I need to set julia to always run with bounds checks enabled. I have done this before. The big virtue is no more redoing precompilation between running normally and running tests. Since julia makes seperate compliation caches for the 3 different settings for bounds checks. +tests always have them on

I made an OpenSCAD library for engraving emoji into 3D prints. github.com/oxinabox/ope...

Pretty happy with this for something I designed and printed all in one day, while doing other things. It snugly fits the brace on the back of mirrors. Which has a funny bumpy shape. No more bracelets scattered over my dressing table.

🚨 Breaking news 🚨 Two epic tutorials announced for #JuliaCon Local Paris 2025: one about Pluto notebooks and one about using JuMP for optimization. Be sure to get your tickets this week, otherwise the early bird pricing will be gone 🦜 @juliacon.bsky.social @julialang.org @pydataparis.bsky.social

I ordered a 3D printer. I haven't had access to one since I left uni in 2018. And that one was ancient and temperamental.

I should implement the same design o want to 3D print in OpenSCAD, Descartes.jl, ConstructiveGeometry.jl, ImplicitCAD and a few other programatic CADs. Then compare and contrast

One julia thing I am coming around to after using python for a bit is explicit imports. I used to be moderately hard against it. Working out where something is from is a tooling problem that is kinda solved. But when jumping into a codebase where you are unfamiliar with the whole ecosystem...

The 1 module per file pattern is not idiomatic Julia. I am dubious of its success in python where it is built in and required. You end up with a hell of avoiding circular dependencies. And trying to match API organisation (external) to development organisation (internal) is just messy. Long files.

Sometimes it's fun to pick up random open source repos and contribute to them. Yesterday I picked up ConstructiveGeometry.jl Which is a Julia based OpenSCAD alternative. It's a 1 person effort not touched in 4 years, and I got it working with latest releases of its dependencies etc. and made a PR

DataStructures.jl v0.19 has been released.. Our first breaking release in 5 years. It shouldn't be too breaking if you kept up with removing deprecated calls. (For reference 0.18 has 22 patch releases which was an annoying amount of backporting to do. Might be a record for backporting) #julialang

Biology be like: So 1 gene encodes for 1 protein right? It's 1-1. Well no, some genes are no coding. Ok so it's 1-0/1 Well no, each AA can come from multiple different codons so two different genes can technically make the same protein. Ok so many-0/1. (It gets worse though)

I actually quite like SQL. Nice language to express things in. Though how different versions of the same query will perform is mysterious

Biology be like: So 1 gene encodes for 1 protein right? It's 1-1. Well no, some genes are no coding. Ok so it's 1-0/1 Well no, each AA can come from multiple different codons so two different genes can technically make the same protein. Ok so many-0/1. (It gets worse though)

Something i just said seriously at work: "How different is a human from yeast anyway? Probably not that different."

What database normalisation rule is broken by having redundant information For example have a column for middle name and another column for middle initial. It clearly breaks some rule as they could be updated separately and end up inconsistent.

I was away for one week and someone added a `utils` file to the code base. `utils` files are an antipattern because it's a meaningless name, an unclear grouping. (A utils folder is ok if the files have good names). And it tends to be where evil code lives. often without tests. Cos "its just utils".

I wish github had a thing that would let me right click an item in a check-list and open a subissue with it's text as the title. And edit the original post's checklist to be a link to that subissue. That would make breaking stuff down for project management purposes much better.

I thought Dask was supposed to be this really reliable thing, especially when using it with Coiled so I can't screw up my infrastructure. But I have been fighting it all day, of it seemingly getting to a point where it stops talking back to client...

NetworkX allowing anything to be the nodes in graphs is solidly nicer than Graphs.jl Look how nice it is to go from a CobraPy model (a reaction network) to a (bipartite) Graph:

Python is a 1 based language. It's just that indexing is written as `x[-i]`. The hyphen is important! Also lists are printed backwards.

Classic bio-data hell 🥰🥰🥰 I realised our tests depend on 5 subtly different GEMs for the ecoli core metabolism. And they can't be substituted for each other without some rework. Plus 2 for yeast, and 1 for salmonella.

for any axis L of a convex polyhedron H a function taking a point in P and returning the cross sectional area of a slice of H is convex. similar for any direction D perpendicular to L, a function f_D(p in L) that returns the width of H in that direction D at point p, is convex. So a question:

Inheritance was a mistake. Multiple inheritance, multiply so.

I reviewed #3000

JOSS has now published more than 3,000 articles, and I've personally edited 60 of them (still editing +5). Being a part of JOSS has been one of the most fulfilling experiences of my life. @joss-openjournals.bsky.social #JOSS

Anyone else with Github Teams suddenly see all Github Actions failing because if billing reasons? Today we started see that all of a sudden and i was confused cos out billing looks good. Then i noticed we had a new(?) budget tab. Which said 100% used ($0/$0). Changing that got things working again

The coworking space definitely made the phone booths uncomfortable on purpose to stop people staying in them too long. Stool rather than a chair. No power outlet. Tiny shelf of a bench rather than a desk. Very small with bad airflow. Similarly the kitchen area has stools.

A thing about being at a very small startup, a good nerdsnipe can absolutely sink total productivity for the day. I took out both founders today with a weird Uniprot entry.

I am now working from a coworking space. I spent a bunch of time yesterday/today finding a good one, and I picked the best. Ergonomic chairs and monitors provided. But one thing I do not like is that they have managed to get the vibe of a basement even though it's 1-2 stories above the ground.

@metanetx.bsky.social what is the ETA on v4.5?

A new metanetx release is overdue. I am looking forward to it because it will fix some bugs I found. But also I fear it because it will create new ones and void some of my local fixes

I have been in Melbourne this week on boarding three new staff. Due to coincidences, for their first 3 days the CEO was at a conference, and the head of Eng is in UK for a few months completing a degree. So it would have just been our admin person. So I flew over from Perth. I ❤️ soft-skills work.

Should I switch to always `git rebase --update-refs`? (using the global config) dev.to/onepoint/git...

Em-Dash is capital underscore. Underscore is lower-case em-dash.

I suspect the more standard thing to do would be to build the docs, push them to S3 with github.com/marketplace/... and use AWS cloudfront to setup some basic auth (like even just a shared password for whole company would be fine. Its only docs)

In general one idea I had for hosting private docs would be to automatically generate them in markdown, and push them on to the wiki on github (which almost noone uses on most projects). There is a github action for pushing a folder onto the wiki: github.com/marketplace/...

What is the standard thing people do in python to build and host their documentation? Especially for private repos in a github org? (Not super important that the docs are private but would be nice)

one quirk of #julialang packages vs python packages, the names are really literal: - SeaWeed.jl: manages and allows simulations of seaweed. you can customize, fauna, water composition... - seaweed-py: a S3 API for Docker

If I wanted to transfer data between my home in Perth to our office in Melbourne. It is about 2700km. So a pigeon would take 28 hours. Let's count resting / replacing pigeons and give it 3x buffer. So 84Hours. 200TB/84hr = 661MB/s = 5.3 Gb/s Utterly crushes the NBN's 1Gb/s down, 0.1Gb/s up.

KEGG being a proprietary database is kinda wild. How much does this limit what you can do with KEGG identifiers in open source datasets? It's incredibly widely used.

so finding the centroid of a convex polyhedron described as a system of inequality is exponential time? Feels wrong. But finding vertices is hard. I feel like we should have other options than that, like L2 penality for being close to inequality edge then convex optimisation.

A programmer had a problem. He thought — "I know, I'll use async!" has problems Now . two he

I periodically think about this thread. Sometimes to get an answer you need to let a bunch of PhD physicists and mathematicians talk for 50-100 comments on your API problem. And 2 months later they will come back with a solution I think that's beautiful. discourse.julialang.org/t/taking-com...

The bandwidth of a messenger pigeon is not to be underestimated. The largest micro-SD card on the market is now 2TB A messager pigeon can carry 30-50grams, a micro-sd card weights 0.5g. So 120-200TB. And they have a average speed of 97 km/h (60 miles per hour) for sustained flights.

fiction: In an act of petty revenge a ML engineer on his last day globally redefines `gradient(args...) = old_gradient(args...)*(1+0.001randn())` he leaves thinking he has inserted a really hard to track down bug. But it turns out he has improved performance of all models.

I connected to the squarespace domains page for first time since it was purchased from google, so i could hook up the domain as my handle. I am very pleased to find out i did infact set up auto-renew. So I won't start having all my emails bounce, and my website will stay up

code is just data that has anxiety

As a human with a PhD in natural language and machine learning I hate everything about where the field has gone since I left in 2018.

This code is actually hideously complex. Esp for something that doesn't even involve numbers. Once I finish this combinatorics/graph problem, I might import a 11GB database, as a treat. Bio data hell is a nice change of pace, after thinking about which things are possible / nonidentical for 2 weeks