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Merge pull request usnistgov#1525 from usnistgov/security
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‎ABOUT.md

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<h4> Details and Mentions </h4>
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- Olle Heinonen wrote a philosophical introduction to the {{ site.title }}
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benchmarking effort, available as an [extended essay]({{ site.baseurl }}/benchmarks){:target="_blank"}.
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benchmarking effort, available as an [extended essay]({{ site.baseurl }}/benchmarks){:}.
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- [Andrea Jokisaari][aj], [Peter Voorhees][pv], [Jon Guyer][jg], [Jim Warren][jw] and [Olle Heinonen][oh]
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published a peer-reviewed journal article in
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*Computational Materials Science* entitled ["Benchmark problems for numerical
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implementations of phase field models"](http://dx.doi.org/10.1016/j.commatsci.2016.09.022){:target="_blank"}.
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implementations of phase field models"](http://dx.doi.org/10.1016/j.commatsci.2016.09.022){:}.
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- CHiMaD News posted an overview of the article entitled
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["Benchmark Problems for Phase Field Methods"](
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http://chimad.northwestern.edu/news-events/articles/2016/PhaseField_BenchMark.html).

‎DEVELOPMENT.md

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---
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<p align="center">
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<a href="https://travis-ci.org/{{ site.links.repo }}" target="_blank">
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<a href="https://travis-ci.org/{{ site.links.repo }}" >
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<img src="https://api.travis-ci.org/{{ site.links.repo }}.svg"
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alt="Travis CI badge">
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</a>

‎README.md

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</strong></sup></p>
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<p align="center">
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<a href="https://travis-ci.org/usnistgov/pfhub" target="_blank">
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<a href="https://travis-ci.org/usnistgov/pfhub" >
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<img src="https://api.travis-ci.org/usnistgov/pfhub.svg"
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alt="Travis CI badge">
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</a>
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alt="Zenodo DOI badge">
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</a>
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<a href="https://www.openhub.net/p/pfhub"
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target="_blank">
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>
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<img src="https://www.openhub.net/p/pfhub/widgets/project_thin_badge.gif"
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class="badge"
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alt="OpenHub badge">

‎_includes/coffee/test.coffee

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}
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assert.deepEqual(
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benchmark_id({}, {}, data())
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'<a href="http://wow.com" target="_blank">\n1a.0\n</a>'
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'<a href="http://wow.com">\n1a.0\n</a>'
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)
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)
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)
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{revisions:{commit:{sha:'abcd', url:'a/b'}}}
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data_out = ->
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'<a href="{{ site.links.github }}/\
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blob/abcd/a/b" target="_blank">\nabcd\n</a>'
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blob/abcd/a/b">\nabcd\n</a>'
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assert.deepEqual(commit({}, {}, data_in()), data_out())
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)
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)

‎_includes/footer.html

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<div class="container">
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<ul class="footer-nav">
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<li><a class="grey-text text-lighten-4"
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target="_blank"
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href="{{ site.links.contributors }}">
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PFHub Developers
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</a></li>
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<li><a class="grey-text text-lighten-4 right"
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target="_blank"
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href="{{ site.links.license }}"
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id="license">
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NIST License

‎_includes/navbar.html

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<li><a href="{{ site.baseurl }}/community" class="navbar-text">Community</a></li>
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<li><a href="{{ site.baseurl }}/CODE_OF_CONDUCT" class="navbar-text">Code of Conduct</a></li>
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<li><a href="{{ site.baseurl }}/codes">Suggested Codes</a></li>
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<li><a href="{{ site.links.github }}" title="GitHub" class="navbar-text" target="_blank">GitHub</a></li>
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<li><a href="{{ site.baseurl }}/slack" title="Slack" class="navbar-text" target="_blank">Slack</a></li>
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<li><a href="{{ site.links.github }}" title="GitHub" class="navbar-text">GitHub</a></li>
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<li><a href="{{ site.baseurl }}/slack" title="Slack" class="navbar-text">Slack</a></li>
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</ul>
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title="Mailing List">
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<i class="medium material-icons">email</i>
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</a></li>
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<li><a target="_blank"
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<li><a
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href="{{ site.links.chat }}"
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title="Chat">
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<i class="medium material-icons">chat</i>
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</a></li>
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<li><a target="_blank"
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<li><a
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</i>
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</a></li>
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<i class="medium material-icons">

‎_includes/simulation.html

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</div>
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</div>
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<script>
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var SIM_NAME = new URL(window.location.href).searchParams.get("sim");
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var CHART_DATA={{ site.data.charts.plot1d | jsonify }};
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var ALL_DATA={{ site.data.simulations | jsonify }};
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var CODES_DATA={{ site.data.codes | jsonify }};
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var AXES_NAMES={{ site.data.axes_names | jsonify }};
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var REPO={{ site.links.repo | jsonify }};
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var BENCHMARK_DATA={{ site.data.benchmarks | jsonify }};
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</script>
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<!-- <script> -->
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<!-- var SIM_NAME = new URL(window.location.href).searchParams.get("sim"); -->
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<!-- var CHART_DATA={{ site.data.charts.plot1d | jsonify }}; -->
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<!-- var ALL_DATA={{ site.data.simulations | jsonify }}; -->
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<!-- var CODES_DATA={{ site.data.codes | jsonify }}; -->
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<!-- var AXES_NAMES={{ site.data.axes_names | jsonify }}; -->
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<!-- var REPO={{ site.links.repo | jsonify }}; -->
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<!-- var BENCHMARK_DATA={{ site.data.benchmarks | jsonify }}; -->
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<!-- </script> -->
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<script src="{{ site.baseurl }}/js/simulation.js"></script>
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‎_includes/title.html

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{% if page.author %}
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by
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>
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‎benchmarks/benchmark1.ipynb.raw.html

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<div class="output_html rendered_html output_subarea ">
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<a href="https://bokeh.org" target="_blank" class="bk-logo bk-logo-small bk-logo-notebook"></a>
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<a href="https://bokeh.org" class="bk-logo bk-logo-small bk-logo-notebook"></a>
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‎benchmarks/benchmark2.ipynb.raw.html

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<div class="output_html rendered_html output_subarea ">
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<div class="bk-root">
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<a href="http://bokeh.pydata.org" target="_blank" class="bk-logo bk-logo-small bk-logo-notebook"></a>
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<a href="http://bokeh.pydata.org" class="bk-logo bk-logo-small bk-logo-notebook"></a>
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<span id="7e84b706-d181-4438-ad99-c354b49e1cb9">Loading BokehJS ...</span>
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‎benchmarks/index.md

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demanding. The National Institute of Standards and Technology has
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played a coordinating role in the development and management of these
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problems, and also hosts a [website for the Micromagnetic Standard
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Problems](http://www.ctcms.nist.gov/~rdm/mumag.org){:target="_blank"},
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Problems](http://www.ctcms.nist.gov/~rdm/mumag.org),
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as well as solutions submitted by the community. The Micromagnetic
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Standard Problems were extremely useful to the community in the
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development of codes such as OOMMF, Mumax, and Magpar. It should be
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or the physics.
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The first set of benchmark problems, [BM1]({{ site.baseurl
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}}/benchmarks/benchmark1.ipynb/){:target="_blank"} and [BM2]({{
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site.baseurl }}/benchmarks/benchmark2.ipynb/){:target="_blank"},
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}}/benchmarks/benchmark1.ipynb/) and [BM2]({{
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site.baseurl }}/benchmarks/benchmark2.ipynb/),
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involve diffusion of a solute and grain growth. Technically, they use
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the Cahn-Hilliard equation for a conserved order parameter, and
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coupled Cahn-Hilliard and Allen-Cahn equations for conserved and
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non-conserved order parameters. Successfully solving the models
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demonstrates that the fundamentals of a modeling framework are sound.
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The second set of benchmark problems, [BM3]({{ site.baseurl
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}}/benchmarks/benchmark3.ipynb/){:target="_blank"} and [BM4]({{
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}}/benchmarks/benchmark3.ipynb/) and [BM4]({{
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involve coupling phase transformations with additional physics,
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dendritic growth in solidification from an undercooled liquid, also
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The third set of benchmark problems, [BM5]({{ site.baseurl
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}}/benchmarks/benchmark5-hackathon.ipynb/){:target="_blank"} and
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additional physics less commonly seen in phase field problems.
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Specifically, BM5 involves modeling Stokes' flow equations and BM6
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Manufactured Solutions applied to the Allen-Cahn equation.
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For details of any or all of these benchmark problems, please refer to
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problems]({{ site.baseurl }}/#benchmarks).

‎community.html

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‎hackathons/hackathon2/index.ipynb.raw.html

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<h4 id="University-of-Connecticut:-Moose">University of Connecticut: Moose<a class="anchor-link" href="#University-of-Connecticut:-Moose">&#182;</a></h4><p><a href="https://github.com/kcpitike/Hackathon-2">GitHub Repo</a></p>
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<iframe src="//www.slideshare.net/slideshow/embed_code/key/1qcfv6PO3oSgS" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe><p><strong>
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<a href="//www.slideshare.net/DanielWheeler18/chimad-phase-field-hackathon-2-university-of-connecticut" title="CHiMaD Hackathon 2: University of Connecticut" target="_blank">CHiMaD Phase Field Hackathon 2: University of Connecticut</a> </strong> by <strong>
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<strong><a target="_blank" href="https://github.com/mangerij">John Mangeri</a>
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<a href="//www.slideshare.net/DanielWheeler18/chimad-phase-field-hackathon-2-university-of-connecticut" title="CHiMaD Hackathon 2: University of Connecticut">CHiMaD Phase Field Hackathon 2: University of Connecticut</a> </strong> by <strong>
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<a href="https://github.com/kcpitike">Krishina Pitike</a> </strong> and
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<br>
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<h4 id="Pennsylvania-State-University:-Moose">Pennsylvania State University: Moose<a class="anchor-link" href="#Pennsylvania-State-University:-Moose">&#182;</a></h4><p><a href="https://github.com/wd15/penn-hackathon2/tree/master">GitHub Repo</a></p>
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<iframe src="//www.slideshare.net/slideshow/embed_code/key/Dbgdhk1Zs5JWtC" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe><p><strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-pennsylvania-state-university" title="CHiMaD Hackathon 2: Pennsylvania State University" target="_blank">CHiMaD Hackathon 2: Pennsylvania State University</a>
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<iframe src="//www.slideshare.net/slideshow/embed_code/key/Dbgdhk1Zs5JWtC" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe><p><strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-pennsylvania-state-university" title="CHiMaD Hackathon 2: Pennsylvania State University">CHiMaD Hackathon 2: Pennsylvania State University</a>
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</strong> by
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<strong><a target="_blank" href="https://github.com/itgreenquist">I. Greenquist</a></strong> and
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<strong><a target="_blank" href="https://github.com/kasra83">Kasra Momeni</a></strong></p>
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<strong><a href="https://github.com/tonkmr">Mike Tonks</a></strong>,
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<strong><a href="https://github.com/itgreenquist">I. Greenquist</a></strong> and
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<strong><a href="https://github.com/kasra83">Kasra Momeni</a></strong></p>
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<p><br>
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<br></p>
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<h4 id="McGill-University:-Unknown-FE-Code-and-Julia">McGill University: Unknown FE Code and Julia<a class="anchor-link" href="#McGill-University:-Unknown-FE-Code-and-Julia">&#182;</a></h4><p><a href="https://github.com/nsmith5/chimadQ2">GitHub Repo</a></p>
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<iframe src="//www.slideshare.net/slideshow/embed_code/key/4QZp8GXqomEC0B" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe><p><strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-team-mcgill" title="CHiMaD Hackathon 2: Team mcgill" target="_blank">CHiMaD Hackathon 2: McGill University</a>
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<iframe src="//www.slideshare.net/slideshow/embed_code/key/4QZp8GXqomEC0B" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe><p><strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-team-mcgill" title="CHiMaD Hackathon 2: Team mcgill">CHiMaD Hackathon 2: McGill University</a>
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</strong> by
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<strong><a href="https://github.com/nsmith5">Nathan Smith</a></strong>,
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<p><br>
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<h4 id="INL:-Moose">INL: Moose<a class="anchor-link" href="#INL:-Moose">&#182;</a></h4><p><iframe src="//www.slideshare.net/slideshow/embed_code/key/E1OGX4YyH0HtzK" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe> <strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2" title="CHiMaD Hackathon 2">CHiMaD Hackathon 2: INL</a> </strong> by
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<h4 id="University-of-Michigan:-PRISMS">University of Michigan: PRISMS<a class="anchor-link" href="#University-of-Michigan:-PRISMS">&#182;</a></h4><p><iframe src="//www.slideshare.net/slideshow/embed_code/key/3ERQSQGzAh1dZq" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe> <strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-university-of-michigan" title="CHiMaD Hackathon 2: University of Michigan" target="_blank">CHiMaD Hackathon 2: University of Michigan</a> </strong> by
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<h4 id="University-of-Michigan:-PRISMS">University of Michigan: PRISMS<a class="anchor-link" href="#University-of-Michigan:-PRISMS">&#182;</a></h4><p><iframe src="//www.slideshare.net/slideshow/embed_code/key/3ERQSQGzAh1dZq" width="425" height="355" frameborder="0" marginwidth="0" marginheight="0" scrolling="no" style="border:1px solid #CCC; border-width:1px; margin-bottom:5px; max-width: 100%;" allowfullscreen> </iframe> <strong> <a href="//www.slideshare.net/DanielWheeler18/chimad-hackathon-2-university-of-michigan" title="CHiMaD Hackathon 2: University of Michigan">CHiMaD Hackathon 2: University of Michigan</a> </strong> by
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‎js/data_table.coffee

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‎js/moment.min.js

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‎results/benchmark1a.1.ipynb.raw.html

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</div>
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</div>
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<script>
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var SIM_NAME = new URL(window.location.href).searchParams.get("sim");
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$('#sim_name').html(SIM_NAME);
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</script>
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<!-- <script> -->
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<!-- var SIM_NAME = new URL(window.location.href).searchParams.get("sim"); -->
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<!-- $('#sim_name').html(SIM_NAME); -->
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<!-- </script> -->

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</h2>
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<h4>
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This upload form no longer works.
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<a target="_blank"
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<a
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href="{{ site.baseurl }}/simulations/upload/">
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Please use the manual upload procedure.
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</a>
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Fill out this form to submit a new benchmark result to the
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website. The data will be submitted via a pull-request on
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GitHub. Please go to
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<a target="_blank" href="{{ site.links.github }}/pulls">
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<a href="{{ site.links.github }}/pulls">
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{{ site.links.repo }}
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</a>
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to view the pull-request. To upload a new benchmark result
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with a manual pull request, please follow the
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<a target="_blank"
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<a
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href="{{ site.baseurl }}/simulations/upload">
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manual upload instructions
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</a>. This form can be populated from an existing result by

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