pyphyschemtools 0.3.8__tar.gz → 0.3.12__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/PKG-INFO +1 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/doctrees/environment.pickle +0 -0
- pyphyschemtools-0.3.12/docs/build/doctrees/theory/Kinetics_KORD.doctree +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/.buildinfo +1 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_sources/theory/Kinetics_KORD.md.txt +18 -9
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/documentation_options.js +1 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/genindex.html +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/index.html +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/modules.html +2 -2
- pyphyschemtools-0.3.12/docs/build/html/objects.inv +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/py-modindex.html +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/pyphyschemtools.html +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/pyphyschemtools.icons_logos_banner.html +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/search.html +2 -2
- pyphyschemtools-0.3.12/docs/build/html/searchindex.js +1 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/theory/Kinetics_KORD.html +19 -12
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/conf.py +1 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/theory/Kinetics_KORD.md +18 -9
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/__init__.py +2 -2
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools.egg-info/PKG-INFO +1 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyproject.toml +1 -1
- pyphyschemtools-0.3.8/docs/build/doctrees/theory/Kinetics_KORD.doctree +0 -0
- pyphyschemtools-0.3.8/docs/build/html/objects.inv +0 -0
- pyphyschemtools-0.3.8/docs/build/html/searchindex.js +0 -1
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/CHANGELOG.md +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/Examples.ipynb +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/LICENSE +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/MANIFEST.in +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/README.md +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/Makefile +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/doctrees/index.doctree +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/doctrees/modules.doctree +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/doctrees/pyphyschemtools.doctree +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/doctrees/pyphyschemtools.icons_logos_banner.doctree +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/.nojekyll +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/CNAME +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_images/tools4pyPC_banner.svg +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_sources/index.rst.txt +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_sources/modules.rst.txt +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_sources/pyphyschemtools.icons_logos_banner.rst.txt +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_sources/pyphyschemtools.rst.txt +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/_sphinx_javascript_frameworks_compat.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/base-stemmer.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/basic.css +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/badge_only.css +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/Roboto-Slab-Bold.woff +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/Roboto-Slab-Bold.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/Roboto-Slab-Regular.woff +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/Roboto-Slab-Regular.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/fontawesome-webfont.eot +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/lato-normal-italic.woff +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/lato-normal-italic.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/lato-normal.woff +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/fonts/lato-normal.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/css/theme.css +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/doctools.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/english-stemmer.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/file.png +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/Lato/lato-bold.eot +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/Lato/lato-regular.eot +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/Lato/lato-regular.woff +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/Lato/lato-regular.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-bold.eot +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff2 +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/jquery.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/js/badge_only.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/js/theme.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/js/versions.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/language_data.js +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/searchtools.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/sphinx_highlight.js +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/tools4pyPC_banner.svg +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/build/html/_static/visualID.css +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/make.bat +0 -0
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- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/index.rst +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/modules.rst +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/pyphyschemtools.icons_logos_banner.rst +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/pyphyschemtools.rst +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/theory/.ipynb_checkpoints/Kinetics_KORD-checkpoint.md +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/docs/source/theory/.ipynb_checkpoints/kinetics_KORD-checkpoint.md +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/push_pyPi_doc.md +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/Chem3D-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/ML-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/PeriodicTable-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/aithermo-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/cheminformatics-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/core-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/kinetics-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/spectra-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/survey-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/sympyUtilities-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.ipynb_checkpoints/tools4AS-checkpoint.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/.readthedocs.yaml +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/Chem3D.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/ML.py +0 -0
- {pyphyschemtools-0.3.8 → pyphyschemtools-0.3.12}/pyphyschemtools/PeriodicTable.py +0 -0
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<li class="toctree-l4"><a class="reference internal" href="#experimental-measurements-g-mathrm-exp">1.1 Experimental Measurements (<span class="math notranslate nohighlight">\(G_\mathrm{EXP}\)</span>)</a></li>
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<li class="toctree-l4"><a class="reference internal" href="#theoretical-model-g-mathrm-theo">1.2 Theoretical Model (<span class="math notranslate nohighlight">\(G_\mathrm{THEO}\)</span>)</a></li>
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<li><p><strong>Stoichiometry</strong>: <span class="math notranslate nohighlight">\(\alpha\)</span> and <span class="math notranslate nohighlight">\(\beta\)</span> are known constants.</p>
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<li><p><strong>Stoichiometry</strong>: <span class="math notranslate nohighlight">\(\alpha\)</span> and <span class="math notranslate nohighlight">\(\beta\)</span> are known constants, provided by the user.</p>
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The model fits the experimental data by adjusting the following:</p>
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<ul>
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<li><p><strong>Rate Constant</strong>: <span class="math notranslate nohighlight">\(k\)</span></p></li>
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<li><p><strong>Final Value</strong>: <span class="math notranslate nohighlight">\(G_{\infty}\)</span></p></li>
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<li><p><strong>Initial Value</strong>: <span class="math notranslate nohighlight">\(G_{0}\)</span> (While <span class="math notranslate nohighlight">\(G_{0}\)</span> is measured, the algorithm also adjusts it to ensure the best fit starting point).</p></li>
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<li><p><strong>Initial Concentration</strong>: <span class="math notranslate nohighlight">\(A_{0}\)</span> (Note: For Order 1, <span class="math notranslate nohighlight">\(G_{THEO}\)</span> is independent of <span class="math notranslate nohighlight">\(A_{0}\)</span>).</p>
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<li><p><strong>Initial Concentration</strong>: <span class="math notranslate nohighlight">\(A_{0}\)</span> (Note: For Order 1, <span class="math notranslate nohighlight">\(G_{THEO}\)</span> is independent of <span class="math notranslate nohighlight">\(A_{0}\)</span>). The concentration must also be provided by the user</p>
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<p>The final concentration of B, <span class="math notranslate nohighlight">\(B_{\infty}\)</span> is related to <span class="math notranslate nohighlight">\(A_0\)</span> by the relation:</p>
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The model fits the experimental data by adjusting the following:</p>
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<ul class="simple">
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<li><p><strong>Rate Constant</strong>: <span class="math notranslate nohighlight">\(k\)</span></p></li>
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<li><p><strong>Final Value</strong>: <span class="math notranslate nohighlight">\(G_{\infty}\)</span></p></li>
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<li><p><strong>Initial Value</strong>: <span class="math notranslate nohighlight">\(G_{0}\)</span> (While <span class="math notranslate nohighlight">\(G_{0}\)</span> is measured, the algorithm also adjusts it to ensure the best fit starting point).</p></li>
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<p>The optimization is performed for a specific reaction order at a time to determine which model best describes the experimental data.</p>
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<p>By default, KORD chooses the first and last G_\mathrm{EXP} values as <span class="math notranslate nohighlight">\(G_{0}\)</span> and <span class="math notranslate nohighlight">\(G_{\infty}\)</span>. And a default value is also setup by KORD. If you need to change that because of a convergence issue, ensure your starting values for <span class="math notranslate nohighlight">\(k\)</span>, <span class="math notranslate nohighlight">\(G_{0}\)</span> and <span class="math notranslate nohighlight">\(G_{\infty}\)</span> are realistic to help the algorithm converge.</p>
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\[RMSD = \sqrt{\frac{1}{n} \sum_{k=1}^{n} \{G_\mathrm{EXP}(t_{k}) - G_\mathrm{THEO}(t_{k})\}^{2}}\]</div>
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<h4>1.4 Input<a class="headerlink" href="#input" title="Link to this heading"></a></h4>
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<p>Data input is performed through a structured Excel file. Users simply provide the kinetic parameters (<span class="math notranslate nohighlight">\(\alpha\)</span>, <span class="math notranslate nohighlight">\(\beta\)</span>), the initial concentration <span class="math notranslate nohighlight">\([A]_0\)</span>, and the experimental data series (time <span class="math notranslate nohighlight">\(t\)</span> and property <span class="math notranslate nohighlight">\(G_{\mathrm{exp}}\)</span>).</p>
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<p><a id="theoretical-model"></a></p>
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version = '0.3'
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copyright = '2026, Romuald Poteau'
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author = 'Romuald Poteau'
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# -- General configuration ---------------------------------------------------
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# https://www.sphinx-doc.org/en/master/usage/configuration.html#general-configuration
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**<u>Fixed Parameters</u>:**
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* **Stoichiometry**: $\alpha$ and $\beta$ are known constants, provided by the user.
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$\alpha$ and $\beta$ must be the smallest possible positive integers
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**<u>Adjustable Variables</u>:**
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The model fits the experimental data by adjusting the following:
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* **Initial Concentration**: $A_{0}$ (Note: For Order 1, $G_{THEO}$ is independent of $A_{0}$).
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* **Initial Concentration**: $A_{0}$ (Note: For Order 1, $G_{THEO}$ is independent of $A_{0}$). The concentration must also be provided by the user
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$$\frac{A_0}{\alpha} = \frac{B_{\infty}}{\beta}$$
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**<u>Adjustable Variables</u>:**
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The model fits the experimental data by adjusting the following:
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* **Rate Constant**: $k$
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* **Final Value**: $G_{\infty}$
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The optimization is performed for a specific reaction order at a time to determine which model best describes the experimental data.
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By default, KORD chooses the first and last G_\mathrm{EXP} values as $G_{0}$ and $G_{\infty}$. And a default value is also setup by KORD. If you need to change that because of a convergence issue, ensure your starting values for $k$, $G_{0}$ and $G_{\infty}$ are realistic to help the algorithm converge.
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#### 1.4 Input
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Data input is performed through a structured Excel file. Users simply provide the kinetic parameters ($\alpha$, $\beta$), the initial concentration $[A]_0$, and the experimental data series (time $t$ and property $G_{\mathrm{exp}}$).
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---
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Metadata-Version: 2.4
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Name: pyphyschemtools
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Version: 0.3.12
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Summary: A comprehensive Python toolbox for physical chemistry and cheminformatics
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Author-email: "Romuald POTEAU, LPCNO" <romuald.poteau@utoulouse.fr>
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