Note: This project is work in progress (very early stage), not intended for production use
The relevant files and directories are bioseqdb_pg/ and CMakeLists.txt. To work on the extension, install Postgres (including additional libraries, apt install postgresql postgresql-server-dev-all on Ubuntu, pacman -S postgresql on Arch) and CMake, and set up a Postgres instance (see Ubuntu docs or Arch docs).
Also, you need to compile and install SeqLib, which is used as an intermediate layer for BWA implementation. Follow the instructions in the .github/workflows/ci.yml file, which should work out exactly on Ubuntu. On Arch, you may need to delete const uint8_t rle_auxtab[8]; lines in bwa/ and fermi-lite/ dependencies inside SeqLib/ to fix mutiple symbol definitions errors.
To build and install the extension, create a build/ directory and run cmake .. from it. You can now build the extension by running the make command in the build directory, and install it with sudo make install. A typical development flow is running make && sudo make install && sudo systemctl restart postgresql. The entire process should take about a second.
After first installing the extension, you need to run CREATE EXTENSION bioseqdb; to load the additional types. If you modify the definitions of any SQL functions or types, remember to drop any affected tables, DROP EXTENSION bioseqdb CASCADE; and repeate the CREATE EXTENSION command.