User: sviatoslav.kendall

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Posts by sviatoslav.kendall

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Comment: C: Can't install DESeq2 via Docker container because of dependency issues
... I just got the error message you've posted when trying to run a similarly developed docker image using a command like: docker run Whereas I typically run these sorts of docker images interactively with a command like: docker run -it bash ...and then run an Rscript inside the docker imag ...
written 10 weeks ago by sviatoslav.kendall770
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Comment: C: Can't install DESeq2 via Docker container because of dependency issues
... Sorry, I haven't got much experience calling R scripts from inside Python and I don't know what to make of that error message either. ...
written 11 weeks ago by sviatoslav.kendall770
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Answer: A: Can't install DESeq2 via Docker container because of dependency issues
... Try using one of [Bioconductor's own Docker containers][1] as a starting point and then modify the install.R script to include DESeq2 and any required dependencies. Here's an example of a modified Dockerfile and install.R script I made recently that seems to work OK. Dockerfile FROM bioconduct ...
written 11 weeks ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... > I'll acknowledge that some of my direct responses to the original > poster could have been more diplomatic, And I will acknowledge that I also could have been more diplomatic with you. Sorry about that. Despite our disagreements, I'm much more interested fostering a productive discussion th ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... This is really interesting. I agree with a lot of the suspicion and cynicism you've expressed even though I draw some different conclusions than you do. Certainly governments, non-profits and businesses alike have been known to exaggerate and even manufacture crises for the purpose of manipulating t ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... > the scariest widely acknowledged manmade atmospheric near-disaster to > date What are you referring to? I re-read every comment you've made on this page and I don't see any that answers this question. My best guess is that you're talking about ozone depletion but I'd rather be clear about w ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... Thanks for sharing that interesting link about a volcanic repution. Are you sure that eruption "dwarfs" the scale of human activity though? The Wikipedia page you linked cites emissions as high as 120 teragrams which I understand to be equal to 120,000,000 metric tons (or "tonnes" as they're sometim ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... It's good to be skeptical of claims made in "top-tier" publications like Nature but I think it only makes sense to base such skepticism on the *substance* of what they published rather than their "top-tier" status. Are there any claims made in that article about "tipping point events" that you think ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... Here's an [article published in Nature][1] that disagrees with your assertions about urgency. Seems to me the root of the disagreement comes down to how concerned you are about **"tipping point" events**. Personally, I'm very concerned because I suspect that many of the projections we've seen have b ...
written 3 months ago by sviatoslav.kendall770
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Comment: C: Bioinformatics vs. the Climate Crisis
... Interesting take. Would you mind unpacking that a bit for us in an "Answer"? Maybe provide an example of inefficient code alongside an explanation of how much energy is wasted running it on an input file of size X. Could be a pretty strong motivator for someone to realize, "Oh wow, that job I ran ov ...
written 3 months ago by sviatoslav.kendall770

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