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42 changes: 22 additions & 20 deletions _modules/mrinufft/operators/base.html

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7 changes: 4 additions & 3 deletions _modules/mrinufft/operators/interfaces/cufinufft.html
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Expand Up @@ -694,7 +694,6 @@ <h1>Source code for mrinufft.operators.interfaces.cufinufft</h1><div class="high
<span class="k">except</span> <span class="ne">ImportError</span><span class="p">:</span>
<span class="n">CUFINUFFT_AVAILABLE</span> <span class="o">=</span> <span class="kc">False</span>


<span class="n">OPTS_FIELD_DECODE</span> <span class="o">=</span> <span class="p">{</span>
<span class="s2">&quot;gpu_method&quot;</span><span class="p">:</span> <span class="p">{</span><span class="mi">1</span><span class="p">:</span> <span class="s2">&quot;nonuniform pts driven&quot;</span><span class="p">,</span> <span class="mi">2</span><span class="p">:</span> <span class="s2">&quot;shared memory&quot;</span><span class="p">},</span>
<span class="s2">&quot;gpu_sort&quot;</span><span class="p">:</span> <span class="p">{</span><span class="mi">0</span><span class="p">:</span> <span class="s2">&quot;no sort (GM)&quot;</span><span class="p">,</span> <span class="mi">1</span><span class="p">:</span> <span class="s2">&quot;sort (GM-sort)&quot;</span><span class="p">},</span>
Expand Down Expand Up @@ -951,10 +950,12 @@ <h1>Source code for mrinufft.operators.interfaces.cufinufft</h1><div class="high
<span class="bp">self</span><span class="o">.</span><span class="n">_smaps</span> <span class="o">=</span> <span class="n">new_smaps</span>

<span class="nd">@FourierOperatorBase</span><span class="o">.</span><span class="n">samples</span><span class="o">.</span><span class="n">setter</span>
<span class="k">def</span><span class="w"> </span><span class="nf">samples</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
<span class="k">def</span><span class="w"> </span><span class="nf">samples</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">new_samples</span><span class="p">):</span>
<span class="w"> </span><span class="sd">&quot;&quot;&quot;Update the plans when changing the samples.&quot;&quot;&quot;</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asfortranarray</span><span class="p">(</span>
<span class="n">proper_trajectory</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="s2">&quot;pi&quot;</span><span class="p">)</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float32</span><span class="p">,</span> <span class="n">copy</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
<span class="n">proper_trajectory</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="s2">&quot;pi&quot;</span><span class="p">)</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span>
<span class="n">np</span><span class="o">.</span><span class="n">float32</span><span class="p">,</span> <span class="n">copy</span><span class="o">=</span><span class="kc">False</span>
<span class="p">)</span>
<span class="p">)</span>
<span class="k">for</span> <span class="n">typ</span> <span class="ow">in</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="s2">&quot;grad&quot;</span><span class="p">]:</span>
<span class="k">if</span> <span class="n">typ</span> <span class="o">==</span> <span class="s2">&quot;grad&quot;</span> <span class="ow">and</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad_wrt_traj</span><span class="p">:</span>
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10 changes: 5 additions & 5 deletions _modules/mrinufft/operators/interfaces/gpunufft.html
Original file line number Diff line number Diff line change
Expand Up @@ -1238,7 +1238,7 @@ <h1>Source code for mrinufft.operators.interfaces.gpunufft</h1><div class="highl
<span class="bp">self</span><span class="o">.</span><span class="n">raw_op</span><span class="o">.</span><span class="n">set_smaps</span><span class="p">(</span><span class="n">smaps</span><span class="o">=</span><span class="n">new_smaps</span><span class="p">)</span>

<span class="nd">@FourierOperatorBase</span><span class="o">.</span><span class="n">samples</span><span class="o">.</span><span class="n">setter</span>
<span class="k">def</span><span class="w"> </span><span class="nf">samples</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
<span class="k">def</span><span class="w"> </span><span class="nf">samples</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">new_samples</span><span class="p">):</span>
<span class="w"> </span><span class="sd">&quot;&quot;&quot;Set the samples for the Fourier Operator.</span>

<span class="sd"> Parameters</span>
Expand All @@ -1247,7 +1247,7 @@ <h1>Source code for mrinufft.operators.interfaces.gpunufft</h1><div class="highl
<span class="sd"> The samples for the Fourier Operator.</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_samples</span> <span class="o">=</span> <span class="n">proper_trajectory</span><span class="p">(</span>
<span class="n">samples</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float32</span><span class="p">,</span> <span class="n">copy</span><span class="o">=</span><span class="kc">False</span><span class="p">),</span> <span class="n">normalize</span><span class="o">=</span><span class="s2">&quot;unit&quot;</span>
<span class="n">new_samples</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float32</span><span class="p">,</span> <span class="n">copy</span><span class="o">=</span><span class="kc">False</span><span class="p">),</span> <span class="n">normalize</span><span class="o">=</span><span class="s2">&quot;unit&quot;</span>
<span class="p">)</span>
<span class="c1"># TODO: gpuNUFFT needs to sort the points twice in this case.</span>
<span class="c1"># It could help to have access to directly dorted arrays from gpuNUFFT.</span>
Expand All @@ -1258,19 +1258,19 @@ <h1>Source code for mrinufft.operators.interfaces.gpunufft</h1><div class="highl
<span class="p">)</span>

<span class="nd">@FourierOperatorBase</span><span class="o">.</span><span class="n">density</span><span class="o">.</span><span class="n">setter</span>
<span class="k">def</span><span class="w"> </span><span class="nf">density</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">density</span><span class="p">):</span>
<span class="k">def</span><span class="w"> </span><span class="nf">density</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">new_density</span><span class="p">):</span>
<span class="w"> </span><span class="sd">&quot;&quot;&quot;Set the density for the Fourier Operator.</span>

<span class="sd"> Parameters</span>
<span class="sd"> ----------</span>
<span class="sd"> density: np.ndarray</span>
<span class="sd"> The density for the Fourier Operator.</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_density</span> <span class="o">=</span> <span class="n">density</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_density</span> <span class="o">=</span> <span class="n">new_density</span>
<span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s2">&quot;raw_op&quot;</span><span class="p">):</span> <span class="c1"># edge case for init</span>
<span class="bp">self</span><span class="o">.</span><span class="n">raw_op</span><span class="o">.</span><span class="n">set_pts</span><span class="p">(</span>
<span class="bp">self</span><span class="o">.</span><span class="n">_samples</span><span class="p">,</span>
<span class="n">density</span><span class="o">=</span><span class="n">density</span><span class="p">,</span>
<span class="n">density</span><span class="o">=</span><span class="n">new_density</span><span class="p">,</span>
<span class="p">)</span>

<div class="viewcode-block" id="MRIGpuNUFFT.pipe">
Expand Down
4 changes: 2 additions & 2 deletions _modules/mrinufft/operators/interfaces/tfnufft.html
Original file line number Diff line number Diff line change
Expand Up @@ -812,7 +812,7 @@ <h1>Source code for mrinufft.operators.interfaces.tfnufft</h1><div class="highli
<div class="viewcode-block" id="MRITensorflowNUFFT.data_consistency">
<a class="viewcode-back" href="../../../../generated/_autosummary/mrinufft.operators.interfaces.tfnufft.MRITensorflowNUFFT.html#mrinufft.operators.interfaces.tfnufft.MRITensorflowNUFFT.data_consistency">[docs]</a>
<span class="nd">@with_tensorflow</span>
<span class="k">def</span><span class="w"> </span><span class="nf">data_consistency</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">obs_data</span><span class="p">):</span>
<span class="k">def</span><span class="w"> </span><span class="nf">data_consistency</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">image_data</span><span class="p">,</span> <span class="n">obs_data</span><span class="p">):</span>
<span class="w"> </span><span class="sd">&quot;&quot;&quot;Compute the data consistency.</span>

<span class="sd"> Parameters</span>
Expand All @@ -827,7 +827,7 @@ <h1>Source code for mrinufft.operators.interfaces.tfnufft</h1><div class="highli
<span class="sd"> Tensor</span>
<span class="sd"> The data consistency error in image space.</span>
<span class="sd"> &quot;&quot;&quot;</span>
<span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">adj_op</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">op</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">-</span> <span class="n">obs_data</span><span class="p">)</span></div>
<span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">adj_op</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">op</span><span class="p">(</span><span class="n">image_data</span><span class="p">)</span> <span class="o">-</span> <span class="n">obs_data</span><span class="p">)</span></div>


<div class="viewcode-block" id="MRITensorflowNUFFT.pipe">
Expand Down
Original file line number Diff line number Diff line change
Expand Up @@ -50,5 +50,7 @@ FourierOperatorBase
~FourierOperatorBase.smaps
~FourierOperatorBase.uses_density
~FourierOperatorBase.uses_sense
~FourierOperatorBase.backend
~FourierOperatorBase.available


Original file line number Diff line number Diff line change
Expand Up @@ -50,5 +50,7 @@ FourierOperatorCPU
~FourierOperatorCPU.smaps
~FourierOperatorCPU.uses_density
~FourierOperatorCPU.uses_sense
~FourierOperatorCPU.backend
~FourierOperatorCPU.available


Original file line number Diff line number Diff line change
Expand Up @@ -52,5 +52,6 @@ MRITorchKbNufft
~MRITorchKbNufft.smaps
~MRITorchKbNufft.uses_density
~MRITorchKbNufft.uses_sense
~MRITorchKbNufft.backend


Original file line number Diff line number Diff line change
Expand Up @@ -51,5 +51,7 @@ MRIFourierCorrected
~MRIFourierCorrected.smaps
~MRIFourierCorrected.uses_density
~MRIFourierCorrected.uses_sense
~MRIFourierCorrected.backend
~MRIFourierCorrected.available


Original file line number Diff line number Diff line change
Expand Up @@ -50,5 +50,7 @@ MRISubspace
~MRISubspace.smaps
~MRISubspace.uses_density
~MRISubspace.uses_sense
~MRISubspace.backend
~MRISubspace.available


2 changes: 1 addition & 1 deletion _sources/generated/autoexamples/GPU/example_cg.rst
Original file line number Diff line number Diff line change
Expand Up @@ -170,7 +170,7 @@ Display the results

.. rst-class:: sphx-glr-timing

**Total running time of the script:** (0 minutes 1.149 seconds)
**Total running time of the script:** (0 minutes 1.494 seconds)


.. _sphx_glr_download_generated_autoexamples_GPU_example_cg.py:
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6 changes: 3 additions & 3 deletions _sources/generated/autoexamples/GPU/example_density.rst
Original file line number Diff line number Diff line change
Expand Up @@ -103,7 +103,7 @@ Create sample data
/volatile/github-ci-mind-inria/gpu_runner2/_work/_tool/Python/3.10.16/x64/lib/python3.10/site-packages/finufft/_interfaces.py:329: UserWarning: Argument `data` does not satisfy the following requirement: C. Copying array (this may reduce performance)
warnings.warn(f"Argument `{name}` does not satisfy the following requirement: {prop}. Copying array (this may reduce performance)")
<matplotlib.image.AxesImage object at 0x7362679d3fd0>
<matplotlib.image.AxesImage object at 0x71d1423e7af0>
Expand Down Expand Up @@ -331,15 +331,15 @@ Pipe's method is an iterative scheme, that use the interpolation and spreading k

.. code-block:: none
[0.00881 0.04010868 0.08096503 ... 3.2314696 2.6597955 3.4447331 ]
[0.00884288 0.04072602 0.08075811 ... 3.229551 2.6582165 3.442688 ]
.. rst-class:: sphx-glr-timing

**Total running time of the script:** (0 minutes 4.500 seconds)
**Total running time of the script:** (0 minutes 5.638 seconds)


.. _sphx_glr_download_generated_autoexamples_GPU_example_density.py:
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6 changes: 3 additions & 3 deletions _sources/generated/autoexamples/GPU/example_fastMRI_UNet.rst

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4 changes: 2 additions & 2 deletions _sources/generated/autoexamples/GPU/example_learn_samples.rst

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14 changes: 7 additions & 7 deletions _sources/generated/autoexamples/GPU/sg_execution_times.rst
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Expand Up @@ -6,7 +6,7 @@

Computation times
=================
**09:16.403** total execution time for 6 files **from generated/autoexamples/GPU**:
**13:04.346** total execution time for 6 files **from generated/autoexamples/GPU**:

.. container::

Expand All @@ -33,20 +33,20 @@ Computation times
- Time
- Mem (MB)
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_learn_straight_line_readouts.py` (``example_learn_straight_line_readouts.py``)
- 04:59.897
- 06:18.661
- 0.0
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_fastMRI_UNet.py` (``example_fastMRI_UNet.py``)
- 01:35.580
- 02:46.440
- 0.0
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_learn_samples_multicoil.py` (``example_learn_samples_multicoil.py``)
- 01:25.665
- 02:09.696
- 0.0
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_learn_samples.py` (``example_learn_samples.py``)
- 01:09.613
- 01:42.418
- 0.0
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_density.py` (``example_density.py``)
- 00:04.500
- 00:05.638
- 0.0
* - :ref:`sphx_glr_generated_autoexamples_GPU_example_cg.py` (``example_cg.py``)
- 00:01.149
- 00:01.494
- 0.0
Original file line number Diff line number Diff line change
Expand Up @@ -1338,7 +1338,7 @@ References
.. rst-class:: sphx-glr-timing

**Total running time of the script:** (0 minutes 22.263 seconds)
**Total running time of the script:** (0 minutes 23.951 seconds)


.. _sphx_glr_download_generated_autoexamples_example_2D_trajectories.py:
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Expand Up @@ -2030,7 +2030,7 @@ References
.. rst-class:: sphx-glr-timing

**Total running time of the script:** (1 minutes 4.605 seconds)
**Total running time of the script:** (1 minutes 9.161 seconds)


.. _sphx_glr_download_generated_autoexamples_example_3D_trajectories.py:
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2 changes: 1 addition & 1 deletion _sources/generated/autoexamples/example_display_config.rst
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Expand Up @@ -313,7 +313,7 @@ are observed.

.. rst-class:: sphx-glr-timing

**Total running time of the script:** (0 minutes 6.315 seconds)
**Total running time of the script:** (0 minutes 5.910 seconds)


.. _sphx_glr_download_generated_autoexamples_example_display_config.py:
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2 changes: 1 addition & 1 deletion _sources/generated/autoexamples/example_gif_2D.rst
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Expand Up @@ -274,7 +274,7 @@ Animation rendering

.. rst-class:: sphx-glr-timing

**Total running time of the script:** (1 minutes 18.086 seconds)
**Total running time of the script:** (1 minutes 23.869 seconds)


.. _sphx_glr_download_generated_autoexamples_example_gif_2D.py:
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2 changes: 1 addition & 1 deletion _sources/generated/autoexamples/example_gif_3D.rst
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Expand Up @@ -278,7 +278,7 @@ Animation rendering

.. rst-class:: sphx-glr-timing

**Total running time of the script:** (2 minutes 7.151 seconds)
**Total running time of the script:** (2 minutes 7.027 seconds)


.. _sphx_glr_download_generated_autoexamples_example_gif_3D.py:
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