Species page

.dockerignore

@@ -0,0 +1,34 @@
+# Include any files or directories that you don't want to be copied to your
+# container here (e.g., local build artifacts, temporary files, etc.).
+#
+# For more help, visit the .dockerignore file reference guide at
+# https://docs.docker.com/go/build-context-dockerignore/
+
+**/.DS_Store
+**/__pycache__
+**/.venv
+**/.classpath
+**/.dockerignore
+**/.env
+**/.git
+**/.gitignore
+**/.project
+**/.settings
+**/.toolstarget
+**/.vs
+**/.vscode
+**/*.*proj.user
+**/*.dbmdl
+**/*.jfm
+**/bin
+**/charts
+**/docker-compose*
+**/compose.y*ml
+**/Dockerfile*
+**/node_modules
+**/npm-debug.log
+**/obj
+**/secrets.dev.yaml
+**/values.dev.yaml
+LICENSE
+README.md

.gitignore

@@ -7,3 +7,6 @@
 
 e2e/npm-debug.log
 
+**/.tmp/**
+**/.temp/**
+

Dockerfile

@@ -0,0 +1,63 @@
+# syntax=docker/dockerfile:1
+
+# Comments are provided throughout this file to help you get started.
+# If you need more help, visit the Dockerfile reference guide at
+# https://docs.docker.com/go/dockerfile-reference/
+
+# Want to help us make this template better? Share your feedback here: https://forms.gle/ybq9Krt8jtBL3iCk7
+
+################################################################################
+# Pick a base image to serve as the foundation for the other build stages in
+# this file.
+#
+# For illustrative purposes, the following FROM command
+# is using the alpine image (see https://hub.docker.com/_/alpine).
+# By specifying the "latest" tag, it will also use whatever happens to be the
+# most recent version of that image when you build your Dockerfile.
+# If reproducibility is important, consider using a versioned tag
+# (e.g., alpine:3.17.2) or SHA (e.g., alpine@sha256:c41ab5c992deb4fe7e5da09f67a8804a46bd0592bfdf0b1847dde0e0889d2bff).
+FROM alpine:latest as base
+
+################################################################################
+# Create a stage for building/compiling the application.
+#
+# The following commands will leverage the "base" stage above to generate
+# a "hello world" script and make it executable, but for a real application, you
+# would issue a RUN command for your application's build process to generate the
+# executable. For language-specific examples, take a look at the Dockerfiles in
+# the Awesome Compose repository: https://github.com/docker/awesome-compose
+FROM base as build
+RUN echo -e '#!/bin/sh\n\
+echo Hello world from $(whoami)! In order to get your application running in a container, take a look at the comments in the Dockerfile to get started.'\
+> /bin/hello.sh
+RUN chmod +x /bin/hello.sh
+
+################################################################################
+# Create a final stage for running your application.
+#
+# The following commands copy the output from the "build" stage above and tell
+# the container runtime to execute it when the image is run. Ideally this stage
+# contains the minimal runtime dependencies for the application as to produce
+# the smallest image possible. This often means using a different and smaller
+# image than the one used for building the application, but for illustrative
+# purposes the "base" image is used here.
+FROM base AS final
+
+# Create a non-privileged user that the app will run under.
+# See https://docs.docker.com/go/dockerfile-user-best-practices/
+ARG UID=10001
+RUN adduser \
+    --disabled-password \
+    --gecos "" \
+    --home "/nonexistent" \
+    --shell "/sbin/nologin" \
+    --no-create-home \
+    --uid "${UID}" \
+    appuser
+USER appuser
+
+# Copy the executable from the "build" stage.
+COPY --from=build /bin/hello.sh /bin/
+
+# What the container should run when it is started.
+ENTRYPOINT [ "/bin/hello.sh" ]

README.Docker.md

@@ -0,0 +1,17 @@
+### Building and running your application
+
+When you're ready, start your application by running:
+`docker compose up --build`.
+
+### Deploying your application to the cloud
+
+First, build your image, e.g.: `docker build -t myapp .`.
+If your cloud uses a different CPU architecture than your development
+machine (e.g., you are on a Mac M1 and your cloud provider is amd64),
+you'll want to build the image for that platform, e.g.:
+`docker build --platform=linux/amd64 -t myapp .`.
+
+Then, push it to your registry, e.g. `docker push myregistry.com/myapp`.
+
+Consult Docker's [getting started](https://docs.docker.com/go/get-started-sharing/)
+docs for more detail on building and pushing.

compose.yaml

@@ -0,0 +1,52 @@
+# Comments are provided throughout this file to help you get started.
+# If you need more help, visit the Docker Compose reference guide at
+# https://docs.docker.com/go/compose-spec-reference/
+
+# Here the instructions define your application as a service called "app".
+# This service is built from the Dockerfile in the current directory.
+# You can add other services your application may depend on here, such as a
+# database or a cache. For examples, see the Awesome Compose repository:
+# https://github.com/docker/awesome-compose
+services:
+  app:
+    build:
+      context: .
+      target: final
+    # If your application exposes a port, uncomment the following lines and change
+    # the port numbers as needed. The first number is the host port and the second
+    # is the port inside the container.
+    # ports:
+    #   - 8080:8080
+
+    # The commented out section below is an example of how to define a PostgreSQL
+    # database that your application can use. `depends_on` tells Docker Compose to
+    # start the database before your application. The `db-data` volume persists the
+    # database data between container restarts. The `db-password` secret is used
+    # to set the database password. You must create `db/password.txt` and add
+    # a password of your choosing to it before running `docker compose up`.
+    #     depends_on:
+    #       db:
+    #         condition: service_healthy
+    #   db:
+    #     image: postgres
+    #     restart: always
+    #     user: postgres
+    #     secrets:
+    #       - db-password
+    #     volumes:
+    #       - db-data:/var/lib/postgresql/data
+    #     environment:
+    #       - POSTGRES_DB=example
+    #       - POSTGRES_PASSWORD_FILE=/run/secrets/db-password
+    #     expose:
+    #       - 5432
+    #     healthcheck:
+    #       test: [ "CMD", "pg_isready" ]
+    #       interval: 10s
+    #       timeout: 5s
+    #       retries: 5
+    # volumes:
+    #   db-data:
+    # secrets:
+    #   db-password:
+    #     file: db/password.txt

src/API/Dockerfile

@@ -63,3 +63,4 @@ COPY --from=builder /usr/src/app/colormap.txt .
 ENTRYPOINT ["/entrypoint.sh"]
 # Start the server using the production build
 CMD [ "node", "dist/src/main.js" ]
+