Keith Ching

For Visium 2.0, there's a header line for tissue_positions.csv, if you delete the header line and copy to tissue_positions_list.csv it doesn't throw the index error.

you can also limit the CPU available per thread by xgboost by setting the environmental variable before running R export OMP_NUM_THREADS=1

Hi, the main problem I have with the installation is that my nvidia cuda drivers are 12.1. So if I use a docker container with pytorch for 12.1 and I...

seems to come from the torchdata package.. it downgrades to torch2.0.1 and then cuda11.. root@d6088c2b9744:/workspace# pip show torch Name: torch Version: 2.1.0a0+fe05266 ... root@d6088c2b9744:/workspace# pip3 install torchdata Looking in indexes:...

is it possible to swap out for torchdatasets https://github.com/szymonmaszke/torchdatasets

something else also wants torch besides torchdata. So, upgrading it is unlikely to fix it.. #31 17.71 Requirement already satisfied: torchdata==0.6.1 in /usr/local/lib/python3.8/dist-packages (from torchtext>=0.14.0->scgpt==0.1.2.post1) (0.6.1) #31 17.94 Collecting torch>=1.8.0...