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Provide instructions for downloading images #67

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shntnu opened this issue May 9, 2023 · 1 comment
Open

Provide instructions for downloading images #67

shntnu opened this issue May 9, 2023 · 1 comment
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cpg0016 documentation Improvements or additions to documentation

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@shntnu
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shntnu commented May 9, 2023

I’m pretty new to boto3 and mostly following the template in the Jupyter notebook where images are downloaded one-by-one. This mostly seems ok download speed wise if I parallelize with multiple workers, but it seems to have a nasty habit of hanging at times and needing a reset – I’m not sure if I’m being throttled trying to access files systematically like this. Let me know if I am doing something terrible that I should not be doing, and if you’d have any better guidance.

We recommend doing this:

https://github.com/jump-cellpainting/2023_Chandrasekaran_submitted#step-1-download-cell-images

@shntnu shntnu added documentation Improvements or additions to documentation cpg0016 labels May 9, 2023
@ErinWeisbart
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We provide more comprehensive download instructions in the Cell Painting Gallery as well.
https://github.com/broadinstitute/cellpainting-gallery/blob/main/download_instructions.md

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Labels
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