Can Ergen comments

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                                            Can Ergen

lightning dependency critical CVE - Update dependency list, especially for conda which is pinned below the CVE patch

To clarify, post2 upper bounds AnnData. The upper bound will be removed in scVI-tools 1.2. This was necessary to remain compatible with Python 3.9.

bug for custom classifier in adversarial training plan

Hi, thanks for trying to build on top of scVI-tools. To give a reasonable response, we will need more background than ‚custom classifier‘. What are you trying to do and...

bug for custom classifier in adversarial training plan

Closed due to inactivity.

feat(external): implement METHLYVI for scBS-seq data

Hi Ethan, taking over from Martin here. Can you help me with the definition of modalities. See my comments above. The rest LGTM.

feat(external): implement METHLYVI for scBS-seq data

My suggestion is that we will merge it with the biorxiv version and the tutorials?

feat(external): implement METHLYVI for scBS-seq data

Can yiu rebase to main? The tests should work now.

feat(external): implement METHLYVI for scBS-seq data

Hi @ethanweinberger thanks for the ping. One tiny comment. What's the status of the tutorial? We would release it with 1.3 but could merge it to main. @ori-kron-wis any blockers...

Unable connect dvc to Google Drive. Access blocked!

Hi, thanks for the suggested fix. I would like to be able to share uploaded dvc files from google-drive with users, who can't set this up. Files are to large...

Unable connect dvc to Google Drive. Access blocked!

@shcheklein Do you have any suggestion on how to output the URL instead of the file path from dvc on gdrive?

n_proteins Parameter in MultiVI Class

Yes, we changed the multiVI code after the initial release. The correct version of multiVI for reproducibility should be defined there. @marianogabitto can you otherwise suggest the correct versions.