David O'Connor

First release: Integrated Terminal + file browser + viewer. Abstracts away the workflows I use. Could be called an IFE? (Integrated File Environment?) I no longer settle with the flaws or slowness of software avail; cost/benefit now supports custom solutions: github.com/David-OConno... #rustlang

I have a pile of small boards with Bt6 sounding an accelerometer, and a baro. In a mesh, they all mutually sound, and can construct relative 3d position of the whole mesh. Runs off a coin cell, PV, or RF power (transmitted; not ambient). PC dash UI with status + view of the positions. Now what?

I'm working on a combination Terminal + File manager + text/image viewer + clipboard manager program. Has replaced the OS ones for me. Started a few months ago as GUI extension of a terminal/shell. Scope creep has taken hold, for better or worse! #RustLang

Order of the Sinking Star slaps. How did they program the [redacted]s to be so... adorable? They way they flail their little feetsies and tails.

There will be a death (Or something close to it), and rebirth. Through this, A will advance in a Kuhnian leap - habits will be broken as incentives changed, and paths ignored will be explored. Insights will flow to the sciences. I'm excited! 2/2

The crisis in Math exposes a conflation between A: The broad concept of [abstract] Mathematics and B: The contemporary Mathematics culture and community. This crisis is directly in B only. B will adapt: In how it attributes value, status, hierarchy, and career. 1/2

These embedded crates are peak software quality. Thank you for making durable software that serves as a foundation: - cortex_m - probe_rs - defmt - svd2rust - heapless #rustlang

Nordic scooped themselves on the nRF53 - there's no reason to use one now that the 54L and H are out! It had a small window where it made sense, but I suspect most people never picked it up, and will jump 52 -> 54.

I set up a website to make it easy to run common structural Bio/ML tools like RFDiffusion, structure prediction, and sequence prediction tools (ESMFold, ProteinMPNN, Chai-1 etc). athanortools.com I'm using this for a specific protein design project and learning journey.

I made a CLI program, Rust and Python lib that makes it easy to install and run bio / drug design tools. (structure pred, seq pred etc): github.com/David-OConno... `pip install bio_tools_app` `bio_tools install boltz2` `bio_tools run boltz2 --version` 🧬🖥️

Rust is a fantastic language that earns my choice by virtue of pro/con balance. Thoughtful syntax, nice enums, great error messages, exquisite tools. I still regularly hear "If you're not using ownership abstractions, and safety-oriented design, why use it?". BC it's a nice lang! #rustlang

New Molchanica release. Highlights: - OpenDDE GUI interface for protein structure prediction - Built-in Mol DBs (HMDB; ChEBI) - Misc UI improvements github.com/David-OConno... 🧬🖥️

A shell/terminal application I've been working on. Makes it easy to access commonly-used and recent dirs and commands. Bookmarks, syntax highlighting, practical history and autocomplete, ssh integration. github.com/David-OConno... #rustlang

Uhoh... I just ordered 60mL syringes, filters, and primers for these genes: 16S, 18S, COI, ITS, 12S, MatK and rbcL... #ecology #environment

Red Bull Wololo 2026 finals: So excited! Hera is the hero and the one to beat, but I think Liereyy can do it

I just added GROMACS integration to my Molchanica program. It provides a GUI interface to launch GROMACS runs (Or its own MD backend) for arbitrary molecules, then immediately view results. Also works as a general playback tool now, for TRR, XTC, and DCD. 🧬 & 🖥️ www.athanorlab.com/docs

I would like to reflect upon how both ORCA and GROMACS documentation are S-tier. And their logos are exceptionally tasteful

The Expedition 33 soundtrack may be my favorite album. The Une Vie trilogy, in particular, are masterpieces.

Go home clippy, you're drunk! > warning: the loop variable `i` is used to index `lines` - for i in first_atom_line..last_atom_line { + for (i, <item>) in lines.iter().enumerate().take(last_atom_line).skip(first_atom_line) { #RustLang

We hold ourselves in the US to a higher standard. The world now and through history has had more brutal leaders, more government-led violence. Authoritarians are common. That is no excuse for tolerating that behavior here; it's what sets us apart, and what has made me proud to be a US citizen.

At about the 35-second mark the officer says "IF YOU FUCKING MOVE I'LL FUCKING TASE YOU," followed immediately by "GET OUT OF THE FUCKING CAR RIGHT NOW." Which contradictory order are you supposed to follow, knowing that either could get you tased? Or worse? bsky.app/profile/petr...

Nothing the Trump admin and his private army are doing is novel or unusual; they're just below the standard we have held ourselves to in the US.

This is what they’ve wanted all along. This is the goal.

🚨"This is nuts! What the f*ck is going on, this is insane! ICE is just trying to scare people; they tell you it's only immigrants—it's f*cking anybody!" -furious Minneapolis resident tells our @zdroberts.bsky.social after ICE shot a man in the leg tonight. LIVE NOW ⬇️

This is the second time in three months a DHS agent called a US citizen a "bitch" as he shot her. donmoynihan.substack.com/p/whos-threa...

Yes, JD. Let’s ask them if they think a stay at home mom, avowed Christian, and widow of a veteran deserved to be shot in the face and left to bleed out in her own car after dropping her 6-year-old off at school, for the crime of looking out for her neighbors. Let’s ask everyone running for office.

A 6-year-old just lost his mother. A woman was shot in the face in front of her wife. The swift, lockstep attempt to dehumanize and villainize Renee Nicole Good might be the most depraved thing we've seen yet from these ghouls and their supporters. These people are utterly fucking dead inside.

Looking for help choosing a more unique name for my molecule viewer/editor/dynamics program. Thoughts on these? (Latin names age well, right?) - Molchanica - MolMechanica - MolMotus - ChemForma

I added initial ORCA integration in bio_files. This makes it easy to integrate quantum chem workflows into applications written in Rust. I'm using it to integrate ORCA's geom opt and MD into software I'm writing. docs.rs/bio_files/la... #RustLang #chemsky #ORCA 🧬🖥️

My family are useful canaries of what news the public actually sees from astro, and only yesterday did my mum ask me about a study (one article of many linked below) who said they "trained an AI" to simulate the Milky Way. This was NOT AI as how the public sees "AI", and this is disingenuous.

Launched a new site for my structural biology tools. And made a new Daedalus release; can infer MD force fields for arbitrary molecules, and better solvent initialization. Fixes for viewing electron density too. 🧬🧪🖥️ www.athanorlab.com

Quanta Magazine is a treasure. It's one of the highest-quality existent journalism sources. Isn't trying to pump metrics, sell products, or trigger emotions. Respects the reader's intelligence. Exemplary of what news should be. www.quantamagazine.org

I'm adding an organic molecule editor to Daedalus. The party trick: Fully integrated and interactive "real-time" dynamics.

Updated [lin-alg](github.com/David-OConno...) with 512-bit SIMD support (f64x8, f32x16). Std-compatible floats, Vec3, Vec4, and Quaternion types. Thx to the compiler team for including this in std on v1.89 #RustLang

Released v2.0 of Stm32-HAL. This applies the latest PAC (Thanks stm32-rs team!), which allows better peripheral support, esp for L5, C0, G0, and H5. github.com/David-OConno... #RustLang

Ready to share my Bio Files rust lib. Parses molecule formats, electron density, and now Amber force field parameters. github.com/David-OConno... #RustLang 🧬💻

I'm integrating molecular dynamics into Daedalus's docking logic. Improving the bio-files lib to load Amber force fields.

I published an open-source protein and ligand viewer. Goal: fast and easy-to-use. Long-term: a platform for docking and molecular dynamics. I'm gradually splitting it into standalone libs. Any feedback/desired features appreciated! #RustLang 🧪🧬🖥️ github.com/David-OConno...

Yesterday Tr*mp froze all NSF funds, today he announced a 56% budget cut. This is going to devastate science in the US. I've spent the morning calling my reps to raise hell and applying for jobs as it's clear I can't sustain my freelance scicomm business on NSF funding anymore (1/n) #scicomm #nsf 🧪

Right Now, most of the American can relate to this message from the 90's.

I updated my vector and quaternion lib with SIMD support. e.g. `Vec3x8`, `Quaternionx8` etc types. Works on stable rust. Uses `f64x4` etc types and syntax similar to `core::simd`, but on stable rust. github.com/David-OConno... #rustlang

I made this video about action steps you can take to speak up for the NIH 🧪 The comments are nottttt passing the vibe check rn but at least the trolls are driving views: youtube.com/shorts/sLLh4...

I published a Barnes Hut algorithm library in Rust, for fast N-Body simulations: crates.io/crates/barne... #RustLang #Cosmology

I open-sourced my 3D visualization framework. It's an integration of GUI, and WGPU with a simple engine. I use it to make applications that include both a GUI, and 3D graphics, generally for scientific visualizations. github.com/David-OConno... #RustLang

I open-sourced my quadcopter flight-controller firmware: github.com/David-OConno... It supports control radios, OSD, GPS, acro and attitude flight modes. Uses STM32 flight controllers. I released the code as a demo of how to do this in rust. #RustLang

I'd like to share a bio primitives lib I've been working on and using: docs.rs/na_seq/lates.... It has data structures and utilities for nucleotides, amino acids, and related. Open to any and all critique and suggestions! Currently using it in my plasmid editor. #RustLang

My favorite quality of #rustlang: Mutability semantics. It may be the only language that allows mutation to happen only explicitly, *and* with simple syntax. Including `&mut` in a fn signature seems obvious in hindsight, and I miss it elsewhere.

I'm building an OSS plasmid editor - PlasCAD: github.com/David-OConno.... Small standalone application; emphasis on performance, ease, and practical workflows. It sets up and QCs primers too. Let me know what you think! I plan to keep adding features. #Genomics #Bioinformatics #MolecularBiology