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Share the final conda environment. #26
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Reminder to self - add R requirements file with all necessary packages. |
2 things:
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Hi Mike, okay, let's do that. |
Did you already try whether you can create a conda environment using this file? |
I've tried it just now, I can't, here's the message:
I think the issue is these parts |
Ok, my hypothesis was correct - after removing that part, only libfortran was not resolved (I've removed it, since it doesn't seem necessary). |
Re
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Hi Mike, I agree with the nbviewer and with shortening the name - not to just the figure number though, let's give the full notebook name. |
Re the environment, I had to add quite a few more packages for the R stuff, will share with you later. |
@Marius1311 do you have the new environment? Does it include stuff I mention in #39 ? |
@Marius1311 I think CellRank and scVelo should be in the conda environment (especifally the latter since I think you're using specific commit). As for CellRank, nothing I did changes the defaults so 1.0.0 is fine from my side - I think from yours it should be as well, since in the plotting, you're using |
Re conda environment - I am also able to succesfully create it on the server (now I'm testing R package installation, seems to be working well so far). Stil think we need to include CellRank and scVelo inside. |
Hi Mike, CellRank version 1.0.0 is fine from my side. As for scVelo, I run everything with 0.2.2, so feel free to include that. |
We do not need a specific commit hash for scVelo, version 0.2.2 is fine. |
Thanks, done via theislab/cellrank_reproducibility@963be76 |
Hi @michalk8 , I'm sending you my final conda environment in slack. |
Had to install a couple new packages, share the final version once we're done.
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