Fix tl.recover_dynamics #1059
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Fix tl.recover_dynamics #1059
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Hi, I literally copied-pasted the tutorial to try out, the only change I did was add this to account for the compatibility with python 3.10+. I get the same issue in both Jupyter notebook and when trying out the code directly in python. My conda envt is as follows: and conda info gives me: Thanks a lot for your help! |
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Hi @MarieCoutelier, did you install scVelo from main? |
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Hi Marius, I installed cellrank with conda (conda install -c conda-forge -c bioconda cellrank) and it took care of the scvelo dependency. The version that it installed is : When I try to update it with pip install -U scvelo it does not change, though the browser tab seems to say that the most updated version is 0.2.6.dev0+something. Thanks, |
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Yes, the PR was merged to master on scVelo and there hasn't been a release since, so you fill have to install scVelo from the master branch on github. |
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Stupid question, but how can I do that? but got the error message that there is no target for make. I could not find the answer in the README either... Thanks!! |
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Hi, So I tried installing scvelo from git with pip using I opened python, and tried importing scvelo. Here the error that I get : What can I do to fix this? |
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mh, that's a CellRank issue and has something to do with JAX and I think Apple silicon architectures - why do we get this here @michalk8? |
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Hi, I also tried installing everything on the computing cluster which is operated on CentOS 7. The pip install gave me the following error message: but scvelo 0.3.0 got installed (conda list). In python, I could still not import scvelo: I then tried correcting the jinja error with which correctly changed the version to 3.0.3, but did not solve the issue in python. So I'm unable to use scvelo in either my computer or the computing cluster, for now. Thanks a lot for your help! Marie |
Also, it happens to me. Therefore I just switched to python 3.8 |
This was referenced Dec 2, 2023
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scv.tl.recover_dynamicsRelated issues
Closes #1058