Overhaul gaiaCore to Postgres-Centric

.gitignore

@@ -1 +1,57 @@
-docs
+# IDE directories
+.idea/
+.vscode/
+
+# OS files
+.DS_Store
+Thumbs.db
+
+# Python
+__pycache__/
+*.py[cod]
+*$py.class
+*.so
+.Python
+env/
+venv/
+ENV/
+.venv
+pip-log.txt
+pip-delete-this-directory.txt
+.pytest_cache/
+.coverage
+htmlcov/
+
+# R
+.Rhistory
+.Rdata
+.RData
+.Ruserdata
+
+# Julia
+*.jl.cov
+*.jl.*.cov
+*.jl.mem
+
+# Java
+*.class
+*.jar
+*.war
+*.ear
+target/
+
+# Node.js (if applicable)
+node_modules/
+npm-debug.log
+yarn-error.log
+
+# Docker
+.env.local
+
+# Logs
+*.log
+
+# Temporary files
+*.tmp
+*.swp
+*~

Dockerfile

@@ -0,0 +1,62 @@
+FROM postgis/postgis:16-3.4-alpine
+
+# Install required packages
+RUN apk add --no-cache \
+    libintl \
+    gdal \
+    gdal-tools \
+    gdal-driver-pg \
+    postgresql-contrib \
+    curl \
+    ca-certificates \
+    git \
+    build-base \
+    postgresql-dev \
+    bc \
+    make \
+    g++ \
+    clang15 \
+    llvm15
+
+# Install plsh (PostgreSQL shell procedural language)
+RUN cd /tmp && \
+    git clone https://github.com/petere/plsh.git && \
+    cd plsh && \
+    make && \
+    make install && \
+    cd / && \
+    rm -rf /tmp/plsh
+
+# Create directories
+RUN mkdir -p /csv /app /sql /data
+
+# Install PostgREST
+ENV POSTGREST_VERSION=12.0.2
+RUN curl -L -o /tmp/postgrest.tar.xz \
+    "https://github.com/PostgREST/postgrest/releases/download/v${POSTGREST_VERSION}/postgrest-v${POSTGREST_VERSION}-linux-static-x64.tar.xz" && \
+    tar -xJf /tmp/postgrest.tar.xz -C /usr/local/bin && \
+    chmod +x /usr/local/bin/postgrest && \
+    rm /tmp/postgrest.tar.xz
+
+# Copy SQL initialization scripts
+COPY sql/*.sql /docker-entrypoint-initdb.d/
+
+# Copy PostgREST configuration
+COPY postgrest.conf /etc/postgrest/postgrest.conf
+
+# Copy helper scripts
+COPY scripts/init_gaiacore.sh /docker-entrypoint-initdb.d/99_init_gaiacore.sh
+
+# Expose PostgreSQL and PostgREST ports
+EXPOSE 5432 3000
+
+# Default environment variables
+ENV POSTGRES_DB=gaiacore
+ENV POSTGRES_USER=postgres
+ENV POSTGRES_PASSWORD=postgres
+ENV PGRST_DB_URI=postgresql://postgres:postgres@localhost:5432/gaiacore
+ENV PGRST_DB_SCHEMA=backbone,working
+ENV PGRST_DB_ANON_ROLE=postgres
+ENV PGRST_SERVER_PORT=3000
+
+

NEWS.md

@@ -1,3 +1,14 @@
+# gaiaCore Development Version 1.1.0
+
+Break apart the big PR and shift db functionality to gaiaDB and orchestration to gaiaDocker
+
+# gaiaCore Development Version 1.0.0
+
+Switch from an R-based approach to a PostGIS + PostgREST approach combined with JSON-LD representations of data sources in the gaiaCatalog.
+
+Also include connectors in multiple languages to interface with the PostgREST API and enable flexibility to use the tool in multiple environments.
+
+
 # gaiaCore Development Version 0.1.0
 
 The initial development version of gaiaCore starts with the version of the gaiaCore R Package that was presented at the 2024 Global OHDSI Symposium ([this commit](https://github.com/OHDSI/GIS/commit/601a1245fb33647c8b5b8101278edec8dcce5323)).