mcahn

stereo_chemical_props.txt is not found

2

The file stereo_chemical_props.txt, which is read by alphafold/common/residue_constants.py is not found. This is because that path is presumed to be in the current directory, which would only by the case...

I ran download_all.sh. When it got to the script download_pdb_mmcif.sh, it failed with this error: `mv: cannot stat ‘.../alphafold/pdb_mmcif/raw/*/*.cif’: No such file or directory ` This seems to be because...

GPU Memory Usage and MIG

1

Our cluster includes nodes that each have four 80 GB A100 GPUs, as well as older nodes that each have four 32 GB V100 GPUs. We are considering splitting up...

How to pass arguments containing minus signs

1

I'm attempting to run Baysor with prior segmentation. Unfortunately my Julia skills are lacking. If I use the prebuilt binary version 0.7.1 under Linux, like this: ``` baysor run \...

On this page: https://github.com/kharchenkolab/Baysor/blob/master/examples/osm-FISH/README.md there are two wget commands: wget -P data http://pklab.med.harvard.edu/viktor/baysor/osm_fish/mRNA_coords_raw_counting.csv wget -P data http://pklab.med.harvard.edu/viktor/baysor/osm_fish/centers_from_segmentation.csv These just download a bit of html. They do not download the data.