fix(setup): fixes for make setup

[noelmcloughlin]

This PR seems to fix the following issues with make setup procedure:

1. Makefile bad substitution (and remove some trailing white spaces)
2. poetry install complaining not a git project #33

(baselink-py3.10) ~/git/hub/projects/baselink/baselink$ make setup
./utils/get-value.sh: 4: Bad substitution
./utils/get-value.sh: 4: Bad substitution
poetry install

This does not appear to be a Git project

[noelmcloughlin]

Unfortunately my PR solves Step 4 but breaks Step 8 due to nested .git/ directories.

Step 4: Run git init in directory ./linkml-projects/ solves #33 OK
Step 5: OK
Step 6: OK
Step 7: OK
Step 8: NOK

cd  ./linkml-projects/my-awesome-schema/
git remote add origin https://github.com/my-user-or-organization/my-awesome-schema.git
git branch -M main
git push -u origin main

error: 'main/' does not have a commit checked out

The solution for Step 8 is unsatisfying but effective!!

rm -fr ../.git               #  revert what we done for step 4 = fix the error above
git remote add origin https://github.com/my-user-or-organization/my-awesome-schema.git
git branch -M main
git push -u origin main

Suggestions welcome!

[cmungall]

I think the changes to the Makefile are good - maybe separate these out?

As for the README instructions, I think we need to revisit these as a whole as getting setup is still more complex than it needs to be

[noelmcloughlin]

Closed for now: #36