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actions-user committed Jul 23, 2024
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2 changes: 1 addition & 1 deletion preview-xalim-pass-args-guide/assets/search/index.json
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2 changes: 1 addition & 1 deletion preview-xalim-pass-args-guide/assets/search/metadata.json
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29 changes: 17 additions & 12 deletions preview-xalim-pass-args-guide/fellowships/index.html
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Expand Up @@ -232,14 +232,14 @@ <h1 class="uw-mini-bar mb-4">

<h2 id="featured-fellow">Featured Fellow</h2>

<div id="wil-cram" class="bg-white team-card justify-content-center mb-3 flex-grow-1">
<div id="kristina-zhao" class="bg-white team-card justify-content-center mb-3 flex-grow-1">
<div class="uw-card-content shadow">
<div class="row">
<div class="col-3">
<div class="overflow-hidden d-flex justify-content-center">


<img src="/web-preview/preview-xalim-pass-args-guide/staff-list/images/wil_cram.jpg" alt="Headshot for Wil Cram" />
<img src="/web-preview/preview-xalim-pass-args-guide/staff-list/images/kristina_zhao.jpg" alt="Headshot for Kristina Zhao" />

</div>
</div>
Expand All @@ -248,23 +248,28 @@ <h2 id="featured-fellow">Featured Fellow</h2>
<div>
<h2 class="uw-mini-bar mb-0 mt-3">

Wil Cram
Kristina Zhao

</h2>
<div><h6 class="mt-2">Mentor(s):</h6> Greg Thain</div>
<div><h6 class="mt-2">Mentor(s):</h6> Emma Turetsky and Ian Ross</div>
</div>
</div>
</div>
<div class="col-12">
<h4 class="mt-3">Schedd performance analysis for human</h4>
<h4 class="mt-3">Integrating PyTorch and Pelican</h4>
<div class="pt-2">
<p>The condor_schedd is a single threaded program, and when it is overloaded,
it is difficult for administrators to understand why. There are some
statistics about what it is doing, but there is no clear way to present
this information in a useful way to an administrator. Students working
on this project would build visualizations of complex data, and work
with end users and facilitators to tune output for real world human
consumption.</p>
<p>PyTorch is one of the most popular machine learning frameworks.
An important aspect of using it is the data engineering: how
is input data fed into the model during training? Going from
“tutorial scale” problems to cutting-edge research requires
drastically different techniques around data handling.</p>

<p>For this project, we aim to better integrate Pelican
into the PyTorch community, providing both technical
mechanisms (implementing the fsspec interface for Pelican)
and documentation by providing tutorials and recipes for
scaling PyTorch-based training using a combination of HTCondor
and Pelican.</p>

</div>
</div>
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44 changes: 22 additions & 22 deletions preview-xalim-pass-args-guide/projects.html
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Expand Up @@ -276,32 +276,32 @@ <h2>&nbsp;</h2>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>xDD project and Shanan Peters</h2>
<h2>Natalia de Leon</h2>
<p>
Shanan Peters, project lead for xDD, Dean L. Morgridge Professor of Geology, Department of Geoscience.<br/> <br/> Shanan’s primary research thrust involves quantifying the spatial and temporal distribution of rocks in the Earth’s crust in order to constrain the long-term evolution of life and Earth’s surface environment. Compiling data from scientific publications is a key component of this work and Peters and his collaborators are developing machine reading systems deployed over the xDD digital library ad cyberinfrastructure hosted in the CHTC for this purpose.
Natalia de Leon, Professor of Agronomy, Department of Agronomy.<br/> <br/> The goal of her research is to identify efficient mechanisms to better understand the genetic constitution of economically relevant traits and to improve plant breeding efficiency. Her research integrates genomic, phenomic, and environmental information to accelerate translational research for enhanced sustainable crop productivity.

</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/peters.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/deLeon.jpg">
</div>
</div>
</div>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>Natalia de Leon</h2>
<h2>xDD project and Shanan Peters</h2>
<p>
Natalia de Leon, Professor of Agronomy, Department of Agronomy.<br/> <br/> The goal of her research is to identify efficient mechanisms to better understand the genetic constitution of economically relevant traits and to improve plant breeding efficiency. Her research integrates genomic, phenomic, and environmental information to accelerate translational research for enhanced sustainable crop productivity.
Shanan Peters, project lead for xDD, Dean L. Morgridge Professor of Geology, Department of Geoscience.<br/> <br/> Shanan’s primary research thrust involves quantifying the spatial and temporal distribution of rocks in the Earth’s crust in order to constrain the long-term evolution of life and Earth’s surface environment. Compiling data from scientific publications is a key component of this work and Peters and his collaborators are developing machine reading systems deployed over the xDD digital library ad cyberinfrastructure hosted in the CHTC for this purpose.

</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/deLeon.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/peters.jpg">
</div>
</div>
</div>
Expand Down Expand Up @@ -356,76 +356,76 @@ <h2>&nbsp;</h2>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>Biomagnetic Resonance Data Bank</h2>
<h2>CMS LHC Compact Muon Solenoid</h2>
<p>
The Biomagnetic Resonance Data Bank (BMRB) is headquarted within UW-Madison's National Magnetic Resonance Facility at Madison (NMRFAM) and uses the CHTC for research in connection with the <a href="http://www.bmrb.wisc.edu">Biological Magnetic Resonance Data Bank</a> (BMRB).

The UW team participating in the Compact Muon Solenoid (CMS) experiment analyzes petabytes of data from proton-proton collisions in the Large Hadron Collider (LHC). We use the unprecedented energies of the LHC to study Higgs Boson signatures, Electroweak Physics, and the possibility of exotic particles beyond the Standard Model of Particle Physics. Important calculations are also performed to better tune the experiment's trigger system, which is responsible for making nanosecond-scale decisions about which collisions in the LHC should be recorded for further analysis.
</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/logo_bmrb.svg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/LHC.jpg">
</div>
</div>
</div>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>CMS LHC Compact Muon Solenoid</h2>
<h2>Atlas Experiment</h2>
<p>
The UW team participating in the Compact Muon Solenoid (CMS) experiment analyzes petabytes of data from proton-proton collisions in the Large Hadron Collider (LHC). We use the unprecedented energies of the LHC to study Higgs Boson signatures, Electroweak Physics, and the possibility of exotic particles beyond the Standard Model of Particle Physics. Important calculations are also performed to better tune the experiment's trigger system, which is responsible for making nanosecond-scale decisions about which collisions in the LHC should be recorded for further analysis.
<a href="http://atlas.ch"><strong>Atlas Experiment</strong></a>
</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/LHC.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/atlas.jpg">
</div>
</div>
</div>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>Atlas Experiment</h2>
<h2>Barry Van Veen</h2>
<p>
<a href="http://atlas.ch"><strong>Atlas Experiment</strong></a>
The bio-signal processing laboratory develops statistical signal processing methods for biomedical problems. We use CHTC for casual network modeling of brain electrical activity. We develop methods for identifying network models from noninvasive measures of electric/ magnetic fields at the scalp, or invasive measures of the electric fields at or in the cortex, such as electrocorticography. Model identification involves high throughput computing applied to large datasets consisting of hundreds of spatial channels each containing thousands of time samples.
</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/atlas.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/vanveen.jpg">
</div>
</div>
</div>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>Phil Townsend</h2>
<h2>Biomagnetic Resonance Data Bank</h2>
<p>
Professor <strong>Phil Townsend</strong> of Forestry and Wildlife Ecology says Our research (NASA & USDA Forest Service funded) strives to understand the outbreak dynamic of major forest insect pests in North America through simulation modeling. As part of this effort, we map forest species and their abundance using multi-temporal Landsat satellite data. My colleagues have written an automatic variable selection routine in MATLAB to preselect the most important image variables to model and map forest species abundance. However, depending on the number of records and the initial variables, this process can take weeks to run. Hence, we seek resources to speed up this process.
The Biomagnetic Resonance Data Bank (BMRB) is headquarted within UW-Madison's National Magnetic Resonance Facility at Madison (NMRFAM) and uses the CHTC for research in connection with the <a href="http://www.bmrb.wisc.edu">Biological Magnetic Resonance Data Bank</a> (BMRB).

</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/townsend.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/logo_bmrb.svg">
</div>
</div>
</div>

<div class="row">
<div class="col-12 col-md-8 order-2 order-md-1">
<h2>Barry Van Veen</h2>
<h2>Phil Townsend</h2>
<p>
The bio-signal processing laboratory develops statistical signal processing methods for biomedical problems. We use CHTC for casual network modeling of brain electrical activity. We develop methods for identifying network models from noninvasive measures of electric/ magnetic fields at the scalp, or invasive measures of the electric fields at or in the cortex, such as electrocorticography. Model identification involves high throughput computing applied to large datasets consisting of hundreds of spatial channels each containing thousands of time samples.
Professor <strong>Phil Townsend</strong> of Forestry and Wildlife Ecology says Our research (NASA & USDA Forest Service funded) strives to understand the outbreak dynamic of major forest insect pests in North America through simulation modeling. As part of this effort, we map forest species and their abundance using multi-temporal Landsat satellite data. My colleagues have written an automatic variable selection routine in MATLAB to preselect the most important image variables to model and map forest species abundance. However, depending on the number of records and the initial variables, this process can take weeks to run. Hence, we seek resources to speed up this process.
</p>
</div>
<div class="ms-md-5 col-12 col-md-3 order-1 order-md-2 d-flex flex-column">
<h2>&nbsp;</h2>
<div class="d-flex flex-grow-1">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/vanveen.jpg">
<img style="max-height: 200px" class=" mx-auto my-auto img-fluid" src="/web-preview/preview-xalim-pass-args-guide/images/townsend.jpg">
</div>
</div>
</div>
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8 changes: 4 additions & 4 deletions preview-xalim-pass-args-guide/uw-research-computing/get-help.html
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Expand Up @@ -242,15 +242,15 @@ <h2 id="research-computing-facilitators">Research Computing Facilitators</h2>

<div class="col-auto">
<figure class="p-3 d-flex flex-column">
<img style="object-fit: cover; border-radius: 50%; width: 12rem; height: 12rem" class="mx-auto" src="/staff-list//web-preview/preview-xalim-pass-args-guide/images/rachel_lombardi.jpg" alt="Rachel Lombardi's Headshot" />
<figcaption class="mt-1 text-center"><b>Rachel Lombardi</b><br />Research Computing Facilitator</figcaption>
<img style="object-fit: cover; border-radius: 50%; width: 12rem; height: 12rem" class="mx-auto" src="/staff-list//web-preview/preview-xalim-pass-args-guide/images/andrew_owen.jpg" alt="Andrew Owen's Headshot" />
<figcaption class="mt-1 text-center"><b>Andrew Owen</b><br />Research Computing Facilitator</figcaption>
</figure>
</div>

<div class="col-auto">
<figure class="p-3 d-flex flex-column">
<img style="object-fit: cover; border-radius: 50%; width: 12rem; height: 12rem" class="mx-auto" src="/staff-list//web-preview/preview-xalim-pass-args-guide/images/andrew_owen.jpg" alt="Andrew Owen's Headshot" />
<figcaption class="mt-1 text-center"><b>Andrew Owen</b><br />Research Computing Facilitator</figcaption>
<img style="object-fit: cover; border-radius: 50%; width: 12rem; height: 12rem" class="mx-auto" src="/staff-list//web-preview/preview-xalim-pass-args-guide/images/rachel_lombardi.jpg" alt="Rachel Lombardi's Headshot" />
<figcaption class="mt-1 text-center"><b>Rachel Lombardi</b><br />Research Computing Facilitator</figcaption>
</figure>
</div>

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