Many Pkg commands are giving me
Warning: Some registries failed to update: │ — `~/.julia/registries/General` — registry dirty
] update does not work.
Looking at my
~/.julia/registries/General, there are files in
s/SAMtools that git thinks are modified. They remain modified even after a
git reset --hard. I finally deleted the repository and
git clone'ed it and got…
> git clone https://github.com/JuliaRegistries/General.git # ... warning: the following paths have collided (e.g. case-sensitive paths on a case-insensitive filesystem) and only one from the same colliding group is in the working tree: 'S/SAMTools/Compat.toml' 'S/SAMtools/Compat.toml' 'S/SAMTools/Deps.toml' 'S/SAMtools/Deps.toml' 'S/SAMTools/Package.toml' 'S/SAMtools/Package.toml' 'S/SAMTools/Versions.toml' 'S/SAMtools/Versions.toml'
I think this is my problem. I’m running on a Mac (which has a case insensitive file system). I see that there’s a commit regarding SAMTools a few hours ago. I think that’s messed things up.
Is there something I can do to get past this or do I need to wait for the repository in GitHub to be fixed?