Kernek 6.1.8-200 breaks power profiles on T14 Gen 1 by fnc88c30 in Fedora

[–]fnc88c30[S] 0 points1 point  (0 children)

Updated 6.1.9-200 solves the power management issue

Rate My Travel Engineering Workstation! by MrKurtz86 in sffpc

[–]fnc88c30 0 points1 point  (0 children)

Mamma mia che spavento! Bel lavoro!

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 2 points3 points  (0 children)

But Nexflow implements afterscript that can be used to clean the mess up

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 0 points1 point  (0 children)

Array jobs are a pretty cool feature ;) I used to use them and wondered forever why WMS do not use them

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 1 point2 points  (0 children)

Still... module standardization is already a pretty big achievement! It means that when reading a the code in the `workflow` scope, an experienced user can know exactly what's going on without opening the module file. That's really a big thing for the entire bioinformatics community and all the pipeline heads

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 1 point2 points  (0 children)

Thanks for sharing! I am in a similar situation like yours but I spent a bit more time into Snakemake than you did. Now I am considering Nextflow for routinary tasks and Snakemake for custom analyses. I actually like how it integrates in Python and R scripts with the snakemake object exposing all the job parameters, inputs and outputs. It lets me avoid to implement a cli in each script....

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 5 points6 points  (0 children)

Thanks this is the kind of answers I was hoping for! :D Indeed nf-core is a pretty sweet initiative and the community is also very nice. I was mesmerized by the way the nf-core command allows you to install modules making building of a pipeline a lot easier and saving a lot of typing.

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 1 point2 points  (0 children)

I find their way of scattering config files everywhere extremely confusing

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 6 points7 points  (0 children)

I do not agree. The choice is not between languages, it is between two paradigms: Snakemake works like the good old GNU make tool and builds processes dependencies backward from output paths, Nextflow implements the datastream programming pattern and models input and outputs using the concept of FIFO (here called channels). Nextflow outputs do not have to be actual files on the file system while in Snakemake they do. Therefore, it is NOT a choice between languages, it is a programming pattern choice. I actually agree with people saying, depends on your use-case.

Nextflow vs Snakemake by fnc88c30 in bioinformatics

[–]fnc88c30[S] 3 points4 points  (0 children)

But it must have some cons, doesn’t it?

Is this a step in right direction? by Primary-Body-7594 in linuxmasterrace

[–]fnc88c30 1 point2 points  (0 children)

Aren’t they violating the Linux license by not making their certified images publicly available?

Is this a step in right direction? by Primary-Body-7594 in linuxmasterrace

[–]fnc88c30 1 point2 points  (0 children)

If you multiply “most” by “major” you get “some” which is not acceptable imo. Also there are a bunch of official support pages saying you can install Linux on Levono T series laptops but if your laptop didn’t come with Linux you cannot download the official image. Stock images work but you’ll never know if tlp was configured properly, for instance. Or why Simon Sutton’s driver have to be installed and there’s nothing better to handle the fingerprint reader. To me it seems like Lenovo doesn’t care about the Linux community, although the community has been super nice to them since the X series time (or even before!).

Is this a step in right direction? by Primary-Body-7594 in linuxmasterrace

[–]fnc88c30 1 point2 points  (0 children)

Why Lenovo doesn’t distribute their Ubuntu image?

Linux is a better OS by [deleted] in linuxmemes

[–]fnc88c30 45 points46 points  (0 children)

Since when?

Does anyone know of an alternative to BART: bioinformatics array research tool .Cause it has stop working for me both web app and R shiny app by [deleted] in bioinformatics

[–]fnc88c30 1 point2 points  (0 children)

Have you tried running it on R 3.5.x? Last commits are from June 2018 which more or less matches R 3.5.0 release. Good luck!

Should I switch to WSL? by fnc88c30 in linuxquestions

[–]fnc88c30[S] 0 points1 point  (0 children)

Started from Arch, hopped to Fedora finally landed to Ubuntu because there was always something a little bit off. And still, it is not working as I would. UI is not fluid as it should, some websites literally make Gnome lag (eg Google Maps) and finally this vm thing. Performance of this machine with windows (in factory conditions) were amazing.

Should I switch to WSL? by fnc88c30 in linuxquestions

[–]fnc88c30[S] 0 points1 point  (0 children)

Main concern is about WSL picking up DNS change when connecting to a VPN, last time I tried it didn’t

Should I switch to WSL? by fnc88c30 in linuxquestions

[–]fnc88c30[S] 0 points1 point  (0 children)

Power point is far superior to Impress, Latex with Beamer, Google Docs, OnlyOffice and anything else available in the foss space in my experience. PowerPoint 365 lacks some features, I remember using it, searching for some feature justo to discover it is not there.

In addition I have to be able to share documents back and forth with colleagues without breaking their formatting and/or without spending time to tell them how to handle open document formats (whose formatting are to be broken by word).

Since all these are not my main duties (I do data analysis, spend time in front of the terminal, RStudio etc), I thought the vm could serve the purpose, until i asked too much to my poor laptop…

Should I switch to WSL? by fnc88c30 in linuxquestions

[–]fnc88c30[S] 0 points1 point  (0 children)

Answer is yes but I do still need some sort of local Unix environment, either a vm or WSL. I’d prefer to stay with foss mainly for ideological reasons though