Add March Newsletter and refactor newsletter workflow

.github/workflows/typo_config.toml

@@ -20,5 +20,6 @@ extend-ignore-re = [
     "Villegas",
     "Wil",
     "Lok",
-    "BITCON"
+    "BITCON",
+    "annote"
 ]

_config.yml

@@ -53,6 +53,7 @@ exclude:
   - Gemfile
   - Gemfile.lock
   - vendor
+  - quarto
 
 livereload: true
 

_data/jobs.yml

@@ -4,11 +4,6 @@
   name: Systems Software Engineer
   posted: 2026-03-04
   url: https://cmu.wd5.myworkdayjobs.com/CMU/job/Pittsburgh-PA/Systems-Software-Engineer---Mellon-College-of-Science---Physics-Department_2024153
-- expires: 2026-03-14
-  location: Lawrence Berkeley National Lab, Berkeley, CA
-  name: Data Science Workflows Architect
-  posted: 2026-02-27
-  url: https://jobs.lbl.gov/jobs/data-science-workflows-architect-7354
 - expires: 2026-04-01
   location: Lawrence Berkeley National Lab - Joint Genome Institute (JGI), Berkeley,
     CA

_data/newsletter_bib.bib

@@ -0,0 +1,229 @@
+@article{dicosmoStopTreatingCode2025,
+  title = {Stop Treating Code like an Afterthought: Record, Share and Value It},
+  shorttitle = {Stop Treating Code like an Afterthought},
+  author = {Di Cosmo, Roberto and Granger, Sabrina and Hinsen, Konrad and Jullien, Nicolas and Le Berre, Daniel and Louvet, Violaine and Maumet, Camille and Maurice, Clémentine and Monat, Raphaël and Rougier, Nicolas P.},
+  date = {2025-10},
+  journaltitle = {Nature},
+  volume = {646},
+  number = {8084},
+  pages = {284--286},
+  publisher = {Nature Publishing Group},
+  issn = {1476-4687},
+  doi = {10.1038/d41586-025-03196-0},
+  url = {https://www.nature.com/articles/d41586-025-03196-0},
+  urldate = {2025-11-07},
+  abstract = {Scientists, research institutions, funders, libraries and publishers must all improve software practices.},
+  langid = {english},
+  keywords = {Computer science,Research management,Scientific community,Software},
+  annotation = {Bandiera\_abtest: a\\
+Cg\_type: Comment\\
+Subject\_term: Computer science, Software, Scientific community, Research management\\
+Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.784Z},
+  file = {/Users/tit420/Zotero/storage/WZFJ6WH9/d41586-025-03196-0.html}
+}
+
+@online{forstonGrandChallengesConvergence2026,
+  title = {Grand {{Challenges}} for the {{Convergence}} of {{Computational}} and {{Citizen Science Research}} - {{CCC}}},
+  author = {Forston, Lucy and Shanley, Lea and Berger-Wolf, Tanya and Crowston, Kevin and Jackson, Corey and Savage, Saiph and Griffin, Haley},
+  date = {2026},
+  url = {https://cra.org/ccc/events/grand-challenges-for-the-convergence-of-computational-and-citizen-science-research/},
+  urldate = {2026-03-13},
+  abstract = {CCC is hosting a two-day visioning workshop to explore how humans and machines may team up to solve some of the most pressing scientific problems through citizen science, crowdsourcing, and community-engaged science.},
+  langid = {american},
+  pubstate = {prepublished},
+  annotation = {Read\_Status: To Read\\
+Read\_Status\_Date: 2026-03-16T01:28:24.888Z},
+  file = {/Users/tit420/Zotero/storage/7ME3SVEY/Grand Challenges for the Convergence of Computational and Citizen Science Research.pdf;/Users/tit420/Zotero/storage/M6QTEK95/grand-challenges-for-the-convergence-of-computational-and-citizen-science-research.html}
+}
+
+@online{gesingFindingComputingData2025,
+  title = {Finding {{Computing}} and {{Data Infrastructure}} to {{Get Started}} in {{Data-Intensive Research}}},
+  author = {Gesing, Sandra and Stone, Sarah and Washington, Talitha},
+  date = {2025-11-03},
+  url = {https://academicdatascience.org/resources/community-blog/get-started-in-data-intensive-research/},
+  urldate = {2025-11-07},
+  abstract = {Helpful questions and guide for finding the right resources for your large-scale data or advanced computing project.},
+  langid = {american},
+  organization = {Academic Data Science Alliance},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.785Z},
+  file = {/Users/tit420/Zotero/storage/TW2WSN94/get-started-in-data-intensive-research.html}
+}
+
+@article{kaiserProbabilisticComputingPbits2021,
+  title = {Probabilistic Computing with P-Bits},
+  author = {Kaiser, Jan and Datta, Supriyo},
+  date = {2021-10-11},
+  journaltitle = {Applied Physics Letters},
+  volume = {119},
+  number = {15},
+  eprint = {2108.09836},
+  eprinttype = {arXiv},
+  eprintclass = {cs},
+  pages = {150503},
+  issn = {0003-6951, 1077-3118},
+  doi = {10.1063/5.0067927},
+  url = {http://arxiv.org/abs/2108.09836},
+  urldate = {2025-11-07},
+  abstract = {Digital computers store information in the form of bits that can take on one of two values 0 and 1, while quantum computers are based on qubits that are described by a complex wavefunction, whose squared magnitude gives the probability of measuring either 0 or 1. Here, we make the case for a probabilistic computer based on p-bits, which take on values 0 and 1 with controlled probabilities and can be implemented with specialized compact energy-efficient hardware. We propose a generic architecture for such p-computers and emulate systems with thousands of p-bits to show that they can significantly accelerate randomized algorithms used in a wide variety of applications including but not limited to Bayesian networks, optimization, Ising models, and quantum Monte Carlo.},
+  keywords = {Computer Science - Emerging Technologies,Condensed Matter - Disordered Systems and Neural Networks,Quantum Physics},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/SYFNS2I4/Kaiser and Datta - 2021 - Probabilistic computing with p-bits.pdf;/Users/tit420/Zotero/storage/MEI288S5/2108.html}
+}
+
+@article{mcmahonPhysicsOpticalComputing2023,
+  title = {The Physics of Optical Computing},
+  author = {McMahon, Peter L.},
+  date = {2023-10-09},
+  journaltitle = {Nature Reviews Physics},
+  shortjournal = {Nat Rev Phys},
+  volume = {5},
+  number = {12},
+  eprint = {2308.00088},
+  eprinttype = {arXiv},
+  eprintclass = {physics},
+  pages = {717--734},
+  issn = {2522-5820},
+  doi = {10.1038/s42254-023-00645-5},
+  url = {http://arxiv.org/abs/2308.00088},
+  urldate = {2025-11-07},
+  abstract = {There has been a resurgence of interest in optical computing over the past decade, both in academia and in industry, with much of the excitement centered around special-purpose optical computers for neural-network processing. Optical computing has been a topic of periodic study for over 50 years, including for neural networks three decades ago, and a wide variety of optical-computing schemes and architectures have been proposed. In this paper we provide a systematic explanation of why and how optics might be able to give speed or energy-efficiency benefits over electronics for computing, enumerating 11 features of optics that can be harnessed when designing an optical computer. One often-mentioned motivation for optical computing -- that the speed of light \$c\$ is fast -- is not a key differentiating physical property of optics for computing; understanding where an advantage could come from is more subtle. We discuss how gaining an advantage over state-of-the-art electronic processors will likely only be achievable by careful design that harnesses more than one of the 11 features, while avoiding a number of pitfalls that we describe.},
+  keywords = {Computer Science - Emerging Technologies,Computer Science - Neural and Evolutionary Computing,Physics - Applied Physics,Physics - Optics,Quantum Physics},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/YHZBR96T/McMahon - 2023 - The physics of optical computing.pdf;/Users/tit420/Zotero/storage/BP7Y3XBN/2308.html}
+}
+
+@online{MingKwaiPrototypeOrigin,
+  title = {{{MingKwai}} Prototype, the ‘Origin of {{Chinese}} Computing,’ Finds a Home at {{Stanford}}},
+  url = {https://news.stanford.edu/stories/2025/05/mingkwai-chinese-typewriter-prototype-stanford-libraries},
+  urldate = {2025-11-07},
+  abstract = {Lost for more than half a century, the rare Chinese typewriter whose name means “clear and fast” was discovered in a New York basement and entrusted to Stanford Libraries.},
+  langid = {english},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.785Z},
+  file = {/Users/tit420/Zotero/storage/24QB9S4M/mingkwai-chinese-typewriter-prototype-stanford-libraries.html}
+}
+
+@article{PhysicsNeedsResearch2025,
+  title = {Physics Needs Research Software Engineers},
+  date = {2025-07},
+  journaltitle = {Nature Reviews Physics},
+  shortjournal = {Nat Rev Phys},
+  volume = {7},
+  number = {7},
+  pages = {349--349},
+  publisher = {Nature Publishing Group},
+  issn = {2522-5820},
+  doi = {10.1038/s42254-025-00852-2},
+  url = {https://www.nature.com/articles/s42254-025-00852-2},
+  urldate = {2025-11-07},
+  abstract = {Calls to recognize research software engineers are not new — but such professionals are needed now more than ever.},
+  langid = {english},
+  keywords = {Computational science},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/54T93EH7/2025 - Physics needs research software engineers.pdf}
+}
+
+@book{ramanathanIntroductionNeuromorphicComputing2025,
+  title = {Introduction to {{Neuromorphic Computing}}},
+  author = {Ramanathan, Shriram and Sengupta, Abhronil},
+  date = {2025},
+  publisher = {Cambridge University Press},
+  location = {Cambridge},
+  url = {https://www.cambridge.org/core/books/introduction-to-neuromorphic-computing/853942021D89F82AED182F9021E7E0F5},
+  urldate = {2025-11-07},
+  abstract = {Artificial intelligence is transforming industries and society, but its high energy demands challenge global sustainability goals. Biological intelligence, in contrast, offers both good performance and exceptional energy efficiency. Neuromorphic computing, a growing field inspired by the structure and function of the brain, aims to create energy-efficient algorithms and hardware by integrating insights from biology, physics, computer science, and electrical engineering. This concise and accessible book delves into the principles, mechanisms, and properties of neuromorphic systems. It opens with a primer on biological intelligence, describing learning mechanisms in both simple and complex organisms, then turns to the application of these principles and mechanisms in the development of artificial synapses and neurons, circuits, and architectures. The text also delves into neuromorphic algorithm design, and the unique challenges faced by algorithmic researchers working in this area. The book concludes with a selection of practice problems, with solutions available to instructors online.},
+  isbn = {978-1-009-56434-2},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/KJPG7YQY/853942021D89F82AED182F9021E7E0F5.html}
+}
+
+@online{saulGreatExpectationsUnifying2025,
+  title = {Great Expectations: {{Unifying Statistical Theory}} and {{Programming}}},
+  shorttitle = {Great Expectations},
+  author = {Saul, Bradley},
+  date = {2025-10-10},
+  eprint = {2510.09853},
+  eprinttype = {arXiv},
+  eprintclass = {stat},
+  doi = {10.48550/arXiv.2510.09853},
+  url = {http://arxiv.org/abs/2510.09853},
+  urldate = {2025-11-07},
+  abstract = {Beginning in the 1970s, statistician-cum-logician Per Martin-L\textbackslash "of wrote a series of papers developing what became Martin-L\textbackslash "of type theory, realizing a system where the distinction between mathematics and programming disappears. Inspired by this vision, this paper introduces dependent type theory (of which Martin-L\textbackslash "of type theory is an example) to a statistical audience. Examples from statistics and probability theory demonstrate how dependent type theory and an algebraic perspective can unify the theoretical and computational concerns of statistics, ensuring rigorous, machine-checked proofs and executable software.},
+  pubstate = {prepublished},
+  keywords = {Statistics - Computation},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.785Z},
+  file = {/Users/tit420/Zotero/storage/IE6DMRAC/Saul - 2025 - Great expectations Unifying Statistical Theory and Programming.pdf;/Users/tit420/Zotero/storage/N5NEKEU3/2510.html}
+}
+
+@audio{schmidtByteSizedHowGet2026,
+  title = {[{{EN}}] {{ByteSized}}: How to Get Your (Digital) Ducks in a Row - with {{Richard Acton}} - {{Code}} for {{Thought}}},
+  shorttitle = {[{{EN}}] {{ByteSized}}},
+  author = {Schmidt, Peter},
+  date = {2026-03-03},
+  url = {https://www.buzzsprout.com/1326658/episodes/18674534-en-bytesized-how-to-get-your-digital-ducks-in-a-row-with-richard-acton},
+  urldate = {2026-03-16},
+  abstract = {English Edition (ByteSized): In this first episode of the new ByteSized dRTP season, sponsored by the STEP-UP programme from the EPSRC (UK) you'll meet Richard Acton. Richard created a tool to help you keep track of all the steps you should take t...},
+  langid = {english},
+  annotation = {Read\_Status: To Read\\
+Read\_Status\_Date: 2026-03-16T01:28:24.888Z},
+  file = {/Users/tit420/Zotero/storage/IFV3CDPZ/18674534-en-bytesized-how-to-get-your-digital-ducks-in-a-row-with-richard-acton.html}
+}
+
+@audio{schmidtRevealingStructureCrystals2026,
+  title = {[{{EN}}] {{Revealing}} the Structure of Crystals and Proteins with {{CrystFEL}} - {{Thomas White}} - {{Code}} for {{Thought}}},
+  author = {Schmidt, Peter},
+  date = {2026-03-10},
+  url = {https://www.buzzsprout.com/1326658/episodes/18674558-en-revealing-the-structure-of-crystals-and-proteins-with-crystfel-thomas-white},
+  urldate = {2026-03-16},
+  abstract = {English Edition:\ Meet Thomas White from DESY (German Electron Synchrotron) who is the creator and maintainer of the tool CrystFEL. The tool to help understand and analyse the structure of materials such as crystals and proteins. Thomas and I ...},
+  langid = {english},
+  annotation = {Read\_Status: To Read\\
+Read\_Status\_Date: 2026-03-16T01:28:24.887Z},
+  file = {/Users/tit420/Zotero/storage/4HFKBQKU/18674558-en-revealing-the-structure-of-crystals-and-proteins-with-crystfel-thomas-white.html}
+}
+
+@online{SilentScientistWhen2025,
+  title = {The {{Silent Scientist}}: {{When Software Research Fails}} to {{Reach Its Audience}} – {{Communications}} of the {{ACM}}},
+  shorttitle = {The {{Silent Scientist}}},
+  date = {2025-10-10},
+  url = {https://cacm.acm.org/opinion/the-silent-scientist-when-software-research-fails-to-reach-its-audience/},
+  urldate = {2025-11-07},
+  langid = {american},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.785Z},
+  file = {/Users/tit420/Zotero/storage/M3LUH55Y/the-silent-scientist-when-software-research-fails-to-reach-its-audience.html}
+}
+
+@article{SixFactorsAffecting,
+  title = {Six Factors Affecting Reproducibility in Life Science Research and How to Handle Them},
+  url = {https://www.nature.com/articles/d42473-019-00004-y},
+  urldate = {2025-11-07},
+  abstract = {Scientific advancement depends on a strong foundation of data credibility. However, scientific findings in biomedical research are not always reproducible. Meet the organizations that are promoting best practices and helping researchers perform the highest-quality science.},
+  langid = {english},
+  annotation = {Bandiera\_abtest: a\\
+Cg\_type: Advertisement Feature\\
+Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/G8WPDWN4/d42473-019-00004-y.html}
+}
+
+@online{UnderstandingAdvancingResearch2025,
+  title = {Understanding and Advancing Research Software Grant Funding Models},
+  date = {2025-07-25},
+  doi = {10.12688/openreseurope.20210.1},
+  url = {https://open-research-europe.ec.europa.eu/articles/5-199/v1},
+  urldate = {2025-11-07},
+  abstract = {Read the latest article version by Daniel S. Katz, Eric A. Jensen, Michelle Barker at Open Research Europe},
+  langid = {english},
+  organization = {Open Research Europe | Open Access Publishing Platform},
+  annotation = {Read\_Status: Read\\
+Read\_Status\_Date: 2026-03-16T02:12:49.786Z},
+  file = {/Users/tit420/Zotero/storage/66VZ36QC/v1.html}
+}