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samuell

2,496 karmajoined há 13 anos
Fascinated by Living Systems | Clin Microbio Bioinfo @ Karolinska | PhD http://pharmb.io | Reproducibility, #SciWorkflows | Curious: Genomic Algos, TEs etc

R&D: https://livesys.se Thinking: https://livingsystems.substack.com

Married. Dad. Sinner saved by grace.

Submissions

AI progress should upgrade our view of the human brain – not devalue it

livingsystems.substack.com
2 points·by samuell·há 14 horas·0 comments

Rosalind: A genomics toolkit in Rust running whole-genome pipelines on a laptop

github.com
185 points·by samuell·há 2 meses·57 comments

Flux Matching – Generalizing diffusion models to non-scoring func vector fields

twitter.com
2 points·by samuell·há 2 meses·0 comments

Playing freely – and not limiting innovation to what is already best practice

livingsystems.substack.com
1 points·by samuell·há 2 meses·0 comments

Epiq: Distributed Git-backed CLI native issue tracker TUI

github.com
4 points·by samuell·há 2 meses·1 comments

Nvidia aquires SchedMD – developer of Slurm HPC scheduling software

heise.de
4 points·by samuell·há 7 meses·1 comments

GlassWorm: Self-propagating Worm Using Invisible Code Hits OpenVSX Marketplace

koi.ai
2 points·by samuell·há 9 meses·1 comments

comments

samuell
·há 18 horas·discuss
As much as I'm put away by the dependency horror I've seen in many Rust projects, this is an interesting observation.
samuell
·anteontem·discuss
Steve Francia (author of Hugo and a bunch of other top Go projects) wrote up some thoughts of Go's fit in the agentic era:

https://spf13.com/p/go-the-agentic-language/
samuell
·há 4 dias·discuss
Quite thought-provoking, and connecting it to a related field it seems the (relative) success of LLMs and the likes are indications that enough data can at least learn you something without always needing to interfere with the world first(?)
samuell
·há 4 dias·discuss
Is this the same guy behind https://iwantosequencemygenomeathome.com/ ?

[Edit: Apparently no. That link is by Seth Howes, who also shared the OP post though: https://x.com/SethSHowes/status/2074231119730430203 ]
samuell
·há 11 dias·discuss
As someone who has spent some time in sub-saharan Africa, I can tell you that there is lots that can be done if just seeing the possibilities.

Not everyone everywhere are "engineering oriented", and having people with the skills and eye for practical solutions based on available materials, can help tons, and also open up people's imagination for what can be done.

In fact, this goes for northern Europe too, just that more people can manage without home-built solutions and can "buy away the problem" here.

Also, people where immensely thankful e.g. when my quite clever and crafty father managed to repair a water tank tower that'd been broken for months and years, by sourcing some local material, coming up with a repair design, and having local welders create it, etc etc.
samuell
·há 14 dias·discuss
Glad to see more languages adopt true goroutines [edit: lightweight threads or fibers] with M:N scheduling. Surprised more haven't. Among compiled language I'm only aware of Go and Crystal off the top of my mind.
samuell
·há 17 dias·discuss
No, this was pure speculation based on what seems like a popular view on where Mojo ended up, where the initial Python-focus don't seem to help it that much anymore.
samuell
·há 17 dias·discuss
As a meta comment, I'm surprised such a news is not reaching the frontpage already.
samuell
·há 17 dias·discuss
Maybe Chris was a little unhappy about where Mojo ended up, and sees this as an opportunity to start anew on a properly designed language from scratch :D
samuell
·há 17 dias·discuss
I'm actually mostly worried about the future of Mojo at this time.

Though hopefully it will be fully released open source still, but I feel there are question marks around whether it will be a priority to continue to develop by Qualcomm, or if they are mainly interested in the AI compute stack?

Time will tell I guess, but a lot feels to be up in the air.
samuell
·há 23 dias·discuss
Found this previous thread about Lisette: https://news.ycombinator.com/item?id=47646843
samuell
·mês passado·discuss
I'll second looking at KdenLive.

You might want to stay away from very recent major versions for stability, but it is a very capable editor that is also much more robust and performant than openshot.

I haven't compared with Blender VSE though.
samuell
·mês passado·discuss
Wanted to expand on the animation part, so will check this up for sure, thank you.
samuell
·mês passado·discuss
Great to hear.
samuell
·mês passado·discuss
Stability sounds interesting. While KdenLive has worked OKish for me, certain versions have broken my projects, and there are some long-standing bugs, like subtitles disappearing if I do a specific operation in the wrong moment. While the latter is fixed by a simple Ctrl+Z it is giving me second thoughts about using this for really large projects.
samuell
·mês passado·discuss
For people using Resolve, would you recommend someone already quite well-versed in KDenLive to switch, for some non-profit work on cutting together educational content with some animations, some talks etc?

Will it allow me to drastically improve my workflow (save time for some tedious tasks), increase quality of the outputs etc?
samuell
·mês passado·discuss
My main issue with this is I expect Mojo to become the go to tinkering language for me.
samuell
·mês passado·discuss
I grew up in a christian home, so got my initial belief from there.

Had a kind of pivot moment when I moved out from home though, where I immediately realized my parents will not be there forever, and the inner me needs to reach for my ultimate parent. This got me into a much closer relation with the Lord. I had (and have) many somewhat spectacular answers to prayer, and basically learned to have a really trustful relationship with him.

I know many people's faith is challenged when going to the university and learning about biology as I did (studying biotech and bioinformatics).

I had came into contact with some great apologetics material, especially around evolution etc, in Swedish, which I found super interesting.

Still, I must say my faith was even more reinforced when we started to study macro-molecular machines, and I realized that biology is a whole world of extremely advanced nano-machines, working in an extremely intricate network of interlocking interdependencies.

I've been involved in quite a bit of debates regarding evolutionism and creationism over the years, and one thing I have noticed is that scientific creationism is much closer to modern evolutionary theory than most people realize. Recent secular paradigms such as "The third way of evolution" [1] pretty much perfectly recapitulates what many creationists have said for years; Biology is shock-full of pre-programmed ability to adapt, according to pre-existing modules and adjustable parameters, in an extremely dynamic software system, with tons of generative algorithms for how animals and plants are built up through embryogenesis, which allows for powerful adjustments of a lot of parameters with often surprisingly little change in the genomic "source code".

For people interested in an introduction to what secular science has to say here, I often recommend "The Plausability of Life", by Gerhart and Kirschner [2]. Other great titles are "Evolution: A View from the 21st century" by James Shapiro [3], and a few more (the third way website lists a lot of great books).

In my view, the Genesis story in the Bible matches these findings perfectly, disagreeing mainly in the expected age of things. But these biological mechanisms actually mean that "evolution" can happen extremely fast, without even actual genomic changes just by turning on and off or regulating features, via mechanisms like Epigenetics.

Eventually I've became involved in trying to figure out the more detailed view of how the Biblical narrative could explain the bleeding edge of biology, which led me to co-organize a seminar in Sweden in 2024 with European researchers (mostly), which resulted in both a video series and a book, which is available from this web store among others (not affiliated).

This work, especially the chapters on 1) Mendelian genetics 2) Epigenetics and 3) Transposable elements (think Endogenous Retroviruses, Jumping Genes etc), together in my mind creates an extremely interesting explanatory framework for how life was pre-programmed to be extremely efficient - and fast - mind you - at adapting to varying environments.

Whether you want to call that "evolution" or "pre-programmed adaptive creation" is in my mind very much a question of definitions, and TBF, the term evolution hasn't had a very strict definition for as long as I remember.

Anyways, today I'm more fascinated than ever the more I learn about the extremely complex and ingenuous solutions out there in nature to vastly different problem areas like chemistry, metabolism, mechanics, information processing and general cognition. It fills me with awe and respect for the creator that must be there behind all this.

[1] https://www.thethirdwayofevolution.com/

[2] https://yalebooks.yale.edu/book/9780300119770/the-plausibili...

[3] https://www.goodreads.com/book/show/11004717-evolution

[4] https://www.youtube.com/playlist?list=PLNkVOx7YbWiDABv5nB3Ih...

[5] https://store.answersingenesis.co.uk/product/a-creation-scie...
samuell
·mês passado·discuss
Optimizing for local-first checking is 100% the way to go, and should be used much more widely I think.

I have done a similar thing using simple makefiles though, collecting more complex chains of tasks into a "meta rule" in Make and just calling that from whatever CI config we're using.
samuell
·mês passado·discuss
You might try sequencing your DNA at home :)

https://iwantosequencemygenomeathome.com/

(Well, the guy offers to do it for you too, delivering the data on an USB stick).