Saket Choudhary

Hi @linqiaozhi, I have updated the seurat version based on your wrapper: https://github.com/satijalab/seurat/pull/3281. Happy to hear your comments, thanks!

This can now be closed as https://github.com/satijalab/seurat/pull/3281 has been merged in the `develop` version and should be in the next release (Current release is at 3.2). For anyone else bumping...

@cornhundred - I think Colab now uses Python 3.7 by default so it should hopefully work if you replace `3.6` by `3.7` - though I haven't tested if the above...

Thanks for creating a reproducible example. My guess is a long list of ids is causing SRA to timeout. I would suggest processing it in batches just the way you...

Sorry, I have had issues handling this universally in the past when the output is written to the terminal. However, if you choose to write the output to the disk...

thanks @ChongLC! I have fixed this on the master branch.

Thanks for the PR @Maarten-vd-Sande! I will pass it through some quick tests and also check what is going on with ENA links - thanks for bringing it to my...

Sorry for not being able to catch up with this @Maarten-vd-Sande. I am not quite sure why the tests fail, I will try to take a look at it this...

That is correct - the results reflect what we see on the search page: https://www.ncbi.nlm.nih.gov/gds/?term=GSM1155957 We could handle this internally, but for now I would recommend subsetting based on exact...

Thanks for the bug report @kpj! I think the reason this bug results in two runs is because that happens when you also search it via the NCBI-SRA website. For...