Before running ModelPolisher for the first time from source or building with maven, please run configurSQLiteDB.sh, which is located in the scripts directory.
This will extract the provided db and create the Indices. Packing of the db into the jar is then done by Maven.
Zip and Python are required for this to work.
If you want to convert your running instance of a PostgreSQL BiGGDB into a SQLite db usable with Modelpolisher,
run convertToSQLite.sh from the scripts folder. The finished bigg.sqlite db will be placed in resources/edu/ucsd/sbrg/bigg,
where ModelPolisher can find and use it. This will overwrite the db present at this location (from configureSQLiteDB.sh).
Python and sqlite3 are required for this to work.
As the paths in those scripts are relative, they only work correctly if run from the scripts folder.