Milot Mirdita

That sounds like a bug from our side. As a workaround, you can also set the `MMSEQS_NUM_THREADS` environment variable. That should globally restrict the number of threads: `MMSEQS_NUM_THREADS=8 ./tests/test.sh`

Since Plass can reuse each read in every iteration. It tends to create a lot of variation that are not necessarily useful. We generally use `mmseqs linclust` to remove fragments...

I think this was a Safari specific issue within Google Colaboratory where the upload box just won’t work. I recommend using Firefox.

Yes, newer localcolabfold versions allow you to specify the strings as one of: ``` mmseqs2_uniref_env mmseqs2_uniref single_sequence ```

We finally have actual Docker images on the GitHub container registry that we are going to keep maintaining from now on: https://github.com/sokrypton/ColabFold/pkgs/container/colabfold I don't know about singularity. If you have...

I also just tried the Docker container together with singularity and it seems to work fine. I updated the guide above. I am not making a separate Singularity container for...

I thought I replaced all shell magic. I also tried to find the root cause but gave up when iI had to cross into openmms native code. I’ll take a...

Which notebook are you running with what settings?

The API has a time limit after which jobs are cancelled. Your query has likely hit that limit. I don't think that AF2 will deal well with this protein anyway,...