fix: update README

chore: major file clean-up and README updates

fix: eta calculation

chores: file location, config set up, plot warning fix

feat: plot for eta subsystems

Merge pull request #13 from /optional_eta branch

adding run_eta_analysis.py

feat: plots for kmax vs in vitro kcat comparison

Merge pull request #12 for optional_FVA

revised run_fva parameter

feat: calculate eta as optional step

fix: add more free metabolites

chore: reorder files

feat: util function to constrain model with experimental medium and get growth value

fix: update fluxomics flie to parquet