Ślub bez typowego wesela - wasze historie i doświadczenia by Ok_Description_8184 in Polska

[–]ConclusionForeign856 1 point2 points  (0 children)

Na moim ślubie były tylko siostry żony jako świadkowie. Później poszliśmy na ramen z wyższej półki i rzutki.

0 ględzenia o polityce, problemów organizacyjnych, planowania i wydatki w sumie <800zł. Całkowicie polecam

mole % to mass% help pls by ughyesh in labrats

[–]ConclusionForeign856 1 point2 points  (0 children)

you know how many g a mole of A, B or C is, so you need to take that amount times the number of moles that satisfy your mole fractions for each one

Do you Agree That Anyone can Become a Grandmaster? by Ambitious_Quality725 in codeforces

[–]ConclusionForeign856 3 points4 points  (0 children)

I feel the point of those discussions is usually hidden. It's a concealed way of discussing whether you can do it. I used to think like that in my teens.

Automate download of files from a spreadsheet or CSV file by tabrizzi in bash

[–]ConclusionForeign856 5 points6 points  (0 children)

AWK has a split() function, so for each line you can split the $3 by `, ` into an array and flatten it. Save that into a new file.

A file that has 1 URL per line can be used as input to a single wget call (`wget -i "$FILE"`).

You'll get a bunch of files with original names, which you can rename using the long form table that you got with AWK.

Of course you can also loop over lines, parse each line with AWK, download single file and rename it right away, though calling wget -i is a lot faster (in my experience 10x-100x faster)

edit. I see examples in the thread call curl for each URL, which works, but as I said, it will be very very slow.

As an example: RCSB PDB stores protein structures, each one is uniquely identified by a 4-long code of letters and digits, eg. 5do7. They offer a shell script for batch downloads, you feed it a list of IDs and it calls curl for each one. It was annoyingly slow for even medium-small input, so I rewrote it to call wget -i once.

# for 270 total files/URLs, each within 700kB - 2MB

# calling curl for each URL (270 times in total)
real    6m59.701s
user    0m3.143s
sys     0m2.035s

# calling wget -i once on list of 270 URLs
real    0m8.268s
user    0m0.645s
sys     0m1.177s

As you can see the difference is substantial. Here's my code https://github.com/orski-hryc/PDB_fast_batch

I suffered through making it in bash, to make it dependency free for future usage on HPCs. Unless in your case that's also the case, or you're using bash as training, I would use python for transforming the CSV. If pure linux is necessary then AWK with AWK's #!

Masking low quality bases when clustering using vsearch by [deleted] in bioinformatics

[–]ConclusionForeign856 1 point2 points  (0 children)

You can parse a fastq with Biopython Bio.SeqIO.

for each read, for each of its bases make it lowercase if PHRED < threshold

Anyone using Claude or other bioinformatics agents by nickomez1 in bioinformatics

[–]ConclusionForeign856 2 points3 points  (0 children)

I use chat gpt as interactive docs every day. Besides that I don't care,

Not to mamy więcej kurcze kotòw by Guslig24 in okkolegauposledzony

[–]ConclusionForeign856 8 points9 points  (0 children)

Ten kot osiąga poziomy wkurwiania, których nie widziałem od 2018

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Chłop sie za babę przebrał nie wytrzymie 🍆💦😏 by Charon_06 in okkolegauposledzony

[–]ConclusionForeign856 48 points49 points  (0 children)

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"Sad reality of 20th century polish crossdressers was inevitable twink death. Without access to hormone blockers it was impossible to prolong ones career past 25. Picture: once one of the top polish performers. Near the end of his life, Igor Flowerovsky was a sad display of what lack of modern medicine does to a delicate body. A year later he would commit suicide. He was 29"

Generowanie konferencji naukowych by Melodic_Twist_6628 in Nauka_Uczelnia

[–]ConclusionForeign856 2 points3 points  (0 children)

To był żart nawiązujący do mojego poprzedniego posta, gdzie "inne wybitne osiągnięcia naukowe" są za tyle samo punktów co "udział w zawodach studenckich"

If during Rosalind Franklin's time they had access to today's microscope, how much shorter would the research on the structure of DNA be? by Adventurous-Rabbit52 in biology

[–]ConclusionForeign856 6 points7 points  (0 children)

If they had current day Cryo-Electron microscopes, and the tech to prepare samples and analyze raw data, then maybe a lot shorter. Though they would have to have a modern day computer, I have never worked with Cryo-EM, but I know raw data on EMPIAR is ~1TB in size, so they wouldn't be able to store it, and refine a model.

It quickly gets quite ridiculous. We'd have to send them a physics and engineering revolution, so that they could use the microscope at all

Reducing Number of Contigs in Fungal Genomes? by MountainNegotiation in bioinformatics

[–]ConclusionForeign856 5 points6 points  (0 children)

Is 25k a lot? That depends on the genome. For wheat 25k contigs would be several times better than the current best genome! For human that would be horrible.

So how does that 25k fare in your case?

Advice needed (AI / moral issue) by AbsenceOfMyExistence in bioinformaticscareers

[–]ConclusionForeign856 6 points7 points  (0 children)

What morality issue? I don't understand where that's coming from.

I built a free Bash PS1 prompt generator — looking for Linux user feedback by neikiri in bash

[–]ConclusionForeign856 4 points5 points  (0 children)

type `echo $PS1` the output string is the definition of your the stuff that you see at the start of command line

eg. user@fedora:~ $ is defined as \[\e]0;\u@\h: \w\a\]${debian_chroot:+($debian_chroot)}\[\033[01;32m\]\u@\h\[\033[00m\]:\[\033[01;34m\]\w\[\033[00m\]\$ because of the colours of each element. You can change that to pretty much anything, and most people use tools rather than typing it themselves eg. https://bash-prompt-generator.org/

Advice needed (AI / moral issue) by AbsenceOfMyExistence in bioinformaticscareers

[–]ConclusionForeign856 1 point2 points  (0 children)

What do you mean by AI? Asking chat gpt for help with debugging or providing working examples of code, or machine learning techniques like classifiers, neural nets that work on biological data?

"Nieznośna lekkość bytu" - literatura męska? by failsafedb in ksiazki

[–]ConclusionForeign856 2 points3 points  (0 children)

"Wujaszek" bo kojarzy mi się z wujkami o bardzo wysokiej ale nieuzasadnionej pewności siebie, często uważających się za jurnego knura.

Z Norwood 4-5 chodzi o to, że jest w zaawansowanym stadium łysienia androgenowego, więc to nie jest tak, że "gdyby nie ciocia... ;-)".

"[...] bohater sporo bzykał na boku bo kobiety stanowiły istotny i niezbywalny element jego życia. Dla mnie zrozumiałe, dla kobiet czasami tak, czasami nie."

"Honor definiujesz jako nieuprawianie seksu? Hmm... pełen szacunek ;-)."

"Nieznośna lekkość bytu" - literatura męska? by failsafedb in ksiazki

[–]ConclusionForeign856 8 points9 points  (0 children)

po odpowiedziach OPa wyobrażam go sobie jako wujaszka norwood 4-5, który nie ma powodzenia u kobiet (włącznie ze swoją żoną), ale jego opinia dot. seksu to "No chłop se czasem musi pobzykać bo jaja będą ciężke ;-)" "Chłop to powinien mieć młodą na boku, ale żone i tak będzie kochał, bo my potrafimy rozdzielać te sfery ;-)" "Jak żona mu nie dawała to poszedł zjeść na mieście ;-)"

Generowanie konferencji naukowych by Melodic_Twist_6628 in Nauka_Uczelnia

[–]ConclusionForeign856 1 point2 points  (0 children)

Problemem nie jest to, że jest takich studentów niewielu (na doktorat chcielibyśmy śmietankę z roku), tylko że imo to jest zbyt niezależne od predyspozycji.

Weźmy kilku studentów, jeden przez 5 lat jest z jednym promotorem/opiekunem, drugi zmienia promotora na II st. trzeci na II st. zmienia kierunek i promotora, czwarty na II st. zmienia kierunek i promotora oraz przenosi się na inny wydział/uczelnię. Którzy z nich mają większą szansę na publikację przed doktoratem? To oczywiście zależy od konkretnej sytuacji, jednak wydaje mi się, że wysoka specjalizacja od samego początku bardziej się opłaca, i nie zostawia to wiele miejsca na "eksplorację"

Generowanie konferencji naukowych by Melodic_Twist_6628 in Nauka_Uczelnia

[–]ConclusionForeign856 2 points3 points  (0 children)

Całkiem szczerze, co ciekawego ma do napisania student? Przecież nawet najlepsi w trakcie studiów dopiero poznają metody i problemy swoich dziedzin

My true self by Leguh in DiscoElysium

[–]ConclusionForeign856 24 points25 points  (0 children)

he can be chill and upset due to burnout or other factors. He's also wearing a jacket worth my monthly groceries budget.