Fix Docker image: install NatureDataCubeR package

.dockerignore

@@ -0,0 +1,9 @@
+.git
+.gitignore
+.env
+.Rproj.user
+.Rhistory
+.RData
+tests/
+README.md
+LICENSE

.env.example

@@ -1,3 +1,3 @@
 NDC_TOKEN=your_token_here
-AGRO_DATA_TOKEN=gettokenat_https://ndc-test.containers.wur.nl
+ADC_TOKEN=gettokenat_https://ndc-test.containers.wur.nl
 SHINY_APP_BASE_URL=/naturedatacube

Dockerfile

@@ -1,33 +1,38 @@
-# Use a base image with R and Shiny
-FROM rocker/shiny:latest
-
-# Install system libraries needed by some R packages
-RUN apt-get update && apt-get install -y \
-    libcurl4-openssl-dev \
-    libxml2-dev \
-    libssl-dev \
-    libgeos-dev \
-    libgdal-dev \
-    libproj-dev \
-    libudunits2-dev \
-    && rm -rf /var/lib/apt/lists/*
-
-# Install required R packages (leaflet.extras from GitHub — not on CRAN for R 4.5+)
-RUN R -e "install.packages(c( \
-    'shiny', 'leaflet', 'sf', 'dplyr', 'purrr', \
-    'stringr', 'httr', 'geojsonsf', 'jsonlite', 'zip', 'here', 'terra', \
-    'lubridate', 'tools', 'tibble', 'shinyjs', 'rstac', 'remotes' \
-), repos='https://packagemanager.posit.co/cran/__linux__/noble/latest')" && \
-    R -e "remotes::install_github('bhaskarvk/leaflet.extras')"
-
-# Copy app code and data — retrieval_functions must land inside the app dir
-# so that here::here() resolves paths correctly at runtime
-COPY R/naturedatacube_app  /srv/shiny-server/naturedatacube_app
-COPY R/retrieval_functions /srv/shiny-server/naturedatacube_app/R/retrieval_functions
-COPY data                  /srv/shiny-server/naturedatacube_app/data
-
-# Expose the port Shiny uses
-EXPOSE 3838
-
-# Command to run the app
-CMD ["R", "-e", "shiny::runApp('/srv/shiny-server/naturedatacube_app', host='0.0.0.0', port=3838)"]
+# Use a base image with R and Shiny
+FROM rocker/shiny:latest
+
+# Install system libraries needed by some R packages
+RUN apt-get update && apt-get install -y \
+    libcurl4-openssl-dev \
+    libxml2-dev \
+    libssl-dev \
+    libgeos-dev \
+    libgdal-dev \
+    libproj-dev \
+    libudunits2-dev \
+    && rm -rf /var/lib/apt/lists/*
+
+# Install required R packages (leaflet.extras from GitHub — not on CRAN for R 4.5+).
+# DESCRIPTION has no Imports field, so the package's dependencies are installed
+# explicitly here rather than resolved by R CMD INSTALL.
+RUN R -e "install.packages(c( \
+    'shiny', 'leaflet', 'sf', 'dplyr', 'purrr', \
+    'stringr', 'httr', 'geojsonsf', 'jsonlite', 'zip', 'here', 'terra', \
+    'lubridate', 'tools', 'tibble', 'shinyjs', 'rstac', 'remotes' \
+), repos='https://packagemanager.posit.co/cran/__linux__/noble/latest')" && \
+    R -e "remotes::install_github('bhaskarvk/leaflet.extras')"
+
+# Install the NatureDataCubeR package itself. This puts the Shiny app
+# (inst/shiny/naturedatacube_app) and bundled data (inst/extdata) on the
+# package's installed path, so library(NatureDataCubeR) and
+# system.file(...) resolve at runtime.
+COPY . /tmp/NatureDataCubeR
+RUN R CMD INSTALL --no-multiarch --with-keep.source /tmp/NatureDataCubeR \
+    && rm -rf /tmp/NatureDataCubeR
+
+# Expose the port Shiny uses
+EXPOSE 3838
+
+# Launch the app via the package's own launcher, which locates the app dir
+# with system.file(). SHINY_APP_BASE_URL (from .env) sets the proxy path.
+CMD ["R", "-e", "NatureDataCubeR::ndc_shiny(host='0.0.0.0', port=3838)"]