Merge pull request #15 from m3-learning/qiao-m3

Qiao m3

.gitignore

@@ -161,7 +161,9 @@ output.png
 
 # BF BTO rough draft and some figures
 m3_learning/papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/brightfield-image-segmentation-main
-m3_learning/papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/embeding_affine_maps
+m3_learning/papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/embedding_affine_maps
+m3_learning/papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/embedding_affine_maps_1
+m3_learning/papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/embedding_movies
 
 C:\Users\Joshua Agar\Documents\codes\m3_learning-1\m3_learning\Tutorials\Cycle_Consistent_Spatial_Transformer_Autoencoder\11.12_unsupervised_learn_label_epoch_17957_coef_0_trainloss_0.0008.pkl
 *.xz
@@ -170,4 +172,5 @@ m3_learning\Tutorials\Cycle_Consistent_Spatial_Transformer_Autoencoder\cards
 # STEM_VAE
 m3_learning/papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/*
 !m3_learning/papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/*.ipynb
-Data/
+*Data/
+*Figures/

README.md

@@ -1,4 +1,4 @@
 # m3_learning
 Home of Tutorials and Data Sets for M3-Learning Research Group
 
-Make sure you install the m3_learning package `pip install m3_learning`
+Make sure you install the m3_learning package `pip install m3-learning`

m3_learning/_build/html/.buildinfo

@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 27903a989539f6cf4097be0658ed8335
+config: b512a4a0402970149468ba8dd2b471ed
 tags: 645f666f9bcd5a90fca523b33c5a78b7

m3_learning/_build/html/Datasets/Mixed_phase_pzt_BEPFM/1_SHO_Fitting.html

@@ -19,12 +19,12 @@
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@@ -71,7 +71,7 @@
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-    <link rel="next" title="Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/toc.html" />
+    <link rel="next" title="Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/stem_toc.html" />
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@@ -84,6 +84,15 @@
 
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 </a></div>
@@ -170,9 +180,9 @@
 </ul>
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Papers</span></p>
 <ul class="nav bd-sidenav">
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/toc.html">Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/stem_toc.html">Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
 <li class="toctree-l2"><a class="reference internal" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/STEM_Domains.html">Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/STEM_vortex_VAE.html">Imaging and structure analysis of ferroelectric domains, domain walls, and vortices by scanning electron diffraction</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/STEM_vortex_VAE.html">VAE demonstration on vortex</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="../../papers/2023_RHEED_PLD_SrTiO3/RHEED_toc.html">Predicting Pulsed-Laser Deposition $SrTiO_3$ Homoepitaxy Growth Dynamics using High-Speed Reflection High-Energy Electron Diffraction</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -185,6 +195,11 @@
 <li class="toctree-l2"><a class="reference internal" href="../../papers/2023_RHEED_PLD_SrTiO3/7_Growth_mechanism-details.html">Growth Mechanism with Details</a></li>
 <li class="toctree-l2"><a class="reference internal" href="../../papers/2023_RHEED_PLD_SrTiO3/8_Characteristic_time.html">Characteristic Time</a></li>
 <li class="toctree-l2"><a class="reference internal" href="../../papers/2023_RHEED_PLD_SrTiO3/9_Characteristic_time-details.html">Characteristic Time with Details</a></li>
+</ul>
+</li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/BF_BTO_toc.html">The effect of chemical environment and temperature on the domain structure of free-standing $BaTiO_3$ via in-situ STEM</a><input class="toctree-checkbox" id="toctree-checkbox-3" name="toctree-checkbox-3" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-3"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../papers/2023_the_effect_of_chemical_environment_and_temperature_on_the_domain_structure_of_freestanding_BaTiO3_via_in_situ_STEM/BTO_environmental_demo.html">The effect of chemical environment and temperature on the domain structure of free-standing <span class="math notranslate nohighlight">\(BaTiO_3\)</span> via in-situ STEM</a></li>
+
 </ul>
 </li>
 </ul>
@@ -403,18 +418,18 @@
 
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@@ -1182,11 +1197,10 @@ <h1>Piezoelectric Hysteresis Loops<a class="headerlink" href="#piezoelectric-hys
 
 
 
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-       href="../../papers/2023_Imaging_ferroelectric_domains_by_scanning_electron_diffraction/toc.html"
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