-simple-simulator.py``)
-     - 00:13.757
+     - 00:13.531
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_02-synth-data.py` (``02-synth-data.py``)
-     - 00:12.168
+     - 00:12.064
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_03-fitting.py` (``03-fitting.py``)
-     - 00:02.695
+     - 00:02.604
      - 0.0

_sources/sg_execution_times.rst

@@ -6,7 +6,7 @@
 
 Computation times
 =================
-**00:44.245** total execution time for 4 files **from all galleries**:
+**00:43.902** total execution time for 4 files **from all galleries**:
 
 .. container::
 
@@ -33,14 +33,14 @@ Computation times
      - Time
      - Mem (MB)
    * - :ref:`sphx_glr_generated_autoexamples_04-derivatives.py` (``../examples/04-derivatives.py``)
-     - 00:15.625
+     - 00:15.703
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_01-simple-simulator.py` (``../examples/01-simple-simulator.py``)
-     - 00:13.757
+     - 00:13.531
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_02-synth-data.py` (``../examples/02-synth-data.py``)
-     - 00:12.168
+     - 00:12.064
      - 0.0
    * - :ref:`sphx_glr_generated_autoexamples_03-fitting.py` (``../examples/03-fitting.py``)
-     - 00:02.695
+     - 00:02.604
      - 0.0

generated/autoexamples/01-simple-simulator.html

@@ -705,7 +705,7 @@ <h2>Functional Wrappers<a class="headerlink" href="#functional-wrappers" title="
 <img src="../../_images/sphx_glr_01-simple-simulator_003.png" srcset="../../_images/sphx_glr_01-simple-simulator_003.png" alt="01 simple simulator" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>Text(16.472222222222214, 0.5, &#39;signal jacobian [a.u.]&#39;)
 </pre></div>
 </div>
-<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 13.757 seconds)</p>
+<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 13.531 seconds)</p>
 <div class="sphx-glr-footer sphx-glr-footer-example docutils container" id="sphx-glr-download-generated-autoexamples-01-simple-simulator-py">
 <div class="binder-badge docutils container">
 <a class="reference external image-reference" href="https://mybinder.org/v2/gh/infn-mri/torchsim/gh-pages?urlpath=lab/tree/examples/generated/autoexamples/01-simple-simulator.ipynb"><img alt="Launch binder" src="../../_images/binder_badge_logo.svg" style="width: 150px;" />

generated/autoexamples/02-synth-data.html

@@ -528,7 +528,7 @@ <h1>Synthetic Data Generation</h1>
 <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.imshow.html#matplotlib.pyplot.imshow" title="matplotlib.pyplot.imshow" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">imshow</span></a><span class="p">(</span><span class="nb">abs</span><span class="p">(</span><a href="https://numpy.org/doc/stable/reference/generated/numpy.ndarray.html#numpy.ndarray" title="numpy.ndarray" class="sphx-glr-backref-module-numpy sphx-glr-backref-type-py-class sphx-glr-backref-instance"><span class="n">img</span></a><span class="p">),</span> <span class="n">cmap</span><span class="o">=</span><span class="s2">&quot;gray&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;image&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;off&quot;</span><span class="p">)</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_02-synth-data_001.png" srcset="../../_images/sphx_glr_02-synth-data_001.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7f3d03b34460&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+<img src="../../_images/sphx_glr_02-synth-data_001.png" srcset="../../_images/sphx_glr_02-synth-data_001.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7fa16c161690&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 </pre></div>
 </div>
 <p>Now, we want to add coil sensitivities. We will use Sigpy:</p>
@@ -555,7 +555,7 @@ <h1>Synthetic Data Generation</h1>
 <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.imshow.html#matplotlib.pyplot.imshow" title="matplotlib.pyplot.imshow" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">imshow</span></a><span class="p">(</span><span class="nb">abs</span><span class="p">(</span><a href="https://numpy.org/doc/stable/reference/generated/numpy.ndarray.html#numpy.ndarray" title="numpy.ndarray" class="sphx-glr-backref-module-numpy sphx-glr-backref-type-py-class sphx-glr-backref-instance"><span class="n">ksp</span></a><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]),</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">50</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;image&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;off&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.colorbar.html#matplotlib.pyplot.colorbar" title="matplotlib.pyplot.colorbar" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">colorbar</span></a><span class="p">()</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_02-synth-data_002.png" srcset="../../_images/sphx_glr_02-synth-data_002.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7f3d00541360&gt;, (-0.5, 255.5, 255.5, -0.5), (-0.5, 255.5, 255.5, -0.5), &lt;matplotlib.colorbar.Colorbar object at 0x7f3d000c1450&gt;)
+<img src="../../_images/sphx_glr_02-synth-data_002.png" srcset="../../_images/sphx_glr_02-synth-data_002.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7fa168cee830&gt;, (-0.5, 255.5, 255.5, -0.5), (-0.5, 255.5, 255.5, -0.5), &lt;matplotlib.colorbar.Colorbar object at 0x7fa16894f9d0&gt;)
 </pre></div>
 </div>
 <p>Potentially, we could use Non-Cartesian sampling and include non-idealities
@@ -579,12 +579,12 @@ <h1>Synthetic Data Generation</h1>
 <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.imshow.html#matplotlib.pyplot.imshow" title="matplotlib.pyplot.imshow" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">imshow</span></a><span class="p">(</span><span class="nb">abs</span><span class="p">(</span><a href="https://numpy.org/doc/stable/reference/generated/numpy.ndarray.html#numpy.ndarray" title="numpy.ndarray" class="sphx-glr-backref-module-numpy sphx-glr-backref-type-py-class sphx-glr-backref-instance"><span class="n">img</span></a><span class="p">),</span> <span class="n">cmap</span><span class="o">=</span><span class="s2">&quot;gray&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;image&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;off&quot;</span><span class="p">)</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_02-synth-data_003.png" srcset="../../_images/sphx_glr_02-synth-data_003.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7f3d00074460&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+<img src="../../_images/sphx_glr_02-synth-data_003.png" srcset="../../_images/sphx_glr_02-synth-data_003.png" alt="02 synth data" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7fa1688114b0&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 </pre></div>
 </div>
 <p>This can be combined with data augmentation in torchio to generate synthetic
 datasets, such as in Synth-MOLED.</p>
-<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 12.168 seconds)</p>
+<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 12.064 seconds)</p>
 <div class="sphx-glr-footer sphx-glr-footer-example docutils container" id="sphx-glr-download-generated-autoexamples-02-synth-data-py">
 <div class="binder-badge docutils container">
 <a class="reference external image-reference" href="https://mybinder.org/v2/gh/infn-mri/torchsim/gh-pages?urlpath=lab/tree/examples/generated/autoexamples/02-synth-data.ipynb"><img alt="Launch binder" src="../../_images/binder_badge_logo.svg" style="width: 150px;" />

generated/autoexamples/03-fitting.html

@@ -515,7 +515,7 @@ <h1>Parameter Fitting</h1>
 <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.imshow.html#matplotlib.pyplot.imshow" title="matplotlib.pyplot.imshow" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">imshow</span></a><span class="p">(</span><span class="nb">abs</span><span class="p">(</span><a href="https://numpy.org/doc/stable/reference/generated/numpy.ndarray.html#numpy.ndarray" title="numpy.ndarray" class="sphx-glr-backref-module-numpy sphx-glr-backref-type-py-class sphx-glr-backref-instance"><span class="n">img</span></a><span class="p">),</span> <span class="n">cmap</span><span class="o">=</span><span class="s2">&quot;gray&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;image&quot;</span><span class="p">),</span> <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.axis.html#matplotlib.pyplot.axis" title="matplotlib.pyplot.axis" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">axis</span></a><span class="p">(</span><span class="s2">&quot;off&quot;</span><span class="p">)</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_03-fitting_001.png" srcset="../../_images/sphx_glr_03-fitting_001.png" alt="03 fitting" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7f3d00076e60&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
+<img src="../../_images/sphx_glr_03-fitting_001.png" srcset="../../_images/sphx_glr_03-fitting_001.png" alt="03 fitting" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7fa168833e50&gt;, (-0.5, 767.5, 255.5, -0.5), (-0.5, 767.5, 255.5, -0.5))
 </pre></div>
 </div>
 <p>now, we want to implement a simple dictionary based inference algorithm.
@@ -665,10 +665,10 @@ <h1>Parameter Fitting</h1>
 <span class="p">)</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_03-fitting_002.png" srcset="../../_images/sphx_glr_03-fitting_002.png" alt="true T2 [ms], recon T2 [ms], true M0, recon M0" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7f3cf8e5af80&gt;, (-0.5, 255.5, 255.5, -0.5), &lt;matplotlib.colorbar.Colorbar object at 0x7f3cf8e5b490&gt;, Text(0.5, 1.0, &#39;recon M0&#39;))
+<img src="../../_images/sphx_glr_03-fitting_002.png" srcset="../../_images/sphx_glr_03-fitting_002.png" alt="true T2 [ms], recon T2 [ms], true M0, recon M0" class = "sphx-glr-single-img"/><div class="sphx-glr-script-out highlight-none notranslate"><div class="highlight"><pre><span></span>(&lt;matplotlib.image.AxesImage object at 0x7fa168668550&gt;, (-0.5, 255.5, 255.5, -0.5), &lt;matplotlib.colorbar.Colorbar object at 0x7fa16866af20&gt;, Text(0.5, 1.0, &#39;recon M0&#39;))
 </pre></div>
 </div>
-<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 2.695 seconds)</p>
+<p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 2.604 seconds)</p>
 <div class="sphx-glr-footer sphx-glr-footer-example docutils container" id="sphx-glr-download-generated-autoexamples-03-fitting-py">
 <div class="binder-badge docutils container">
 <a class="reference external image-reference" href="https://mybinder.org/v2/gh/infn-mri/torchsim/gh-pages?urlpath=lab/tree/examples/generated/autoexamples/03-fitting.ipynb"><img alt="Launch binder" src="../../_images/binder_badge_logo.svg" style="width: 150px;" />

generated/autoexamples/04-derivatives.html

@@ -642,7 +642,7 @@ <h1>Automatic differentiation</h1>
 <a href="https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.tight_layout.html#matplotlib.pyplot.tight_layout" title="matplotlib.pyplot.tight_layout" class="sphx-glr-backref-module-matplotlib-pyplot sphx-glr-backref-type-py-function"><span class="n">plt</span><span class="o">.</span><span class="n">tight_layout</span></a><span class="p">()</span>
 </pre></div>
 </div>
-<img src="../../_images/sphx_glr_04-derivatives_001.png" srcset="../../_images/sphx_glr_04-derivatives_001.png" alt="04 derivatives" class = "sphx-glr-single-img"/><p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 15.625 seconds)</p>
+<img src="../../_images/sphx_glr_04-derivatives_001.png" srcset="../../_images/sphx_glr_04-derivatives_001.png" alt="04 derivatives" class = "sphx-glr-single-img"/><p class="sphx-glr-timing"><strong>Total running time of the script:</strong> (0 minutes 15.703 seconds)</p>
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