deploy: c27e49c

Author: daurer

_images/soleil_swing_ml_wavefield_comparison.png

@@ -26,6 +26,7 @@ The table below gives an overview of all examples with associated data and a lin
 |  [](notebooks/experimental_xray_data/06_testing_different_algorithms) |  [dls_i13_butterfly.zip](https://zenodo.org/records/11501765/files/dls_i13_butterfly.zip?download=1)             |  286 MB  |  [DOI](https://doi.org/10.5281/zenodo.11501765) |
 |  [](notebooks/experimental_xray_data/07_multi_gpu)                    |  [dls_i08_nanogold_spiral.zip](https://zenodo.org/records/11501765/files/dls_i08_nanogold_spiral.zip?download=1) |  1.11 GB |  [DOI](https://doi.org/10.5281/zenodo.11501765) |
 |  [](notebooks/experimental_xray_data/08_data_from_soleil_swing)       |  TBA                                                                                                             | 4.8 GB   | TBA  |
+|  [](notebooks/experimental_xray_data/09_wavefield_preconditioner)     |  TBA                                                                                                             | 4.8 GB   | TBA  |
 | **Electron Ptychography Data** |
 |  [](notebooks/ptychography_with_electrons/00_electron_data)                       | [dls_epsic_80kV_graphene.zip](https://zenodo.org/records/11501765/files/dls_epsic_80kV_graphene.zip?download=1)  |  270 MB  |  [DOI](https://doi.org/10.5281/zenodo.11501765) |
 |  [](notebooks/ptychography_with_electrons/01_chaining_multiple_engines)           | [dls_epsic_80kV_graphene.zip](https://zenodo.org/records/11501765/files/dls_epsic_80kV_graphene.zip?download=1)  |  270 MB  |  [DOI](https://doi.org/10.5281/zenodo.11501765) |

_sources/intro.md

@@ -203,6 +203,7 @@
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">

_sources/notebooks/experimental_xray_data/09_wavefield_preconditioner.ipynb

@@ -202,6 +202,7 @@
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">

contribute.html

@@ -206,6 +206,7 @@
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="notebooks/experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">
@@ -544,67 +545,72 @@ <h2>Overview<a class="headerlink" href="#overview" title="Link to this heading">
 <td class="text-center"><p>4.8 GB</p></td>
 <td class="text-center"><p>TBA</p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><strong>Electron Ptychography Data</strong></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/experimental_xray_data/09_wavefield_preconditioner.html"><span class="doc std std-doc">Maximum Likelihood with the wavefield pre-conditioner</span></a></p></td>
+<td class="text-left"><p>TBA</p></td>
+<td class="text-center"><p>4.8 GB</p></td>
+<td class="text-center"><p>TBA</p></td>
+</tr>
+<tr class="row-even"><td class="text-left"><p><strong>Electron Ptychography Data</strong></p></td>
 <td class="text-left"><p></p></td>
 <td class="text-center"><p></p></td>
 <td class="text-center"><p></p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/00_electron_data.html"><span class="doc std std-doc">Working With Electron Data</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/00_electron_data.html"><span class="doc std std-doc">Working With Electron Data</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/11501765/files/dls_epsic_80kV_graphene.zip?download=1">dls_epsic_80kV_graphene.zip</a></p></td>
 <td class="text-center"><p>270 MB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.11501765">DOI</a></p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/01_chaining_multiple_engines.html"><span class="doc std std-doc">Chaining Multiple Engines</span></a></p></td>
+<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/01_chaining_multiple_engines.html"><span class="doc std std-doc">Chaining Multiple Engines</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/11501765/files/dls_epsic_80kV_graphene.zip?download=1">dls_epsic_80kV_graphene.zip</a></p></td>
 <td class="text-center"><p>270 MB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.11501765">DOI</a></p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/02_start_from_previous_reconstruction.html"><span class="doc std std-doc">Starting From a Previous Reconstruction</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/ptychography_with_electrons/02_start_from_previous_reconstruction.html"><span class="doc std std-doc">Starting From a Previous Reconstruction</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/11501765/files/dls_epsic_80kV_graphene.zip?download=1">dls_epsic_80kV_graphene.zip</a></p></td>
 <td class="text-center"><p>270 MB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.11501765">DOI</a></p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><strong>Advanced Examples</strong></p></td>
+<tr class="row-even"><td class="text-left"><p><strong>Advanced Examples</strong></p></td>
 <td class="text-left"><p></p></td>
 <td class="text-center"><p></p></td>
 <td class="text-center"><p></p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/00_nearfield_ptychography.html"><span class="doc std std-doc">Nearfield Ptychography</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/00_nearfield_ptychography.html"><span class="doc std std-doc">Nearfield Ptychography</span></a></p></td>
 <td class="text-left"><p>esrf_id16_AlNi_nearfield.zip</p></td>
 <td class="text-center"><p>532 MB</p></td>
 <td class="text-center"><p>TBA</p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/01_object_regularisation.html"><span class="doc std std-doc">Modifying an Engine</span></a></p></td>
+<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/01_object_regularisation.html"><span class="doc std std-doc">Modifying an Engine</span></a></p></td>
 <td class="text-left"><p>esrf_id16_AlNi_nearfield.zip</p></td>
 <td class="text-center"><p>532 MB</p></td>
 <td class="text-center"><p>TBA</p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/02_live_visualisation.html"><span class="doc std std-doc">Live visualisation</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/02_live_visualisation.html"><span class="doc std std-doc">Live visualisation</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/11501765/files/dls_i08_nanogold_spiral.zip?download=1">dls_i08_nanogold_spiral.zip</a></p></td>
 <td class="text-center"><p>1.11 GB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.11501765">DOI</a></p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/03_simulating_data.html"><span class="doc std std-doc">Simulating Data</span></a></p></td>
+<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/03_simulating_data.html"><span class="doc std std-doc">Simulating Data</span></a></p></td>
 <td class="text-left"><p>No Data Required</p></td>
 <td class="text-center"><p>-</p></td>
 <td class="text-center"><p>-</p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/04_modified_initial_probe.html"><span class="doc std std-doc">Modified Initial Probe</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/supplementary_examples/04_modified_initial_probe.html"><span class="doc std std-doc">Modified Initial Probe</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/11501765/files/small_data.zip?download=1">small_data.zip</a></p></td>
 <td class="text-center"><p>126 MB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.11501765">DOI</a></p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><strong>User Examples</strong></p></td>
+<tr class="row-even"><td class="text-left"><p><strong>User Examples</strong></p></td>
 <td class="text-left"><p></p></td>
 <td class="text-center"><p></p></td>
 <td class="text-center"><p></p></td>
 </tr>
-<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/user_examples/00_template.html"><span class="doc std std-doc">Template</span></a></p></td>
+<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/user_examples/00_template.html"><span class="doc std std-doc">Template</span></a></p></td>
 <td class="text-left"><p>-</p></td>
 <td class="text-center"><p>-</p></td>
 <td class="text-center"><p>-</p></td>
 </tr>
-<tr class="row-odd"><td class="text-left"><p><a class="reference internal" href="notebooks/user_examples/01_super_resolution.html"><span class="doc std std-doc">Super resolution</span></a></p></td>
+<tr class="row-even"><td class="text-left"><p><a class="reference internal" href="notebooks/user_examples/01_super_resolution.html"><span class="doc std std-doc">Super resolution</span></a></p></td>
 <td class="text-left"><p><a class="reference external" href="https://zenodo.org/records/13694455">SiemensStar_ID16A_ESRF_farfieldptycho.zip</a></p></td>
 <td class="text-center"><p>67 MB</p></td>
 <td class="text-center"><p><a class="reference external" href="https://doi.org/10.5281/zenodo.13694456">DOI</a></p></td>

genindex.html

@@ -203,6 +203,7 @@
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">

intro.html

@@ -203,6 +203,7 @@
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">

notebooks/basic_examples/00_the_parameter_tree.html

@@ -203,6 +203,7 @@
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">

notebooks/basic_examples/01_using_yaml_or_json_config.html

@@ -203,6 +203,7 @@
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/06_testing_different_algorithms.html">Testing different algorithms</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/07_multi_gpu.html">Using multiple GPUs</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/08_data_from_soleil_swing.html">Working with Data from SOLEIL - the SWING beamline</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../experimental_xray_data/09_wavefield_preconditioner.html">Maximum Likelihood with the wavefield pre-conditioner</a></li>
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Electron Ptychography Data</span></p>
 <ul class="nav bd-sidenav">