Oleksandr

- You can specify different sample id. By default it is 'sample_name' (This functionality works fine) - to get sample by id (whether it is `sample_name` or other id) you...

There is a reason why we don't want to do that. This change was made in this commit: https://github.com/pepkit/peppy/commit/3d5495b0241a117cdfb07ee60e15c6a3e2a516eb So I think this is correct behaviour

This issue should be solved together with #465

In my opinion, pephubclient shouldn't be part of peppy. 1) It will be harder to maintain these two things. 2) I want to avoid recursive dependency.

This issue was solved in https://github.com/pepkit/peppy/pull/409

after running this command: ``` eido convert /home/bnt4me/virginia/repos/peppy/tests/data/example_peps-master/example_nextflow_subsamples/project_config.yaml --f csv --st-index sample --sst-index sample >> new.csv ``` From my side eido produces correct csv file: [new.csv](https://github.com/user-attachments/files/16197508/new.csv) Closing this issue

This issue was solved, peppy Project object can be created by using simply csv file

I am not sure if it was fixed, but also I can't see pandas `append` function used anywhere. So I it's probably fixed.

This issue was solved in previous major release

#473