Jay Carey

[feature] Add a tool to get percentage of bases falling in each interval by name.

1

Currently this expects single ended reads or paired end template reads to be full enclosed within an interval by name in order for it to be counted for that interval.

When using [`s3Path`](https://github.com/liormizr/s3path) this open doesn't properly parse the URI to and S3Path. Using `path.open` ensures the underlying `Path` class is opened correctly.

CPU and memory resource detection should be Docker container aware.

1

### Background: Docker can put memory and cpu limits on processes running inside of containers that are a subset of all system resources. However, the current resource detection in dagr...

- Update to latest snakemake - Update minimum to python 3.10 - Remove deprecated `setup.py` in favor of `pyproject.toml` - Updated dependencies to latest version - Fix tests for new...

Replicated the `Alignment` class from `fgbio`