move yq commands out of project.Makefile and into a configuration file

[turbomam]

see

• https://github.com/microbiomedata/nmdc-schema/pull/1696

[mslarae13]

@turbomam what is left to do here if the PR is closed?

[mslarae13]

Depends on decision around schema vs submission-schema Mark said would take a few hours to complete.

yq vs sheets-and-friends decision also needed. vs tsv_in files (Patrick and Mark to decide method of managing /capturing these difference)

Blocked until decision made.

[turbomam]

This is somewhat in contradiction to

• https://github.com/microbiomedata/submission-schema/issues/39

I'm still feeling wishy-washy about more vs less use of yq

But this PR will make the project.Makefile easier to read.

[mslarae13]

@turbomam who should weigh in on making this decision?

[mslarae13]

Which .yaml manipulating methods are preferred?

yq files are handling the mapping of nmdc-schema to submissions-schema and come after sheets and friends.

• If it works and makes the correct translation, it's not high priority.
• would prefer this be done in a more uniform way.

Maintainability aspect would be easier if it was a standard shell script.