Replies

thatdnaguy, 2 months ago to linux

If you work on the command-line in Linux a lot, find + exec is your friend.

"I have many copies of MYFILE because my project got sloppy over time. Are they different?"

find . -type f -readable -name "MYFILE*" -exec md5sum {} ;

Also handy for if temporary files get out of control and rm chokes.

find . -type f -readable -name "*.temp" -exec rm {} ;

#Linux
#CommandLine
#Bioinformatics
#Genomics

thatdnaguy, 2 months ago

@visone that's true! I forget that option because a fair amount of the data is sensitive so I end up using shred --remove instead. :-)

KestrelSWard, 6 months ago to academicchatter

Today I am discovering the wonderful world of Open Access APCs. I, a poor queer independent researcher, would like to publish my research open access because I believe it should be free to any who need it. The publication we were pointed to as being ideal for publishing our work....wants to charge over $3000USD. I thought I was misreading that at first, but no apparently not. @academicchatter #academicchatter #OER #AcademicPublishing

thatdnaguy, 6 months ago

@KestrelSWard @academicchatter gotta pad those meager profits somewhere

elduvelle, 7 months ago to twitter

So let me get this right..

1-Scientists go to Twitter, invest time and effort in it to build their profile, post cool content, help optimize it, attract readers to it etc.

2-Jack Dorsey (& others) sells Twitter to Elon Musk

3-Elon Musk destroys Twitter

4-Jack Dorsey creates a new platform, Bluesky

5-Scientists go to BlueSky, invest time and effort to build their profile … … …

…am I missing something? Why are they doing it again? 😳

#Twitter #Bluesky #IDontGetIt

Edits: sorry, #IceCubes acting up with my formatting again

thatdnaguy, 7 months ago

@elduvelle but surely they won't do the same thing again!!!

skykiss, 9 months ago to cs

deleted_by_author

thatdnaguy, 9 months ago

@skykiss good luck. Dell bakes quite a lot in. So does windows for that matter. Usually I just go through the installed programs/apps menu and start there looking for things I don't care about to remove. Then to startup options to disable all the things I don't need on startup.

b0rk, 10 months ago (edited 10 months ago) to random

a couple of years ago on twitter I asked why man pages don't have examples and had a surprisingly interesting discussion https://twitter.com/b0rk/status/1427308140916363269

I learned that:

• GNU tools intentionally left examples out of man pages, because the idea was that the examples were in the "info" pages instead (which I never heard of it in ~15 years of using Linux, apparently it’s am emacs thing)
• BSD man pages do tend to have examples (for example man grep on Mac OS has some examples, on Linux it doesn't)

thatdnaguy, 10 months ago

@b0rk that's interesting. I don't think I knew info pages even existed.

thatdnaguy, 11 months ago to bioinformatics

#Bioinformatics #HiveMind #SnakeMake #Docker

Uni cluster runs using Docker images, so I have snakemake setup to specify the images appropriately dispatching jobs.

But I'm switch back and forth between our Linux servers and the cluster. Aiming to run jobs on our servers using the same images to avoid version conflicts and unexpected behavior.

Anyone using snakemake with dockerhub images on a standard Linux server? The docs aren't clear on compatibility and how to set it up so far.

thatdnaguy, 11 months ago

@Elendol well I've got the images all public on docker hub. So accessing them isn't a problem. But what I'm looking to do is have our local server you singularity or whatever built-in tools that snake make can handle to run the actual rules inside specific docker containers

thatdnaguy, 11 months ago

@Elendol not a problem. Automating image updates would be helpful too. :-)

godlessmom, 11 months ago to Youtube

Two types of content I consume when I want something relaxing and vanilla:

1. Magnet fishing YouTube videos - omg this is so fun! 12/10 highly recommend

2. ASMR antique restoration YouTube videos - soooooo satisfying.

#youtube #selfcare

thatdnaguy, 11 months ago

@godlessmom I feel like pressure washing dirty things falls in that category as well

thatdnaguy, 11 months ago

@godlessmom word. I lean toward cars, but rugs hide it so well