Bede Constantinides

Argument name suffixes as workaround for name collisions

4

Hi, I really like defopt! It's my new go-to CLI library 🙏 One feature I miss from Argh (I think?) is the ability to modify argument names such that the...

**Describe the bug** When using custom dataframe checks returning boolean series, `SchemaModel.validate()` does not report validation errors generated by a custom check if the record in question (or is it...

Ability to report a single failure per row for row-level check functions returning boolean series

3

**Is your feature request related to a problem? Please describe.** As established by conversation with @cosmicBboy on Discord, the current handling of custom check functions operating on the whole DataFrame...

ruamel PendingDeprecationWarning

5

Hi! I'm a huge fan of strictyaml, thank you for releasing and maintaining it. Just FYI. ``` /Users/bede/conda/envs/konsteltest/lib/python3.9/site-packages/strictyaml/parser.py:280: PendingDeprecationWarning: load will be removed, use yaml=YAML(typ='unsafe', pure=True) yaml.load(...) instead document =...

Fix broken OCA link, add pip install option to README

1

1. 404ing link to Oracle Contributor Agreement updated to https://oca.opensource.oracle.com/ 2. Those not wishing or unable to install the Homebrew package manager may install the oci-cli PyPI package directly using...

Mash screen's output format makes parsing slow at scale

3

Parsing mash screen output (in Pandas at least) is slowed considerably by the use of decimal fractions, parsed initially as a strings, requiring time consuming string wrangling/evaluation in order to...

How to use -F option?

3

I am struggling to understand the useful looking `-F` option, which allows one to pass a fasta file from which k-mers are extracted and used as reads. I suspect I...

Paths can be overridden using environment variables on Linux, but not MacOS?

9

Thanks for creating platformdirs. I was [surprised](https://github.com/bede/hostile/issues/32#issuecomment-1978573436) to learn that while on Linux, `user_data_dir()` can be overridden with `$XDG_DATA_HOME` ([unix.py](https://github.com/platformdirs/platformdirs/blob/16f93e2dc69c18137437a94f19f8b9cc090bfd93/src/platformdirs/unix.py#L42)), it cannot be overridden on MacOS ([macos.py](https://github.com/platformdirs/platformdirs/blob/16f93e2dc69c18137437a94f19f8b9cc090bfd93/src/platformdirs/macos.py#L24)). It would be...

`docker: Error: image library/ra-integrate:latest not found.`

1

Hi there, `docker run -t -i -v ~/shared_dir:/data ra-integrate bash` isn't working for me. Can you suggest what might be going wrong? Thanks, Bede Full output: ``` $ docker pull...