.dockerignore

@@ -1,9 +0,0 @@
-modules/ml-pipeline/src/pipeline/data/predictions
-modules/ml-pipeline/src/pipeline/data/fit_predictions
-modules/ml-pipeline/src/pipeline/data/prepared_data
-modules/ml-pipeline/src/pipeline/data/model/allmodels
-modules/ml-pipeline/src/pipeline/metrics
-modules/ml-pipeline/src/pipeline/__pycache__
-modules/ml-pipeline/src/pipeline/.dvc
-modules/ml-pipeline/src/pipeline/analysis
-modules/ml-pipeline/src/pipeline/metrics

.github/workflows/Deploy.yml

@@ -1,127 +0,0 @@
-name: Sap Change Model Deploy
-
-on:
-  push:
-    branches: [ sap-dev, sap-prod, heat-dev, heat-prod, carbon-dev, carbon-prod]
-
-jobs:
-  deploy:
-    runs-on: ubuntu-latest
-
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v3
-
-      - name: Set up Python
-        uses: actions/setup-python@v2
-        with:
-          python-version: 3.10.12
-
-      - name: Install Serverless and plugins
-        run: |
-          npm install -g serverless@^3.38.0
-          npm install -g serverless-domain-manager@^7.3.8
-
-      - name: Install DVC
-        run: |
-          pip install --upgrade pip
-          pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
-
-      # Set up all of the secrets required for the deployment
-      - name: set secret prefix which is used across multiple steps
-        id: secret_prefix
-        run: |
-            # Convert branch name to uppercase and replace hyphens with underscores
-            echo "::set-output name=secret_prefix::$(echo "${{ github.ref_name }}" | tr 'a-z-' 'A-Z_')"
-
-      - name: Set domain name
-        id: set_domain
-        run: echo "::set-output name=domain::${{ secrets[format('{0}_DOMAIN_NAME', steps.secret_prefix.outputs.secret_prefix)] }}"
-
-      - name: Set ECR credentials
-        id: set_ecr_credentials
-        run: |
-          # Fetch the secret using the secret prefix
-          echo "::set-output name=ecr_uri::${{ secrets[format('{0}_ECR_URI', steps.secret_prefix.outputs.secret_prefix)] }}"
-
-      - name: Set S3 buckets
-        id: set_s3_buckets
-        run: |
-          # Fetch the secret using the secret prefix
-          echo "::set-output name=data_bucket::${{ secrets[format('{0}_DATA_BUCKET', steps.secret_prefix.outputs.secret_prefix)] }}"
-          echo "::set-output name=predictions_bucket::${{ secrets[format('{0}_PREDICTIONS_BUCKET', steps.secret_prefix.outputs.secret_prefix)] }}"
-
-      - name: Set stack_name
-        id: set_stack_name
-        run: |
-          # Take branch prefix and add "model" for stack name
-          stack_name=$( echo ${{ github.ref_name }} | awk -F"-" '{print $1}' | sed 's/$/model/g')
-          if [ -z "${stack_name}" ]; then
-            echo "::set-output name=stack_name::"
-          else
-            echo "::set-output name=stack_name::${stack_name}"
-          fi
-
-      - name: Set runtime_environment
-        id: set_runtime_environment
-        run: |
-          # Extract the suffix after the hyphen from the branch name
-          runtime_environment=$(echo "${{ github.ref_name }}" | awk -F'-' '{print $NF}')
-          echo "::set-output name=runtime_environment::$runtime_environment"
-
-      - name: AWS credentials for dev
-        if: ${{ steps.set_runtime_environment.outputs.runtime_environment }} == 'dev'
-        uses: aws-actions/configure-aws-credentials@v1
-        with:
-          aws-access-key-id: ${{ secrets.DEV_AWS_ACCESS_KEY_ID }}
-          aws-secret-access-key: ${{ secrets.DEV_AWS_SECRET_ACCESS_KEY }}
-          aws-region: eu-west-2
-
-      - name: AWS credentials for prod
-        if: ${{ steps.set_runtime_environment.outputs.runtime_environment }} == 'prod'
-        uses: aws-actions/configure-aws-credentials@v1
-        with:
-          aws-access-key-id: ${{ secrets.PROD_AWS_ACCESS_KEY_ID }}
-          aws-secret-access-key: ${{ secrets.PROD_AWS_SECRET_ACCESS_KEY }}
-          aws-region: eu-west-2
-
-      - name: DVC Pull
-        run: |
-          cd modules/ml-pipeline/src/pipeline
-          dvc pull -r ${{ steps.set_runtime_environment.outputs.runtime_environment }}
-
-      - name: Setup Docker
-        uses: docker/setup-buildx-action@v1
-
-      - name: Login to ECR
-        run: |
-          aws ecr get-login-password --region eu-west-2 | docker login --username AWS --password-stdin ${{ steps.set_ecr_credentials.outputs.ecr_uri }}
-
-      # Building and pushing Docker image with caching
-      - name: Build and push Docker image
-        uses: docker/build-push-action@v3
-        with:
-          context: .
-          file: ./deployment/Dockerfile.prediction.lambda
-          push: true
-          tags: ${{ steps.set_ecr_credentials.outputs.ecr_uri }}:${{ github.sha }}
-          cache-from: type=gha
-          cache-to: type=gha,mode=max
-          platforms: linux/amd64
-          provenance: false
-          build-args: |
-            RUNTIME_ENVIRONMENT=${{ steps.set_runtime_environment.outputs.runtime_environment }}
-
-      - name: Deploy to AWS Lambda via Serverless
-        env:
-          RUNTIME_ENVIRONMENT: ${{ steps.set_runtime_environment.outputs.runtime_environment }}
-          PREDICTIONS_BUCKET: ${{ steps.set_s3_buckets.outputs.predictions_bucket }}
-          DATA_BUCKET:  ${{ steps.set_s3_buckets.outputs.data_bucket }}
-          DOMAIN_NAME: ${{ steps.set_domain.outputs.domain }}
-          ECR_URI: ${{ steps.set_ecr_credentials.outputs.ecr_uri }}
-          GITHUB_SHA: ${{ github.sha }}
-          STACK_NAME: ${{ steps.set_stack_name.outputs.stack_name }}
-        run: |
-          # Deploy to AWS Lambda via Serverless
-          cd deployment
-          sls deploy --config serverless.yml --stage ${{ steps.set_runtime_environment.outputs.runtime_environment }} --verbose

.github/workflows/MLPipelineDevPipeline.yml

@@ -1,47 +0,0 @@
-name: Deployment for Dev Model
-
-on:
-  push:
-    tags:
-      - "**model#dev#*"
-
-permissions: write-all
-
-jobs:
-
-  Register-Prediction-Image-Dev:
-    runs-on: ubuntu-latest
-    steps:
-    - uses: actions/checkout@v3
-    - name: Install packages to retrieve artifacts
-      run: |
-        pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
-
-    - name: Retrieve artifacts (dvc.lock)
-      env:
-        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
-        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
-      run: |
-        cd modules/ml-pipeline/src/pipeline
-        dvc pull -r dev
-
-    - name: Build Prediction docker image (TODO - NEED LAMBDA IMAGE, need to add version from gto registry)
-      run: |
-        cd modules/ml-pipeline/src/
-        REGISTER_MODEL_NAME=$(echo ${{ github.event.pull_request.head.ref }} | awk -F"-" '{print $1}')
-        docker build . --file Prediction.Dockerfile --tag ${REGISTER_MODEL_NAME}
-
-    - name: ECR Login - Dev
-      env:
-        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
-        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
-      run: |
-        echo "LOGIN TO ECR"
-
-    - name: Push Prediction image to ECR - Dev
-      env:
-        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
-        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
-      run: |
-        echo "PUSH TO ECR"

.github/workflows/MLPipelinePostMerge.yml

@@ -10,9 +10,7 @@ on:
     types:
       - closed
     branches:
-      - "sap-dev"
-      - "heat-dev"
-      - "carbon-dev"
+      - "master"
 
 permissions: write-all
 
@@ -28,7 +26,7 @@ jobs:
     - name: Install packages to register model
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Register Model
       run: |
@@ -42,14 +40,7 @@ jobs:
         if [ -z "${latest_version}" ]; then
           increment_version="1.0.0"
         else
-          increment_version=$(echo ${latest_version} | awk 'BEGIN {
-              FS="\\."   # Set the field separator to a period
-              OFS="."    # Set the output field separator to a period
-          }
-          {
-              major = $1 + 1   # Increment the major version
-              print major, "0", "0"   # Print the new version
-          }')
+          increment_version=$(echo ${latest_version} | awk -F'.' '{OFS="."; $1+=1; print}')
         fi
 
         new_tag=${REGISTER_MODEL_NAME}@v${increment_version}
@@ -57,7 +48,7 @@ jobs:
         git tag -a ${new_tag} -m "Registering new Major Version"
         git push origin ${new_tag}
 
-        gto show --json > MODEL_REGISTRY.md
+        gto show > MODEL_REGISTRY.md
         git add .
         git commit -m "Update Registry"
         git push
@@ -73,7 +64,7 @@ jobs:
     - name: Install packages to register model
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Register Model
       run: |
@@ -87,14 +78,7 @@ jobs:
         if [ -z "${latest_version}" ]; then
           increment_version="0.1.0"
         else
-          increment_version=$(echo ${latest_version} | awk 'BEGIN {
-              FS="\\."   # Set the field separator to a period
-              OFS="."    # Set the output field separator to a period
-          }
-          {
-              minor = $2 + 1   # Increment the minor version
-              print $1, minor, "0"   # Print the new version
-          }')
+          increment_version=$(echo ${latest_version} | awk 'BEGIN{FS=OFS="."} {$2++; print}')
         fi
 
         new_tag=${REGISTER_MODEL_NAME}@v${increment_version}
@@ -102,7 +86,7 @@ jobs:
         git tag -a ${new_tag} -m "Registering new Minor Version"
         git push origin ${new_tag}
 
-        gto show --json > MODEL_REGISTRY.md
+        gto show > MODEL_REGISTRY.md
         git add .
         git commit -m "Update Registry"
         git push
@@ -118,7 +102,7 @@ jobs:
     - name: Install packages to register model
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Register Model
       run: |
@@ -132,14 +116,7 @@ jobs:
         if [ -z "${latest_version}" ]; then
           increment_version="0.0.1"
         else
-          increment_version=$(echo ${latest_version} | awk 'BEGIN {
-              FS="\\."   # Set the field separator to a period
-              OFS="."    # Set the output field separator to a period
-          }
-          {
-              patch = $3 + 1   # Increment the patch version
-              print $1, $2, patch   # Print the new version
-          }')
+          increment_version=$(echo ${latest_version} | awk 'BEGIN{FS=OFS="."} {$3++; print}')
         fi
 
         new_tag=${REGISTER_MODEL_NAME}@v${increment_version}
@@ -147,7 +124,7 @@ jobs:
         git tag -a ${new_tag} -m "Registering new Patch Version"
         git push origin ${new_tag}
 
-        gto show --json > MODEL_REGISTRY.md
+        gto show > MODEL_REGISTRY.md
         git add .
         git commit -m "Update Registry"
         git push
@@ -161,14 +138,14 @@ jobs:
     - name: Install packages to retrieve artifacts
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Retrieve artifacts (dvc.lock)
       env:
         AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
-        cd modules/ml-pipeline/src/pipeline
+        cd modules/ml-pipeline/src/pipeline/src
         dvc pull -r experiments
 
     - name: Push artifacts to Dev
@@ -176,7 +153,7 @@ jobs:
         AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
-        cd modules/ml-pipeline/src/pipeline
+        cd modules/ml-pipeline/src/pipeline/src
         dvc push -r dev
 
   Register-New-Model-Dev:
@@ -196,11 +173,12 @@ jobs:
     - name: Install packages to register model
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Register Model
       env:
-        TARGET_BRANCH: ${{ github.base_ref }}
+        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
+        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
 
         REGISTER_MODEL_NAME=$(echo ${{ github.event.pull_request.head.ref }} | awk -F"-" '{print $1}')
@@ -209,15 +187,15 @@ jobs:
         git config user.name "Github-Bot"
         git config user.email "Github-Bot@no-reply.com"
 
-        latest_dev_version=$(gto history ${REGISTER_MODEL_NAME} --asc --plain | awk '{print $NF}' | awk '/dev/' | awk 'END {print}')
+        latest_dev_version=$(gto history ${REGISTER_MODEL_NAME} --asc --plain | awk '{print $NF}' | awk '/dev/')
         if [ -z "${latest_dev_version}" ]; then
           increment_version="1"
         else
-          increment_version=$(echo ${latest_dev_version} | awk '{print $NF}' | awk -F"#" '{print $3}' | awk '{$1++; print}')
+          increment_version=$(echo ${latest_dev_version} | awk 'END{print}' | awk -F"#" '{print $3}' | awk '{$1++; print}')
         fi
 
         new_tag=${REGISTER_MODEL_NAME}#dev#${increment_version}
-        latest_version=$(gto show ${REGISTER_MODEL_NAME}@latest --ref | awk -F"@" '{print $2}')
+        latest_version=$(gto show model@latest --ref | awk -F"@" '{print $2}')
 
         echo ${new_tag}
 
@@ -228,11 +206,50 @@ jobs:
         git tag -a ${new_tag} -m "Assigning stage dev to artifact ${REGISTER_MODEL_NAME} version ${latest_version}"
         git push origin ${new_tag}
 
-        git checkout ${TARGET_BRANCH}
-        git fetch --all
-        git pull
+        # git checkout master
+        # git fetch --all
 
-        gto show --json > MODEL_REGISTRY.md
-        git add .
-        git commit -m "Update Registry"
-        git push origin ${TARGET_BRANCH}
+        # gto show > MODEL_REGISTRY.md
+        # git add .
+        # git commit -m "Update Registry"
+        # git push origin master
+
+
+  Register-Prediction-Image-Dev:
+    needs: [Promote-Artefacts-To-Dev, Register-New-Model-Dev]
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v3
+    - name: Install packages to retrieve artifacts
+      run: |
+        pip install --upgrade pip
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
+
+    - name: Retrieve artifacts (dvc.lock)
+      env:
+        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
+        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
+      run: |
+        cd modules/ml-pipeline/src/pipeline/src
+        dvc pull -r dev
+
+    - name: Build Prediction docker image (TODO - NEED LAMBDA IMAGE, need to add version from gto registry)
+      run: |
+        cd modules/ml-pipeline/src/pipeline/
+        REGISTER_MODEL_NAME=$(echo ${{ github.event.pull_request.head.ref }} | awk -F"-" '{print $1}')
+        docker build . --file Prediction.Dockerfile --tag ${REGISTER_MODEL_NAME}
+
+    - name: ECR Login - Dev
+      env:
+        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
+        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
+      run: |
+        echo "LOGIN TO ECR"
+
+    - name: Push Prediction image to ECR - Dev
+      env:
+        AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
+        AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
+      run: |
+        echo "PUSH TO ECR"

.github/workflows/MLPipelinePullRequest.yml

@@ -5,7 +5,7 @@ on:
   #   branches:
   #     - "model-**"
   pull_request:
-    branches: ["sap-dev", "heat-dev", "carbon-dev"]
+    branches: [ "master" ]
   label:
     types: ["created", "edited"]
 
@@ -44,19 +44,19 @@ jobs:
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Retrieve artifacts (dvc.lock)
       env:
         AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
-        cd modules/ml-pipeline/src/pipeline
+        cd modules/ml-pipeline/src/pipeline/src
         dvc pull -r experiments
 
     - name: Build Prediction docker Image
       run: |
-        cd modules/ml-pipeline/src/
+        cd modules/ml-pipeline/src/pipeline/
         docker build . --file Prediction.Dockerfile --tag prediction_test
 
     - name: Run Prediction docker container
@@ -72,14 +72,14 @@ jobs:
     - name: Install packages to retrieve artifacts
       run: |
         pip install --upgrade pip
-        pip install -r modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt
+        pip install -r modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt
 
     - name: Retrieve artifacts (dvc.lock)
       env:
         AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
       run: |
-        cd modules/ml-pipeline/src/pipeline
+        cd modules/ml-pipeline/src/pipeline/src
         dvc pull -r experiments
 
     - uses: actions/setup-python@v4
@@ -89,24 +89,13 @@ jobs:
         AWS_ACCESS_KEY_ID: ${{ secrets.ROBOT_AWS_ACCESS_KEY_ID }}
         AWS_SECRET_ACCESS_KEY: ${{ secrets.ROBOT_AWS_SECRET_ACCESS_KEY }}
         REPO_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-        TARGET_BRANCH: ${{ github.base_ref }}
       run: |
-        cd modules/ml-pipeline/src/pipeline
+        cd modules/ml-pipeline/src/pipeline/src
         echo "## Model metrics" > report.md
 
         # Compare metrics to master
-        git fetch --depth=1 origin ${TARGET_BRANCH}:${TARGET_BRANCH}
-        dvc metrics diff --md --all ${TARGET_BRANCH} >> report.md
-
-        echo "## Scenario comparison" >> report.md
-
-        cat metrics/scenario_table.md >> report.md
-
-        echo "" >> report.md
-
-        echo "## Scenario metrics" >> report.md
-
-        cat metrics/scenario_metrics.md >> report.md
+        git fetch --depth=1 origin master:master
+        dvc metrics diff --md --all master >> report.md
 
         cml comment create report.md
 

.pre-commit-config.yaml

@@ -10,10 +10,3 @@ repos:
     rev: 22.10.0
     hooks:
     -   id: black
--   repo: local
-    hooks:
-    -   id: dvc-push-experiment
-        name: DVC - Push to experiment to remote location (experiments)
-        entry: bash -c 'cd modules/ml-pipeline/src/pipeline && dvc push -r experiments || echo "Up to date!"'
-        language: system
-        verbose: true

MODEL_REGISTRY.md

@@ -1,34 +1,7 @@
-{
-    "model": {
-        "version": "v12.10.12",
-        "stage": {
-            "dev": "v11.10.12"
-        },
-        "registered": true,
-        "active": true
-    },
-    "sap": {
-        "version": "v0.14.0",
-        "stage": {
-            "dev": "v0.14.0"
-        },
-        "registered": true,
-        "active": true
-    },
-    "heat": {
-        "version": "v0.5.0",
-        "stage": {
-            "dev": "v0.5.0"
-        },
-        "registered": true,
-        "active": true
-    },
-    "carbon": {
-        "version": "v0.5.0",
-        "stage": {
-            "dev": "v0.5.0"
-        },
-        "registered": true,
-        "active": true
-    }
-}
+╒════════╤══════════╤═════════╕
+│ name   │ latest   │ #dev    │
+╞════════╪══════════╪═════════╡
+│ bob    │ v1.0.0   │ -       │
+│ model  │ v8.4.6   │ d24ca53 │
+│ temp   │ v0.0.1   │ v0.0.1  │
+╘════════╧══════════╧═════════╛

README.md

@@ -3,83 +3,9 @@
 Creating a ML-toolkit that can be reused:
 
 - ML pipeline:
-	- A generic pipeline that has data version control, experiment
+	- A dummy pipeline that has data version control, experiment 
 tracking and a model registry
 
 - ML monitoring:
 	- A bolt-on service that can implement model monitoring
 
-There are multiple protected branches which adapt the generic pipeline to produce different models:
-- sap-{dev/staging/prod}-**
-- heat-{dev/staging/prod}-**
-- carbon-{dev/staging/prod}-**
-
-These branches will differ by the configuration files that define the data used and the outputs of the ML-pipeline
-- There can be different additional logic for each branch but the pipeline will be the same.
-
-# Deployment
-
-Scripts associated to deployment can be found in the deployment/ folder.
-
-Deployment is automated via Github Actions, where a deployment is triggered by a push to one of the
-protected branch, with one of dev or prod as the suffix, describing the target environment.
-
-The github actions file will build and push a docker image to ECR and then deploy a lambda
-which produces predictions for the relevant model.
-
-In order for this to be set up, some key environment variables needs to be inserted into Github
-secrets. Each different model and protected branch has its own set of secrets which allows for flexibility
-between different pipelines.
-
-For example, for the branch sap-dev, the prefix=SAP_DEV, and the following secrets are:
-
-- {prefix}_ECR_URI, which is the URI of the ECR repository to push to. For example, for the
-   sap change model this is the lambda-sap-prediction-dev repository.
-- {prefix}_DOMAIN_NAME, is the custom domain name. This is likely going to be the same across the different
-   models, but is still included in the secrets for flexibility.
-- {prefix}_DATA_BUCKET, is the name of the s3 data bucket where data to be scored by the model is stored
-- {prefix}_MODEL_BUCKET, is the name of the s3 bucket where the model is stored
-- {prefix}_PREDICTIONS_BUCKET, is the name of the s3 bucket where the predictions are stored
-
-
-# Building and Testing the Prediction Lambda Function Locally
-TODO: Generalise these instructions for the various different pipelines
-
-This guide outlines the steps to build and test the Lambda function locally using Docker. These instructions assume you're working with a machine that has Docker installed.
-
-### Prerequisites
-Docker: Make sure Docker is installed and running on your machine.
-AWS Credentials: Ensure you have AWS credentials set up on your local machine, typically stored
-in ~/.aws/credentials.
-Root Directory: All commands should be run from the root directory of the repository.
-Step-by-Step Guide
-1. Building the Docker Image
-First, navigate to the root directory of the repository. Open a terminal and execute the following
-2. command to build the Docker image:
-
-```bash
-docker build -t sap -f deployment/Dockerfile.prediction.lambda .
-```
-
-This will build a Docker image tagged as sap_change using the Dockerfile.prediction.lambda located
-in the deployment directory.
-
-2. Running the Docker Image
-Once the image is built, you can run it using the following command:
-
-```bash
-docker run -p 9000:8080 -v ~/.aws/credentials:/root/.aws/credentials:ro -e RUNTIME_ENVIRONMENT=dev -e PREDICTIONS_BUCKET=retrofit-sap-predictions-dev sap
-```
-This command does the following:
-
-Maps port 9000 on your local machine to port 8080 on the Docker container.
-Mounts your AWS credentials into the Docker container in read-only mode.
-Sets the RUNTIME_ENVIRONMENT variable to dev.
-3. Testing the Lambda Function
-To test the Lambda function, use the following curl command:
-
-```json
-curl -XPOST "http://localhost:9000/2015-03-31/functions/function/invocations" -d '{"body": "{\"file_location\": \"s3://retrofit-data-dev/sap_change_model/one_sample_test_dataset.parquet\", \"property_id\": 1, \"portfolio_id\": 4, \"created_at\": \"now\"}"}'
-```
-
-This will send a POST request to the running Lambda function and pass in the required data as JSON.

deployment/.dockerignore

@@ -1,9 +0,0 @@
-modules/ml-pipeline/src/pipeline/data/predictions
-modules/ml-pipeline/src/pipeline/data/fit_predictions
-modules/ml-pipeline/src/pipeline/data/prepared_data
-modules/ml-pipeline/src/pipeline/data/model/allmodels
-modules/ml-pipeline/src/pipeline/metrics
-modules/ml-pipeline/src/__pycache__
-modules/ml-pipeline/src/.dvc
-modules/ml-pipeline/src/analysis
-modules/ml-pipeline/src/metrics

deployment/Dockerfile.prediction.lambda

@@ -1,25 +0,0 @@
-FROM public.ecr.aws/lambda/python:3.10
-
-# Set the working directory
-WORKDIR ${LAMBDA_TASK_ROOT}
-ENV PYTHONPATH "${PYTHONPATH}:${LAMBDA_TASK_ROOT}"
-
-# Environment variables
-ARG RUNTIME_ENVIRONMENT
-ENV RUNTIME_ENVIRONMENT=${RUNTIME_ENVIRONMENT}
-
-# Install necessary build tools - required to test locally
-RUN yum install -y gcc python3-devel gcc-c++
-
-# Install python packages
-COPY modules/ml-pipeline/src/pipeline/requirements/predictions/requirements.txt ./requirements.txt
-RUN pip install --no-cache-dir -r ./requirements.txt
-
-# Copy the project code
-COPY modules/ml-pipeline/src/pipeline ./pipeline
-# Copy the handler
-COPY deployment/handlers/prediction_app.py ./pipeline/prediction_app.py
-WORKDIR ${LAMBDA_TASK_ROOT}/pipeline
-
-
-CMD [ "prediction_app.handler" ]

deployment/handlers/prediction_app.py

@@ -1,123 +0,0 @@
-"""
-This script is the handler for the lambda prediction function, responsible
-for producting predictions for a model
-"""
-
-import boto3
-from botocore.exceptions import NoCredentialsError
-import json
-from io import StringIO
-import os
-import logging
-from generate_predictions import generate_predictions
-from core.MLModels import model_factory
-from config import settings
-from core.DataClient import dataclient_factory
-
-logger = logging.getLogger()
-logger.setLevel(logging.INFO)
-
-PREDICTIONS_BUCKET = os.getenv("PREDICTIONS_BUCKET", None)
-
-
-def upload_dataframe_to_s3(df, bucket, s3_file_name):
-    """
-    Upload a pandas DataFrame to an S3 bucket as CSV
-
-    :param df: DataFrame to upload
-    :param bucket: Bucket to upload to
-    :param s3_file_name: S3 object name
-    :return: True if file was uploaded, else False
-    """
-
-    # Initialize the S3 client
-    s3 = boto3.client("s3")
-    csv_buffer = StringIO()
-
-    # Write the DataFrame to the buffer as CSV
-    df.to_csv(csv_buffer, index=False)
-
-    try:
-        # Upload the CSV from the buffer to S3
-        s3.put_object(Bucket=bucket, Key=s3_file_name, Body=csv_buffer.getvalue())
-        print(f"Successfully uploaded DataFrame to {bucket}/{s3_file_name}")
-        return True
-    except NoCredentialsError:
-        print("Credentials not available")
-        return False
-
-
-def handler(event, context):
-    """
-    Take in event and trigger the prediction pipeline
-    """
-
-    logger.info("received event: " + str(event))
-
-    try:
-        body = (
-            json.loads(event["body"])
-            if not isinstance(event["body"], dict)
-            else event["body"]
-        )
-
-        property_id = body["property_id"]
-        portfolio_id = body["portfolio_id"]
-        created_at = body["created_at"]
-
-        # TODO: Implement the loading of the model and prediction
-
-        storage_filepath = f"s3://{PREDICTIONS_BUCKET}/{portfolio_id}/{property_id}/{created_at}.parquet"
-
-        logger.info(f"--- Initiate MLModel ---")
-
-        build_model_params = settings.build_model
-        client_params = settings.client
-        feature_process_params = settings.feature_processor
-        generate_predictions_params = settings.generate_predictions
-
-        model = model_factory(build_model_params["model_type"])
-
-        logger.info(f"--- Initiate Input DataClient ---")
-        input_dataclient = dataclient_factory(
-            dataclient_type="aws-s3",
-            dataclient_config=client_params["aws-s3"],
-        )
-
-        logger.info(f"--- Initiate Output DataClient ---")
-        output_dataclient = dataclient_factory(
-            dataclient_type="aws-s3",
-            dataclient_config=client_params["aws-s3"],
-        )
-
-        generate_predictions(
-            input_dataclient=input_dataclient,
-            output_dataclient=output_dataclient,
-            model=model,
-            target=feature_process_params["feature_processor_config"]["target"],
-            model_filepath=build_model_params["model_save_filepath"],
-            test_data_filepath=body["file_location"],
-            predictions_output_filepath=storage_filepath,
-            predictions_column_name=generate_predictions_params[
-                "predictions_column_name"
-            ],
-            identifier_column=generate_predictions_params["identifier_column"],
-        )
-
-        return {
-            "statusCode": 200,
-            "body": json.dumps(
-                {
-                    "message": "Successfully processed input",
-                    "storage_filepath": storage_filepath,
-                }
-            ),
-        }
-
-    except (Exception, KeyError, ValueError) as e:
-        logger.info("Prediction failed")
-        logger.info(e)
-        return {
-            "statusCode": 500,
-            "body": json.dumps({"message": "Prediction failed", "error": str(e)}),
-        }

deployment/serverless.yml

@@ -1,53 +0,0 @@
-service: ${env:STACK_NAME}
-
-provider:
-  name: aws
-  region: eu-west-2
-  architecture: x86_64
-  environment:
-    RUNTIME_ENVIRONMENT: ${env:RUNTIME_ENVIRONMENT}
-    PREDICTIONS_BUCKET: ${env:PREDICTIONS_BUCKET}
-    DATA_BUCKET: ${env:DATA_BUCKET}
-    DOMAIN_NAME: ${env:DOMAIN_NAME}
-    ECR_URI: ${env:ECR_URI}
-    GITHUB_SHA: ${env:GITHUB_SHA}
-  iam:
-    role:
-      name: ${env:STACK_NAME}_s3_access
-      statements:
-        # Allow reading from the DATA_BUCKET
-        - Effect: Allow
-          Action:
-            - s3:*
-          Resource:
-            - arn:aws:s3:::${env:DATA_BUCKET}
-            - arn:aws:s3:::${env:DATA_BUCKET}/*
-        # Allow reading and writing to PREDICTIONS_BUCKET
-        - Effect: Allow
-          Action:
-            - s3:*
-          Resource:
-            - arn:aws:s3:::${env:PREDICTIONS_BUCKET}
-            - arn:aws:s3:::${env:PREDICTIONS_BUCKET}/*
-
-
-
-plugins:
-  - serverless-domain-manager
-
-custom:
-  customDomain:
-    domainName: api.${self:provider.environment.DOMAIN_NAME}
-    basePath: ${env:STACK_NAME}
-    createRoute53Record: true
-    certificateArn: ${ssm:/ssl_certificate_arn}
-
-functions:
-  sap_prediction_lambda:
-    image:
-      uri: ${env:ECR_URI}:${env:GITHUB_SHA}
-    events:
-      - http:
-          path: /predict
-          method: POST
-    timeout: 120 # Set max run time to 2 minutes - we shouldn't need this much time so this can be reviewed

modules/ml-pipeline/.dvc/config

@@ -0,0 +1,2 @@
+['remote "myremote"']
+    url = /tmp/dvcstore

modules/ml-pipeline/.gitignore

@@ -1,6 +1,4 @@
 .dev_env/
-.dev_env_pipeline/
 __pycache__/
 .DS_Store
 .vscode/
-data/

modules/ml-pipeline/.gto

@@ -0,0 +1,2 @@
+# .gto config file
+stages: [dev, stage, prod] # list of allowed Stages

modules/ml-pipeline/.pre-commit-config.yaml

@@ -20,6 +20,6 @@ repos:
     hooks:
     -   id: dvc-push-experiment
         name: DVC - Push to experiment to remote location (experiments)
-        entry: bash -c 'cd modules/ml-pipeline/src/pipeline && dvc push -r experiments || echo "Up to date!"'
+        entry: bash -c 'cd modules/ml-pipeline/src/pipeline/src && dvc push -r experiments || echo "Up to date!"'
         language: system
         verbose: true

modules/ml-pipeline/Makefile

@@ -1,25 +1,9 @@
 export PYENV_ROOT=$(HOME)/.pyenv
 export PATH := $(PYENV_ROOT)/bin:$(PATH)
 PYTHON_VERSION ?= 3.10.12
-CONDA_ENV=dev_env_pipeline
 
 .PHONY: init
-init: dev-conda
-
-.PHONY: dev-conda
-dev-conda:
-	# conda deactivate || echo "Not in conda environment"
-	# conda remove --name ${CONDA_ENV} --all -y || echo "No environment created previously"
-	conda create --name ${CONDA_ENV} python=$(PYTHON_VERSION) -y
-	conda init bash
-	conda run -v -n ${CONDA_ENV} pip install --upgrade pip
-	conda run -v -n ${CONDA_ENV} pip install -r src/pipeline/requirements/training/requirements-dev.txt
-	conda run -v -n ${CONDA_ENV} pip install -r src/pipeline/requirements/version_control/requirements.txt
-	conda run -v -n ${CONDA_ENV} pre-commit install
-	conda run -v -n ${CONDA_ENV} pip install ipykernel
-	echo "TO ACTIVATE ENVIRONMENT, USE THE FOLLOWING COMMAND"
-	echo "conda activate ${CONDA_ENV}"
-
+init: dev-pyenv
 
 .PHONY: dev-pyenv
 dev-pyenv:
@@ -27,7 +11,7 @@ dev-pyenv:
 	pyenv install ${PYTHON_VERSION} || echo "Python version already installed"
 	pyenv global ${PYTHON_VERSION}
 	python3 -m venv .dev_env_pipeline
-	. .dev_env_pipeline/bin/activate && pip install --upgrade pip && pip install -r src/pipeline/requirements/training/requirements-dev.txt && pip install -r src/pipeline/requirements/version_control/requirements.txt && pre-commit install
+	. .dev_env_pipeline/bin/activate && pip install --upgrade pip && pip install -r src/pipeline/src/requirements/training/requirements-dev.txt && pip install -r src/pipeline/src/requirements/version_control/requirements.txt && pre-commit install
 	echo "TO ACTIVATE ENVIRONMENT, USE THE FOLLOWING COMMAND"
 	echo "source .dev_env_pipeline/bin/activate"
 

modules/ml-pipeline/README.MD

@@ -1,30 +1,16 @@
 # ML-pipeline
 
-This is a generic ML-pipeline, consisting of:
+This is a dummy ML-pipeline, consisting of:
 - dvc tracking for version control (data and models)
 - gto for model registry
 - docs, created via sphinx (in pre-commit hooks)
 - tests for unit, integration and end to end testing
 
 Within `src` folder, the structure is as follows:
-- `pipeline` folder, which contains all the codebase for the generic pipeline
-    - The pipeline can track multiple models through dvc and gto model registry
-- Deployment files:
-    - Prediction.Dockerfile - code to create the prediction deployment image
-    - Training.Dockerfil - code to create the training image (i.e. for remote training on EC2/ Fargate)
-- Docker development environment:
-    - If you wish to develop within a docker.
-
-# How to develop using this pipeline:
-
-Run `make init`, which will:
-- Download pyenv (Python version management)
-- Download Python 3.X.X as defined in the `make` file - current 3.10.12
-- Create a virtual environment with this version of python
-- Install packages in the training and version control directories in the pipeline folder (dev version if applicable)
-- Install pre-commit to enable pre-commit hooks
-
-To use the environment, run `source .dev_env_pipeline/bin/activate`.
+- multiple pipelines can be defined
+    - i.e. for a product, we might require multuple pipelines do deliver a result
+    - i.e. multiple models
+- these models can be all tracked within the same gto model registry
 
 To enable the virtual envrionemnt created in vscode:
 - Open settings

modules/ml-pipeline/src/.dockerignore

@@ -1,8 +0,0 @@
-pipeline/data/predictions
-pipeline/data/fit_predictions
-pipeline/data/prepared_data/train.parquet
-pipeline/data/fit_predictions
-pipeline/data/model/allmodels
-pipeline/metrics
-pipeline/.dvc
-pipeline/analysis

modules/ml-pipeline/src/README.md

@@ -1,3 +0,0 @@
-# The generic reproducible ML-pipeline
-
-Pipeline required to build a model to produce an output, that gets hashed via DVC

modules/ml-pipeline/src/pipeline/.gitignore

@@ -1,3 +0,0 @@
-
-# Ignore dynaconf secret files
-.secrets.*

modules/ml-pipeline/src/pipeline/2_build_model.py

@@ -1,149 +0,0 @@
-"""
-Second Pipieline step:
-Once we have the features, we build a model
-"""
-
-import os
-import yaml
-import pandas as pd
-from typing import Union, List
-from pathlib import Path
-from core.Logger import logger
-from core.interface.InterfaceMetrics import MLMetrics
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.DataClient import dataclient_factory
-from core.MLModels import model_factory
-from core.MLMetrics import metrics_factory
-from configs.post_prediction_logic import post_prediction_logic
-from config import settings
-
-logger.info(f"--- Initiate Parameters ---")
-
-RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
-
-prepare_data_params = settings.prepare_data
-build_model_params = settings.build_model
-feature_process_params = settings.feature_processor
-generate_metrics_params = settings.generate_metrics
-generate_predictions_params = settings.generate_predictions
-
-model_type = build_model_params["model_type"]
-target = feature_process_params["feature_processor_config"]["target"]
-fit_predictions_filepath = build_model_params["fit_predictions_filepath"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-identifier_columns = feature_process_params["feature_processor_config"][
-    "identifier_columns"
-]
-model_save_location = build_model_params["model_save_filepath"]
-model_hyperparameters = build_model_params[model_type]
-train_filepath = prepare_data_params["output_train_filepath"]
-test_filepath = prepare_data_params["output_test_filepath"]
-fit_metrics_filepath = build_model_params["fit_metrics_filepath"]
-
-logger.info(f"--- Initiate DataClient ---")
-
-# Output of previous prepare data step, will be where the data is
-dataclient = dataclient_factory(prepare_data_params["output_dataclient_type"])
-
-logger.info(f"--- Initiate MLModel ---")
-
-model = model_factory(model_type)
-
-logger.info(f"--- Initiate Metrics ---")
-
-metrics = metrics_factory(generate_metrics_params["metrics_type"])
-
-
-def build_model(
-    dataclient: DataClient,
-    model: MLModel,
-    metrics: MLMetrics,
-    target: str,
-    identifier_columns: List[str],
-    model_save_location: str,
-    model_hyperparameters: dict,
-    fit_predictions_filepath: str,
-    predictions_column_name: str,
-    fit_metrics_filepath: str,
-    train_filepath: Union[str, None] = None,
-    test_filepath: Union[str, None] = None,
-    train_data: Union[pd.DataFrame, None] = None,
-    test_data: Union[pd.DataFrame, None] = None,
-    pipeline_mode: bool = False,
-):
-    logger.info("--- Loading Data for build process ---")
-
-    if train_data is None:
-        if train_filepath is None:
-            raise ValueError(f"Need {train_filepath} if no data supplied")
-        train_data = dataclient.load_data(location=train_filepath, load_config=None)
-
-    if test_data is None:
-        if test_filepath is None:
-            raise ValueError(f"Need {test_filepath} if no data supplied")
-        test_data = dataclient.load_data(location=test_filepath, load_config=None)
-
-    logger.info("--- Training model ---")
-
-    model.train_model(
-        data=train_data.drop(columns=identifier_columns),
-        target=target,
-        model_hyperparameters=model_hyperparameters,
-    )
-
-    logger.info("--- Generating fit predictions ---")
-
-    fit_predictions = model.predict(
-        data=train_data, post_prediction_logic=post_prediction_logic
-    )
-
-    logger.info("--- Saving fit predictions ---")
-
-    predictions_df = pd.DataFrame(fit_predictions)
-    predictions_df.columns = [predictions_column_name]
-
-    dataclient.save_data(
-        obj=predictions_df, location=fit_predictions_filepath, save_config=None
-    )
-
-    logger.info("--- Generating fit metrics ---")
-
-    metrics_output = metrics.generate_metrics(
-        target=train_data[target],
-        predictions=pd.Series(fit_predictions),
-    )
-
-    logger.info("--- Saving model ---")
-
-    model.save_model(path=Path(model_save_location))
-
-    logger.info("--- Saving fit metrics ---")
-
-    dataclient.save_data(
-        obj=metrics_output, location=fit_metrics_filepath, save_config=None
-    )
-
-
-if __name__ == "__main__":
-
-    logger.info(f"--- {__file__} - Start! ---")
-
-    logger.info(f"--- Build Model Stage ---")
-
-    build_model(
-        dataclient=dataclient,
-        model=model,
-        metrics=metrics,
-        target=target,
-        identifier_columns=identifier_columns,
-        model_save_location=model_save_location,
-        model_hyperparameters=model_hyperparameters,
-        train_filepath=train_filepath,
-        test_filepath=test_filepath,
-        fit_metrics_filepath=fit_metrics_filepath,
-        fit_predictions_filepath=fit_predictions_filepath,
-        predictions_column_name=predictions_column_name,
-    )
-
-    logger.info(f"--- {__file__} - Complete! ---")

modules/ml-pipeline/src/pipeline/3_generate_predictions.py

@@ -1,71 +0,0 @@
-"""
-Third part of the pipeline:
-After the model is built, we can evaluate its performance
-"""
-
-import os
-from core.DataClient import dataclient_factory
-from core.MLModels import model_factory
-from core.Logger import logger
-from config import settings
-from generate_predictions import generate_predictions
-
-logger.info(f"--- Initiate Parameters ---")
-
-RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-feature_process_params = settings.feature_processor
-
-input_dataclient_type = generate_predictions_params["input_dataclient_type"]
-output_dataclient_type = generate_predictions_params["output_dataclient_type"]
-
-test_data_filepath = generate_predictions_params["test_data_filepath"]
-test_data_filepath = os.environ.get("PREDICTION_FILE", test_data_filepath)
-
-target = feature_process_params["feature_processor_config"]["target"]
-model_filepath = build_model_params["model_save_filepath"]
-predictions_output_filepath = generate_predictions_params["predictions_output_filepath"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-
-logger.info(f"--- Initiate MLModel ---")
-
-model = model_factory(build_model_params["model_type"])
-
-logger.info(f"--- Initiate DataClient ---")
-
-# We may have different locations of loading hence why we use one specified in generate_predictions.yaml
-# I.e. for metric runs, this will be a local data client
-# For predictions, we will want a cloud data client
-input_dataclient = dataclient_factory(
-    dataclient_type=input_dataclient_type,
-    dataclient_config=client_params[input_dataclient_type],
-)
-
-output_dataclient = dataclient_factory(
-    dataclient_type=output_dataclient_type,
-    dataclient_config=client_params[output_dataclient_type],
-)
-
-
-if __name__ == "__main__":
-
-    logger.info(f"--- {__file__} - Start! ---")
-
-    logger.info(f"--- Generate Predictions Stage---")
-
-    generate_predictions(
-        input_dataclient=input_dataclient,
-        output_dataclient=output_dataclient,
-        model=model,
-        target=target,
-        model_filepath=model_filepath,
-        test_data_filepath=test_data_filepath,
-        predictions_output_filepath=predictions_output_filepath,
-        predictions_column_name=predictions_column_name,
-    )
-
-    logger.info(f"--- {__file__} - Complete! ---")

modules/ml-pipeline/src/pipeline/4_generate_metrics.py

@@ -1,113 +0,0 @@
-"""
-Third part of the pipeline:
-After the model is built, we can evaluate its performance
-"""
-
-import os
-import yaml
-import pandas as pd
-from pathlib import Path
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceMetrics import MLMetrics
-from core.interface.InterfaceDataClient import DataClient
-from core.DataClient import dataclient_factory
-from core.MLModels import model_factory
-from core.MLMetrics import metrics_factory
-from core.Logger import logger
-from config import settings
-
-logger.info(f"--- Initiate Parameters ---")
-
-RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-generate_metrics_params = settings.generate_metrics
-feature_process_params = settings.feature_processor
-
-target = feature_process_params["feature_processor_config"]["target"]
-test_data_filepath = generate_predictions_params["test_data_filepath"]
-predictions_output_filepath = generate_predictions_params["predictions_output_filepath"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-metrics_output_filepath = generate_metrics_params["metrics_output_filepath"]
-
-logger.info(f"--- Initiate MLModel ---")
-
-model = model_factory(build_model_params["model_type"])
-
-logger.info(f"--- Initiate DataClient ---")
-
-# Use data client for input and output, as we use dvc to cache later to the cloud
-dataclient_type = generate_metrics_params["dataclient_type"]
-dataclient = dataclient_factory(
-    dataclient_type=dataclient_type,
-    dataclient_config=client_params[dataclient_type],
-)
-
-logger.info(f"--- Initiate MLMetrics ---")
-
-metrics = metrics_factory(generate_metrics_params["metrics_type"])
-
-
-def generate_metrics(
-    input_dataclient: DataClient,
-    output_dataclient: DataClient,
-    model: MLModel,
-    metrics: MLMetrics,
-    target: str,
-    test_data_filepath: str,
-    predictions_output_filepath: str,
-    predictions_column_name: str,
-    metrics_output_filepath: str,
-):
-    """
-    For a given model, we generate prediction and evaluate this against the true target
-    """
-
-    logger.info("--- Loading test data ---")
-
-    test_data = input_dataclient.load_data(
-        location=test_data_filepath, load_config=None
-    )
-
-    logger.info("--- Loading predictions ---")
-
-    predictions = input_dataclient.load_data(
-        location=predictions_output_filepath, load_config=None
-    )
-
-    logger.info("--- Generating metrics ---")
-
-    metrics_output = metrics.generate_metrics(
-        target=test_data[target],
-        predictions=pd.Series(predictions[predictions_column_name]),
-    )
-
-    logger.info("--- Saving metrics ---")
-
-    output_dataclient.save_data(
-        obj=metrics_output, location=metrics_output_filepath, save_config=None
-    )
-
-
-if __name__ == "__main__":
-
-    logger.info(f"--- {__file__} - Start! ---")
-
-    logger.info(f"--- Generate Metrics Stage---")
-
-    generate_metrics(
-        input_dataclient=dataclient,
-        output_dataclient=dataclient,
-        model=model,
-        metrics=metrics,
-        target=target,
-        test_data_filepath=test_data_filepath,
-        predictions_output_filepath=predictions_output_filepath,
-        predictions_column_name=predictions_column_name,
-        metrics_output_filepath=metrics_output_filepath,
-    )
-
-    logger.info(f"--- {__file__} - Complete! ---")

modules/ml-pipeline/src/pipeline/5_generate_scenarios.py

@@ -1,162 +0,0 @@
-"""
-Fourth part of the pipeline:
-After the model is built and metrics are generated,
-we want to test this model against known scenarios
-"""
-
-import os
-import pandas as pd
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.interface.InterfaceMetrics import MLMetrics
-from configs.post_prediction_logic import post_prediction_logic
-from core.DataClient import dataclient_factory
-from core.MLModels import model_factory
-from core.MLMetrics import metrics_factory
-from core.Logger import logger
-from config import settings
-
-logger.info(f"--- Initiate Parameters ---")
-
-RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-generate_metrics_params = settings.generate_metrics
-feature_process_params = settings.feature_processor
-scenarios_params = settings.scenarios
-
-model_filepath = build_model_params["model_save_filepath"]
-target = feature_process_params["feature_processor_config"]["target"]
-scenario_data_filepaths = scenarios_params["scenario_data_filepaths"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-comparison_output_filepath = scenarios_params["comparison_output_filepath"]
-metrics_output_filepath = scenarios_params["metrics_output_filepath"]
-
-logger.info(f"--- Initiate MLModel ---")
-
-model = model_factory(build_model_params["model_type"])
-
-logger.info(f"--- Initiate DataClient ---")
-
-# Use data client for input and output, as we use dvc to cache later to the cloud
-input_dataclient_type = scenarios_params["input_dataclient_type"]
-input_dataclient = dataclient_factory(
-    dataclient_type=input_dataclient_type,
-    dataclient_config=client_params[input_dataclient_type],
-)
-
-output_dataclient_type = scenarios_params["output_dataclient_type"]
-output_dataclient = dataclient_factory(
-    dataclient_type=output_dataclient_type,
-    dataclient_config=client_params[output_dataclient_type],
-)
-
-logger.info(f"--- Initiate MLMetrics ---")
-
-metrics = metrics_factory(generate_metrics_params["metrics_type"])
-
-
-def generate_scenario_predictions(
-    input_dataclient: DataClient,
-    output_dataclient: DataClient,
-    model: MLModel,
-    metrics: MLMetrics,
-    model_filepath: str,
-    scenario_data_filepaths: list,
-    predictions_column_name: str,
-    comparison_output_filepath: str,
-    metrics_output_filepath: str,
-):
-    """
-    Given the new model, we generate prediction for expected scenarios
-    """
-
-    logger.info("--- Loading Scenario Data ---")
-
-    scenario_data = pd.DataFrame()
-
-    # If we have no scenario data, we can save empty dataframes
-    if scenario_data_filepaths is None:
-        logger.info("No scenario data filepaths provided")
-        output_dataclient.save_data(
-            obj=scenario_data, location=comparison_output_filepath, save_config=None
-        )
-
-        output_dataclient.save_data(
-            obj=scenario_data, location=metrics_output_filepath, save_config=None
-        )
-        return
-
-    # Can have multiple scenario data files
-    for scenario_data_filepath in scenario_data_filepaths:
-        scenario_data = pd.concat(
-            [
-                scenario_data,
-                input_dataclient.load_data(scenario_data_filepath, load_config=None),
-            ]
-        )
-
-    logger.info("--- Loading Model ---")
-
-    model.load_model(model_filepath)
-
-    logger.info("--- Generating Predictions ---")
-
-    predictions = model.predict(
-        data=scenario_data, post_prediction_logic=post_prediction_logic
-    )
-
-    logger.info("--- Generate Scenario Predicted Impact ---")
-
-    predictions_df = pd.DataFrame(predictions)
-    predictions_df.columns = [predictions_column_name]
-
-    scenario_data = pd.concat([scenario_data, predictions_df], axis=1)
-    scenario_data["predicted_impact"] = abs(
-        scenario_data[predictions_column_name] - scenario_data["sap_starting"]
-    )
-
-    logger.info("--- Generate Metrics ---")
-
-    metrics_dict = metrics.generate_metrics(
-        scenario_data["impact"], scenario_data["predicted_impact"]
-    )
-
-    metrics_df = pd.DataFrame(metrics_dict, index=[0]).T.reset_index()
-    metrics_df.columns = ["metric", "value"]
-
-    logger.info("--- Save prediction into metrics ---")
-
-    output_df = scenario_data[["uprn", "id", "impact", "predicted_impact"]]
-
-    output_dataclient.save_data(
-        obj=output_df, location=comparison_output_filepath, save_config=None
-    )
-
-    output_dataclient.save_data(
-        obj=metrics_df, location=metrics_output_filepath, save_config=None
-    )
-
-
-if __name__ == "__main__":
-
-    logger.info(f"--- {__file__} - Start! ---")
-
-    logger.info(f"--- Generate Scenario Predictions ---")
-
-    generate_scenario_predictions(
-        input_dataclient=input_dataclient,
-        output_dataclient=output_dataclient,
-        model=model,
-        metrics=metrics,
-        model_filepath=model_filepath,
-        scenario_data_filepaths=scenario_data_filepaths,
-        predictions_column_name=predictions_column_name,
-        comparison_output_filepath=comparison_output_filepath,
-        metrics_output_filepath=metrics_output_filepath,
-    )
-
-    logger.info(f"--- {__file__} - Complete! ---")

modules/ml-pipeline/src/pipeline/Prediction.Dockerfile

@@ -1,16 +1,14 @@
 # Dockerfile that can be used to test loading a model to generate a prediction (part of CI/CD flow)
 FROM python:3.10.12-slim
 
-RUN apt-get update && apt-get install -y libgomp1 gcc python3-dev
-
-COPY pipeline/requirements/predictions/requirements.txt requirements.txt
+COPY src/requirements/predictions/requirements.txt requirements.txt
 
 RUN pip install --upgrade pip
 RUN pip install -r requirements.txt
 
 # Assuming in the CI/CD step, there will be a dvc pull step to get data and model, so will just need to run a single script
-COPY pipeline/ /home/pipeline/
+COPY src/ /home/src/
 
-WORKDIR /home/pipeline/
+WORKDIR /home/src/
 
-CMD [ "python", "3_generate_predictions.py"]
+CMD [ "python", "generate_predictions.py"]

modules/ml-pipeline/src/pipeline/README.md

@@ -1,40 +1,3 @@
-# Training
+# Pipeline 1
 
-This folder contains the code base for training experimentation.
-
-To understand the pipeline, run `dvc dag`
-
-There are 4 main steps:
-- Preparing data
-    - This is loading data (locally or from s3)
-    - Splitting the data into train and validation
-    - Creating additional features (if needed)
-    - **Data is cached**
-        - This will be down to the dvc remote location
-- Build model
-    - For the prepared data, we build a model using our configurations
-    - Model is saved (locally or s3)
-    - **Model and fit metrics are cached**
-        - This will be down to the dvc remote location
-- Generate Predictions
-    - For the given model, we generate predictions on validation test data
-    - **Predictions are cached**
-        - This will be down to the dvc remote location
-- Generate Metrics
-    - For the given model, we generate metrics on validation data/test data
-    - **Metrics are cached**
-        - This will be down to the dvc remote location
-
-Workflow:
-- Use `dvc metrics show` to view current metrics score
-- Adjust parameters/ codebase
-- When happy with changes, use `dvc exp run` to trigger an experiment
-- Due to cache, only need stages are re-run
-- Use `dvc metrics diff` to check the change in metrics
-- Use `dvc exp show` to view all experiments
-    - NOTE: the last experiment will always be applied to the workspace!
-- After running experiments, you can apply the the best model to workspace using `dvc exp apply [EXPERIMENT_NAME]`
-    - This experiment will have the corresponding .dvc files for the hashed model and data
-- Use version control as normal
-    - git add, git commit etc
-- To revert change, use `git checkout {COMMIT_HASH}`, followed by `git switch -c {NEW_BRANCH_NAME}`
+Pipeline required to build a model to produce an output

modules/ml-pipeline/src/pipeline/config.py

@@ -1,15 +0,0 @@
-from dynaconf import Dynaconf
-
-settings = Dynaconf(
-    environments=True,
-    envvar_prefix="DYNACONF",
-    settings_files=[
-        "./configs/settings.yaml",
-        "./configs/build_model.yaml",
-        "./configs/analysis.yaml",
-        "./configs/scenarios.yaml",
-    ],
-)
-
-# `envvar_prefix` = export envvars with `export DYNACONF_FOO=bar`.
-# `settings_files` = Load these files in the order.

modules/ml-pipeline/src/pipeline/configs/analysis.yaml

@@ -1,16 +0,0 @@
-default:
-  model_analysis:
-    dataclient_type: local
-    feature_importance_filepath: ./analysis/feature_importance.parquet
-    permutation_subsample_amount: 1000
-    loss_fns: "mean_absolute_percentage_error"
-    feature_importance_column: importance
-    n_repeats: 5
-    figwidth: 7
-    figheight: 6
-
-  prediction_analysis:
-    dataclient_type: local
-    nshap_samples: 100 # how many samples to use to approximate each Shapely value, larger values will be slower
-    n_val: 30  # how many datapoints from validation data should we interpret predictions for, larger values will be slower
-    row_index: [20695, 50243, 7653] # index of an example datapoint

modules/ml-pipeline/src/pipeline/configs/build_model.yaml

@@ -1,22 +0,0 @@
-default:
-  build_model:
-    model_type: AutogluonAutoML
-    model_save_filepath: ./data/model/optimised/
-    fit_metrics_filepath: ./metrics/fit_metrics.json
-    fit_predictions_filepath: ./data/fit_predictions/predictions.parquet
-
-    SKLearnLinearRegression: null
-
-    SKLearnSVMRegression:
-      kernel: "linear"
-
-    AutogluonAutoML:
-      output_filepath: ./data/model/allmodels/
-      problem_type: regression
-      eval_metric: mean_squared_error #mean_absolute_error
-      time_limit: 1800
-      presets: medium_quality
-      excluded_model_types: ['RF', 'CAT', 'NN_TORCH', 'KNN', 'XT']
-      infer_limit: 0.05
-      infer_limit_batch_size: 10000
-      ag_args_ensemble: {'num_folds_parallel': 2}

modules/ml-pipeline/src/pipeline/configs/feature_processor_logic.py

@@ -1,75 +0,0 @@
-"""
-During the feature processor step, we can apply additional business logic and feature generation by defining them here
-"""
-
-"""
-Business Logic dict + functions
-"""
-
-
-def remove_starting_columns(df):
-    keep_column_index = [
-        False if col_name.endswith("_starting") else True
-        for col_name in list(df.columns)
-    ]
-    keep_columns = df.columns[keep_column_index].to_list()
-    keep_columns.append("sap_starting")
-    df = df[keep_columns]
-    return df
-
-
-def remove_floor_height_ending(df):
-    # df.describe(percentiles=[0.005,0.99])['FLOOR_HEIGHT_ENDING']
-    # shows bottom 0.5 percentile is 1.665
-    # So keep anything above this
-    df = df[df["floor_height_ending"] > 1.665].reset_index(drop=True)
-    print("we in here")
-    return df
-
-
-def remove_minimum_habitable_room_size(df):
-    # Need minimum of 6.5m per habitable room
-    df = df[
-        df["total_floor_area_ending"] / df["number_habitable_rooms"] > 6.5
-    ].reset_index(drop=True)
-    return df
-
-
-def keep_flats(df):
-    df = df[df["property_type"] == "Flat"]
-    return df
-
-
-def keep_non_zero_rdsap(df):
-    df = df[df["rdsap_change"] != 0]
-    return df
-
-
-# def keep_ending_columns(df):
-#     ending_column_index = [ col_name.endswith("_ENDING") for col_name in list(df.columns)]
-#     keep_columns = df.columns[ending_column_index].to_list()
-#     keep_columns.append("SAP_STARTING")
-#     print(keep_columns)
-#     df = df[keep_columns]
-#     return df
-
-business_logic = {
-    # "keep_non_zero_rdsap": keep_non_zero_rdsap,
-    # "keep_flats": keep_flats,
-    # "remove_minimum_habitable_room_size": remove_minimum_habitable_room_size,
-    # "remove_floor_height_ending": remove_floor_height_ending
-    # "remove_starting_columns": remove_starting_columns
-    # "keep_ENDING_COLUMNS": keep_ending_columns
-}
-
-"""
-New features dict + function
-"""
-
-
-# def SAP_ENDING(df):
-#     return df["SAP_STARTING"] + df["RDSAP_CHANGE"]
-
-
-# new_feature_funcs = {"SAP_ENDING": SAP_ENDING}
-new_feature_funcs = {}

modules/ml-pipeline/src/pipeline/configs/post_prediction_logic.py

@@ -1,35 +0,0 @@
-"""
-After predictions, we may want to apply some post processing to the predictions
-"""
-import pandas as pd
-
-
-def clip_predictions_to_minimum_value(
-    data: pd.DataFrame, predictions: pd.Series, minimum_value: int = 0
-) -> pd.Series:
-
-    series_name = predictions.name
-    predictions.name = "predictions"
-    predictions_df = pd.concat([data, predictions], axis=1)
-    # We expect all prediction to be atleast one point improvement
-    replace_index = (
-        predictions_df["sap_starting"] + minimum_value > predictions_df["predictions"]
-    )
-    predictions_df.loc[replace_index, "predictions"] = (
-        predictions_df.loc[replace_index, "sap_starting"] + minimum_value
-    )
-
-    predictions_new = predictions_df["predictions"]
-    predictions_new.name = series_name
-    return predictions_new
-
-
-# def round_predictions(data: pd.DataFrame, predictions: pd.Series) -> pd.Series:
-
-#     return predictions.round()
-
-
-post_prediction_logic = {
-    "clip_predictions_to_minimum_value": clip_predictions_to_minimum_value,
-    # "round_predictions": round_predictions
-}

modules/ml-pipeline/src/pipeline/configs/scenarios.yaml

@@ -1,13 +0,0 @@
-default:
-  scenarios:
-    input_dataclient_type: aws-s3
-    output_dataclient_type: local
-    scenario_data_filepaths:
-      # - s3://retrofit-data-dev/scenario_data/22-03-2024-19-20-09/recommendations_scoring_data.parquet
-      # - s3://retrofit-data-dev/scenario_data/24-03-2024-20-23-25/recommendations_scoring_data.parquet
-      # - s3://retrofit-data-dev/scenario_data/27-03-2024-11-38-15/recommendations_scoring_data.parquet
-      # - s3://retrofit-data-dev/scenario_data/26-05-2024-08-47-45/recommendations_scoring_data.parquet
-      # - s3://retrofit-data-dev/scenario_data/26-05-2024-10-44-53/recommendations_scoring_data.parquet
-      - s3://retrofit-data-dev/scenario_data/28-05-2024-19-22-41/recommendations_scoring_data.parquet
-    comparison_output_filepath: ./metrics/scenario_table.md
-    metrics_output_filepath: ./metrics/scenario_metrics.md

modules/ml-pipeline/src/pipeline/configs/settings.yaml

@@ -1,81 +0,0 @@
-default:
-  startup_cleanup:
-    artefacts: ./data
-    metrics: ./metrics
-
-  client:
-    aws-s3:
-      AWS_ACCESS_KEY_ID: null # Use local credentials
-      AWS_SECRET_ACCESS_KEY: null # Use local credentials
-      ENDPOINT_URL: null # Use local credentials
-    aws-s3-mock:
-      AWS_ACCESS_KEY_ID: minio
-      AWS_SECRET_ACCESS_KEY: minio123
-      ENDPOINT_URL: http://localhost:9000
-    local:
-      null
-
-  prepare_data:
-    input_dataclient_type: aws-s3
-    output_dataclient_type: local
-    # data_filepath: s3://retrofit-data-dev/sap_change_model/2024-03-22-18-56-53/dataset_rooms.parquet
-    # data_filepath: s3://retrofit-data-dev/sap_change_model/2024-05-25-08-36-36/dataset_rooms.parquet
-    # data_filepath: s3://retrofit-data-dev/sap_change_model/2024-05-26-10-31-39/dataset_rooms.parquet
-    data_filepath: s3://retrofit-data-dev/sap_change_model/2024-05-28-19-08-25/dataset_rooms.parquet
-    train_proportion: 0.9
-    output_train_filepath: ./data/prepared_data/train.parquet
-    output_test_filepath: ./data/prepared_data/test.parquet
-
-  feature_processor:
-    feature_processor_type: dataframe
-    feature_processor_config:
-      subsample_amount: null
-      subsample_seed: 0
-      target: sap_ending
-      identifier_columns: ["uprn"]
-      # drop_columns: ["heat_demand_change", "carbon_change", "rdsap_change", "heat_demand_ending", "carbon_ending", "days_to_starting", "days_to_ending"]
-      drop_columns: [
-        "heat_demand_change", "carbon_change", "rdsap_change", "heat_demand_ending", "carbon_ending", "days_to_starting", "days_to_ending",
-        'number_habitable_rooms_starting', 'number_habitable_rooms_ending', 'number_heated_rooms_starting', 'number_heated_rooms_ending',
-        'number_habitable_rooms', 'number_heated_rooms']
-      retain_features: null
-      # retain_features: ['uprn', 'sap_starting', 'hot_water_energy_eff_ending',
-      #  'mainheat_energy_eff_ending', 'constituency', 'roof_energy_eff_ending',
-      #  'walls_energy_eff_ending', 'secondheat_description_ending',
-      #  'property_type', 'mainheatc_energy_eff_ending', 'built_form',
-      #  'walls_insulation_thickness_ending', 'potential_energy_efficiency',
-      #  'transaction_type_ending',
-      #  'floor_thermal_transmittance_ending',
-      #  'low_energy_lighting_ending', 'heat_demand_starting',
-      #  'photo_supply_ending', 'carbon_starting',
-      #  'walls_thermal_transmittance_ending',
-      #  'roof_insulation_thickness_ending',
-      #  'total_floor_area_ending', 'number_open_fireplaces_ending',
-      #  'windows_energy_eff_ending',
-      #  'floor_height_ending',
-      #  'extension_count_ending',
-      #  'has_air_source_heat_pump_ending',
-      #  'charging_system_ending', 'construction_age_band', 'glazed_type_ending',
-      #  'roof_thermal_transmittance_ending',
-      #  'floor_insulation_thickness_ending', 'has_mains_gas_ending',
-      #  'estimated_perimeter_starting', 'energy_consumption_potential',
-      #  'environment_impact_potential', 'heater_type_ending',
-      #  'multi_glaze_proportion_ending',
-      #  'lighting_energy_eff_ending', 'fixed_lighting_outlets_count']
-
-  generate_predictions:
-    input_dataclient_type: local
-    output_dataclient_type: local
-    test_data_filepath: ./data/prepared_data/test.parquet
-    predictions_output_filepath: ./data/predictions/predictions.parquet
-    predictions_column_name: predictions
-    identifier_column: id
-
-  generate_metrics:
-    dataclient_type: local
-    metrics_type: Regression
-    metrics_output_filepath: ./metrics/metrics.json
-
-dev:
-  generate_predictions:
-      input_dataclient_type: aws-s3

modules/ml-pipeline/src/pipeline/dvc.lock

@@ -1,190 +0,0 @@
-schema: '2.0'
-stages:
-  startup_cleanup:
-    cmd: python 0_startup_cleanup.py
-    deps:
-    - path: 0_startup_cleanup.py
-      hash: md5
-      md5: b1b12f6b6393fbf8b83d23684df0a3d4
-      size: 1220
-    params:
-      configs/settings.yaml:
-        default.startup_cleanup.artefacts: ./data
-        default.startup_cleanup.metrics: ./metrics
-  prepare_data:
-    cmd: python 1_prepare_data.py
-    deps:
-    - path: 1_prepare_data.py
-      hash: md5
-      md5: 11a3b8bfdfe199ab7ecc39ccc5652649
-      size: 4298
-    params:
-      configs/settings.yaml:
-        default.feature_processor.feature_processor_config.drop_columns:
-        - heat_demand_change
-        - carbon_change
-        - rdsap_change
-        - heat_demand_ending
-        - carbon_ending
-        - days_to_starting
-        - days_to_ending
-        - number_habitable_rooms_starting
-        - number_habitable_rooms_ending
-        - number_heated_rooms_starting
-        - number_heated_rooms_ending
-        - number_habitable_rooms
-        - number_heated_rooms
-        default.feature_processor.feature_processor_config.retain_features:
-        default.feature_processor.feature_processor_config.subsample_amount:
-        default.feature_processor.feature_processor_config.subsample_seed: 0
-        default.feature_processor.feature_processor_config.target: sap_ending
-        default.feature_processor.feature_processor_type: dataframe
-        default.prepare_data.data_filepath:
-          s3://retrofit-data-dev/sap_change_model/2024-05-28-19-08-25/dataset_rooms.parquet
-        default.prepare_data.input_dataclient_type: aws-s3
-        default.prepare_data.output_dataclient_type: local
-        default.prepare_data.output_test_filepath: ./data/prepared_data/test.parquet
-        default.prepare_data.output_train_filepath: ./data/prepared_data/train.parquet
-        default.prepare_data.train_proportion: 0.9
-    outs:
-    - path: data/prepared_data/
-      hash: md5
-      md5: 80c9e138146a1d96b9d16091c207e2e8.dir
-      size: 45056059
-      nfiles: 2
-  build_model:
-    cmd: python 2_build_model.py
-    deps:
-    - path: 2_build_model.py
-      hash: md5
-      md5: 7231450b78920b0c5e7c6bada496b24a
-      size: 4820
-    - path: data/prepared_data
-      hash: md5
-      md5: 80c9e138146a1d96b9d16091c207e2e8.dir
-      size: 45056059
-      nfiles: 2
-    params:
-      configs/build_model.yaml:
-        default:
-          build_model:
-            model_type: AutogluonAutoML
-            model_save_filepath: ./data/model/optimised/
-            fit_metrics_filepath: ./metrics/fit_metrics.json
-            fit_predictions_filepath: ./data/fit_predictions/predictions.parquet
-            SKLearnLinearRegression:
-            SKLearnSVMRegression:
-              kernel: linear
-            AutogluonAutoML:
-              output_filepath: ./data/model/allmodels/
-              problem_type: regression
-              eval_metric: mean_squared_error
-              time_limit: 1800
-              presets: medium_quality
-              excluded_model_types:
-              - RF
-              - CAT
-              - NN_TORCH
-              - KNN
-              - XT
-              infer_limit: 0.05
-              infer_limit_batch_size: 10000
-              ag_args_ensemble:
-                num_folds_parallel: 2
-    outs:
-    - path: data/fit_predictions/
-      hash: md5
-      md5: d9c9afc05e8780db47c0548b19bf7d19.dir
-      size: 3349989
-      nfiles: 1
-    - path: data/model/
-      hash: md5
-      md5: 13c3100e1486c27a83a8a47491077842.dir
-      size: 773523079
-      nfiles: 36
-    - path: metrics/fit_metrics.json
-      hash: md5
-      md5: 2ff70a2a45813e1bcdf2ea3aa8e07d4a
-      size: 224
-  generate_predictions:
-    cmd: python 3_generate_predictions.py
-    deps:
-    - path: 3_generate_predictions.py
-      hash: md5
-      md5: 0a70ad4dfe99414a75d1261c75a177b9
-      size: 2464
-    - path: data/model
-      hash: md5
-      md5: 13c3100e1486c27a83a8a47491077842.dir
-      size: 773523079
-      nfiles: 36
-    - path: data/prepared_data
-      hash: md5
-      md5: 80c9e138146a1d96b9d16091c207e2e8.dir
-      size: 45056059
-      nfiles: 2
-    params:
-      configs/settings.yaml:
-        default.generate_predictions.input_dataclient_type: local
-        default.generate_predictions.output_dataclient_type: local
-        default.generate_predictions.predictions_column_name: predictions
-        default.generate_predictions.predictions_output_filepath: ./data/predictions/predictions.parquet
-        default.generate_predictions.test_data_filepath: ./data/prepared_data/test.parquet
-    outs:
-    - path: data/predictions/
-      hash: md5
-      md5: 5d07bcebf3160a72bb18dfd79106e85c.dir
-      size: 463197
-      nfiles: 1
-  generate_metrics:
-    cmd: python 4_generate_metrics.py
-    deps:
-    - path: 4_generate_metrics.py
-      hash: md5
-      md5: 4fedb86d89d528f0a6597934ba3890a0
-      size: 3484
-    - path: data/predictions
-      hash: md5
-      md5: 5d07bcebf3160a72bb18dfd79106e85c.dir
-      size: 463197
-      nfiles: 1
-    - path: data/prepared_data
-      hash: md5
-      md5: 80c9e138146a1d96b9d16091c207e2e8.dir
-      size: 45056059
-      nfiles: 2
-    params:
-      configs/settings.yaml:
-        default.generate_metrics.dataclient_type: local
-        default.generate_metrics.metrics_output_filepath: ./metrics/metrics.json
-        default.generate_metrics.metrics_type: Regression
-    outs:
-    - path: metrics/metrics.json
-      hash: md5
-      md5: 3e08df02fd5c5d094bcf936e1338d596
-      size: 223
-  generate_scenerio_metrics:
-    cmd: python 5_generate_scenarios.py
-    deps:
-    - path: 5_generate_scenarios.py
-      hash: md5
-      md5: 40506749fefd926d47c60ff5b16db307
-      size: 5337
-    params:
-      configs/scenarios.yaml:
-        default.scenarios:
-          input_dataclient_type: aws-s3
-          output_dataclient_type: local
-          scenario_data_filepaths:
-          - s3://retrofit-data-dev/scenario_data/28-05-2024-19-22-41/recommendations_scoring_data.parquet
-          comparison_output_filepath: ./metrics/scenario_table.md
-          metrics_output_filepath: ./metrics/scenario_metrics.md
-    outs:
-    - path: metrics/scenario_metrics.md
-      hash: md5
-      md5: fa4d6d7bbd7818613800da5f8f37ea96
-      size: 363
-    - path: metrics/scenario_table.md
-      hash: md5
-      md5: d6baf100a1623cc2467c2f8221d314c9
-      size: 2133

modules/ml-pipeline/src/pipeline/dvc.yaml

@@ -1,87 +0,0 @@
-stages:
-  startup_cleanup:
-    cmd: python 0_startup_cleanup.py
-    deps:
-    - 0_startup_cleanup.py
-    params:
-    - configs/settings.yaml:
-      - default.startup_cleanup.artefacts
-      - default.startup_cleanup.metrics
-    always_changed: true
-  prepare_data:
-    cmd: python 1_prepare_data.py
-    deps:
-    - 1_prepare_data.py
-    params:
-    - configs/settings.yaml:
-      - default.prepare_data.input_dataclient_type
-      - default.prepare_data.output_dataclient_type
-      - default.prepare_data.data_filepath
-      - default.prepare_data.train_proportion
-      - default.prepare_data.output_train_filepath
-      - default.prepare_data.output_test_filepath
-      - default.feature_processor.feature_processor_type
-      - default.feature_processor.feature_processor_config.subsample_amount
-      - default.feature_processor.feature_processor_config.subsample_seed
-      - default.feature_processor.feature_processor_config.target
-      - default.feature_processor.feature_processor_config.drop_columns
-      - default.feature_processor.feature_processor_config.retain_features
-    outs:
-    - data/prepared_data/
-    always_changed: true
-  build_model:
-    cmd: python 2_build_model.py
-    deps:
-    - 2_build_model.py
-    - data/prepared_data
-    params:
-    - configs/build_model.yaml:
-    outs:
-    - data/model/
-    - data/fit_predictions/
-    - metrics/fit_metrics.json
-    always_changed: true
-  generate_predictions:
-    cmd: python 3_generate_predictions.py
-    deps:
-    - 3_generate_predictions.py
-    - data/prepared_data
-    - data/model
-    params:
-    - configs/settings.yaml:
-      - default.generate_predictions.input_dataclient_type
-      - default.generate_predictions.output_dataclient_type
-      - default.generate_predictions.test_data_filepath
-      - default.generate_predictions.predictions_output_filepath
-      - default.generate_predictions.predictions_column_name
-    outs:
-    - data/predictions/
-    always_changed: true
-  generate_metrics:
-    cmd: python 4_generate_metrics.py
-    deps:
-    - 4_generate_metrics.py
-    - data/prepared_data
-    - data/predictions
-    params:
-    - configs/settings.yaml:
-      - default.generate_metrics.dataclient_type
-      - default.generate_metrics.metrics_type
-      - default.generate_metrics.metrics_output_filepath
-    outs:
-    - metrics/metrics.json
-    always_changed: true
-  generate_scenerio_metrics:
-    cmd: python 5_generate_scenarios.py
-    deps:
-    - 5_generate_scenarios.py
-    params:
-    - configs/scenarios.yaml:
-      - default.scenarios
-    outs:
-    - metrics/scenario_table.md
-    - metrics/scenario_metrics.md
-    always_changed: true
-metrics:
-  - metrics/metrics.json
-  - metrics/fit_metrics.json

modules/ml-pipeline/src/pipeline/eda.py

@@ -1,248 +0,0 @@
-"""
-Doing some eda on dataset
-"""
-# Look at response variable
-
-from matplotlib import pyplot as plt
-import pandas as pd
-
-train_df = pd.read_parquet("./data/prepared_data/train.parquet")
-target = "SAP_ENDING"
-
-train_df = train_df.head(10000)
-
-# train_df[target].plot(kind='hist')
-
-# Plot the target variable
-fig, ax = plt.subplots(figsize=(10, 7))
-ax.hist(train_df[target], bins=range(min(train_df[target]), max(train_df[target])))
-
-fig
-
-# Find correlation to sale price (numeric)
-train_df.dtypes
-# All numerical
-
-train_df_corr = train_df.corr()
-
-train_df_corr.style.background_gradient(cmap="coolwarm")
-
-train_df_corr["EXTENSION_COUNT_ENDING"]
-
-# Check out some correlation plots between variables
-# sap starting - negative correlation
-
-train_df[[target, "SAP_STARTING"]].plot(y=target, x="SAP_STARTING", style="o")
-
-# head demand - light positive correlation
-train_df[[target, "HEAT_DEMAND_STARTING"]].plot(
-    x=target, y="HEAT_DEMAND_STARTING", style="o"
-)
-
-# Both make sense: i.e. the higher the sap, the lower we predict and the higher the heat demand, the higher we predict
-
-# Load the autogluon model and check feature importance
-
-
-import os
-import yaml
-import pandas as pd
-from pathlib import Path
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.DataClient import dataclient_factory
-from core.MLModels import model_factory
-from core.Logger import logger
-
-
-RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
-
-client_path = Path(__file__).parent / "configs" / "client.yaml"
-client_params = yaml.safe_load(open(client_path))
-
-prepare_data_path = Path(__file__).parent / "configs" / "prepare_data.yaml"
-prepare_data_params = yaml.safe_load(open(prepare_data_path))
-
-build_model_path = Path(__file__).parent / "configs" / "build_model.yaml"
-build_model_params = yaml.safe_load(open(build_model_path))
-
-generate_predictions_path = (
-    Path(__file__).parent / "configs" / "generate_predictions.yaml"
-)
-generate_predictions_params = yaml.safe_load(open(generate_predictions_path))
-
-feature_process_path = Path(__file__).parent / "configs" / "feature_processor.yaml"
-feature_process_params = yaml.safe_load(open(feature_process_path))
-
-model = model_factory(build_model_params["model_type"])
-model_filepath = build_model_params["model_save_filepath"]
-
-model.load_model(model_filepath)
-
-fi = model.model.feature_importance(train_df.reset_index(drop=True))
-
-pred = pd.read_parquet("./data/predictions/predictions.parquet")
-test_df = pd.read_parquet("./data/prepared_data/test.parquet")
-
-# test_df = test_df.head(1000)
-
-test_df["predictions"] = pred["predictions"]
-
-test_df.groupby("PROPERTY_TYPE").apply(
-    lambda x: (x.SAP_ENDING - x.predictions).abs().mean()
-)
-
-test_df.head()
-flat_df = test_df[test_df["PROPERTY_TYPE"] == "Flat"]
-
-flat_df["residual"] = abs(flat_df["predictions"] - flat_df[target])
-
-generate_metrics_path = Path(__file__).parent / "configs" / "generate_metrics.yaml"
-generate_metrics_params = yaml.safe_load(open(generate_metrics_path))
-from core.MLMetrics import metrics_factory
-
-metrics = metrics_factory(generate_metrics_params["metrics_type"])
-
-metrics_output = metrics.generate_metrics(
-    target=flat_df[target],
-    predictions=pd.Series(flat_df["predictions"]),
-)
-
-# Use alibi to run permutation importance
-
-from alibi.explainers import PermutationImportance, plot_permutation_importance
-from sklearn.metrics import mean_absolute_percentage_error
-import numpy as np
-import pandas as pd
-
-test_df = pd.read_parquet("./data/prepared_data/test.parquet")
-test_df = test_df.head(1000)
-
-target = "SAP_ENDING"
-feature_names = test_df.columns.to_list()
-feature_names.remove(target)
-
-x = test_df[feature_names].to_numpy()
-y = test_df[target].to_numpy()
-
-
-def predict_fn(X: np.ndarray) -> np.ndarray:
-    return model.predict(pd.DataFrame(X, columns=feature_names))
-
-
-pfi = PermutationImportance(
-    predictor=predict_fn,
-    loss_fns=mean_absolute_percentage_error,
-    feature_names=feature_names,
-    verbose=True,
-)
-
-exp = pfi.explain(x, y)
-plot_permutation_importance(exp, fig_kw={"figwidth": 7, "figheight": 6})
-
-[
-    "PROPERTY_TYPE",
-    "BUILT_FORM",
-    "CONSTITUENCY",
-    "NUMBER_HABITABLE_ROOMS",
-    "NUMBER_HEATED_ROOMS",
-    "FIXED_LIGHTING_OUTLETS_COUNT",
-    "CONSTRUCTION_AGE_BAND",
-    "TRANSACTION_TYPE_STARTING",
-    "LIGHTING_DESCRIPTION_STARTING",
-    "MAINHEAT_DESCRIPTION_STARTING",
-    "HOTWATER_DESCRIPTION_STARTING",
-    "MAIN_FUEL_STARTING",
-    "MECHANICAL_VENTILATION_STARTING",
-    "SECONDHEAT_DESCRIPTION_STARTING",
-    "ENERGY_TARIFF_STARTING",
-    "SOLAR_WATER_HEATING_FLAG_STARTING",
-    "PHOTO_SUPPLY_STARTING",
-    "WINDOWS_DESCRIPTION_STARTING",
-    "GLAZED_TYPE_STARTING",
-    "MULTI_GLAZE_PROPORTION_STARTING",
-    "LOW_ENERGY_LIGHTING_STARTING",
-    "NUMBER_OPEN_FIREPLACES_STARTING",
-    "MAINHEATCONT_DESCRIPTION_STARTING",
-    "EXTENSION_COUNT_STARTING",
-    "TOTAL_FLOOR_AREA_STARTING",
-    "FLOOR_HEIGHT_STARTING",
-    "DAYS_TO_STARTING",
-    "WALLS_DESCRIPTION_STARTING",
-    "FLOOR_DESCRIPTION_STARTING",
-]
-
-# Use shap package to explain why 9158 has a 35 prediction when its sap ending is 96
-#
-#
-
-from core.MLModels import model_factory
-from core.DataClient import dataclient_factory
-import pandas as pd
-from config import settings
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-feature_process_params = settings.feature_processor
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-prediction_analysis_params = settings.prediction_analysis
-model = model_factory(build_model_params["model_type"])
-model.load_model(build_model_params["model_save_filepath"])
-dataclient_type = prediction_analysis_params["dataclient_type"]
-# dataclient_type = 'aws-s3'
-# dataclient = dataclient_factory(
-#     dataclient_type=dataclient_type,
-#     dataclient_config=client_params[dataclient_type],
-# )
-# data = dataclient.load_data("s3://retrofit-data-dev/sap_change_model/dataset.parquet")
-
-target = feature_process_params["feature_processor_config"]["target"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-output_test_filepath = prepare_data_params["output_test_filepath"]
-predictions_output_filepath = generate_predictions_params["predictions_output_filepath"]
-
-# score_data = dataclient.load_data("s3://retrofit-data-dev/carbon_change_predictions/51/2023-11-28T21:01:21.869339.parquet")
-
-
-local_dataclient = dataclient_factory(
-    dataclient_type="local",
-    dataclient_config=client_params["local"],
-)
-test_df = local_dataclient.load_data(output_test_filepath)
-predictions = local_dataclient.load_data(predictions_output_filepath)
-mix_df = pd.concat([test_df.copy(), predictions], axis=1)
-mix_df["residual"] = abs(mix_df[predictions_column_name] - mix_df[target])
-mix_df = mix_df.sort_values("residual", ascending=False)
-
-cosine_similarity_df = mix_df[mix_df.columns.difference(["predictions", "residual"])]
-from sklearn.metrics.pairwise import cosine_similarity
-
-row_index = 0
-
-from sklearn.preprocessing import LabelEncoder
-
-object_columns = cosine_similarity_df.select_dtypes(["object"])
-
-cosine_similarity_df[object_columns.columns] = cosine_similarity_df[
-    object_columns.columns
-].apply(LabelEncoder().fit_transform)
-
-feature_vector = cosine_similarity_df.loc[[row_index]]
-
-cosine_similarity_df["cosine"] = cosine_similarity(cosine_similarity_df, feature_vector)
-similar_index = (
-    cosine_similarity_df.sort_values("cosine", ascending=False).head(15).index
-)
-
-check_df = mix_df.loc[similar_index]
-
-columns_to_check = [
-    "LOW_ENERGY_LIGHTING_ENDING",
-    "walls_thermal_transmittance_ENDING",
-    "floor_thermal_transmittance_ENDING",
-    "roof_thermal_transmittance_ENDING",
-    "roof_insulation_thickness_ENDING",
-]
-
-cosine_similarity_df = mix_df[columns_to_check]

modules/ml-pipeline/src/pipeline/generate_predictions.py

@@ -1,56 +0,0 @@
-import pandas as pd
-from configs.post_prediction_logic import post_prediction_logic
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.Logger import logger
-
-
-def generate_predictions(
-    input_dataclient: DataClient,
-    output_dataclient: DataClient,
-    model: MLModel,
-    target: str,
-    model_filepath: str,
-    test_data_filepath: str,
-    predictions_output_filepath: str,
-    predictions_column_name: str,
-    identifier_column: str = "id",
-):
-    """
-    For a given model, we generate prediction and evaluate this against the true target
-    """
-
-    logger.info("--- Loading test data ---")
-
-    test_data = input_dataclient.load_data(
-        location=test_data_filepath, load_config=None
-    )
-
-    logger.info("--- Loading model ---")
-
-    model.load_model(model_filepath)
-
-    logger.info("--- Generating predictions ---")
-
-    prediction_data = (
-        test_data.drop(columns=target) if target in test_data.columns else test_data
-    )
-
-    predictions = model.predict(
-        data=prediction_data, post_prediction_logic=post_prediction_logic
-    )
-
-    logger.info("--- Saving predictions ---")
-
-    predictions_df = pd.DataFrame(predictions)
-    predictions_df.columns = [predictions_column_name]
-
-    output_df = (
-        pd.concat([test_data[identifier_column], predictions_df], axis=1)
-        if identifier_column in test_data.columns
-        else predictions_df
-    )
-
-    output_dataclient.save_data(
-        obj=output_df, location=predictions_output_filepath, save_config=None
-    )

modules/ml-pipeline/src/pipeline/metrics/.gitignore

@@ -1,4 +0,0 @@
-/fit_metrics.json
-/metrics.json
-/scenario_table.md
-/scenario_metrics.md

modules/ml-pipeline/src/pipeline/model_analysis.py

@@ -1,137 +0,0 @@
-"""
-Post Model generation step:
-We want to look at feature analysis of the model
-"""
-
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.Logger import logger
-from core.MLModels import model_factory
-from core.DataClient import dataclient_factory
-from alibi.explainers import PermutationImportance, plot_permutation_importance
-import numpy as np
-import pandas as pd
-from config import settings
-
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-feature_process_params = settings.feature_processor
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-
-model_analysis_params = settings.model_analysis
-
-model = model_factory(build_model_params["model_type"])
-model.load_model(build_model_params["model_save_filepath"])
-
-dataclient_type = model_analysis_params["dataclient_type"]
-dataclient = dataclient_factory(
-    dataclient_type=dataclient_type,
-    dataclient_config=client_params[dataclient_type],
-)
-
-
-feature_importance_filepath = model_analysis_params["feature_importance_filepath"]
-permutation_subsample_amount = model_analysis_params["permutation_subsample_amount"]
-loss_fns = model_analysis_params["loss_fns"]
-feature_importance_column = model_analysis_params["feature_importance_column"]
-n_repeats = model_analysis_params["n_repeats"]
-figwidth = model_analysis_params["figwidth"]
-figheight = model_analysis_params["figheight"]
-target = feature_process_params["feature_processor_config"]["target"]
-output_test_filepath = prepare_data_params["output_test_filepath"]
-
-
-def model_analysis(
-    model: MLModel,
-    dataclient: DataClient,
-    target: str,
-    output_test_filepath: str,
-    feature_importance_filepath: str,
-    permutation_subsample_amount: int = 100,
-    loss_fns: str = "mean_absolute_percentage_error",
-    feature_importance_column: str = "importance",
-    n_repeats: int = 5,
-    figwidth: int = 7,
-    figheight: int = 6,
-):
-    """
-    Key task is to take in a model and generate:
-    - feature importance
-    and save these outputs
-    """
-
-    logger.info("------------------------------------")
-    logger.info(f"--- Generate Feature Importance ---")
-    logger.info("------------------------------------")
-
-    test_df = dataclient.load_data(output_test_filepath)
-
-    test_df = test_df.head(permutation_subsample_amount)
-
-    feature_names = test_df.columns.to_list()
-    feature_names.remove(target)
-
-    x = test_df[feature_names].to_numpy()
-    y = test_df[target].to_numpy()
-
-    def predict_fn(X: np.ndarray) -> np.ndarray:
-        return model.predict(pd.DataFrame(X, columns=feature_names))
-
-    pfi = PermutationImportance(
-        predictor=predict_fn,
-        loss_fns=loss_fns,
-        feature_names=feature_names,
-        verbose=True,
-    )
-
-    logger.info(
-        f"Permutation feature importance - using {permutation_subsample_amount} samples and {n_repeats} shuffles per feature:"
-    )
-
-    exp = pfi.explain(x, y, n_repeats=n_repeats)
-
-    mean_value_feature_importance = [
-        element["mean"] for element in exp.data["feature_importance"][0]
-    ]
-    feature_importance_df = pd.DataFrame(
-        mean_value_feature_importance,
-        index=exp.data["feature_names"],
-        columns=[feature_importance_column],
-    ).sort_values(feature_importance_column, ascending=False)
-
-    plot_permutation_importance(
-        exp, fig_kw={"figwidth": figwidth, "figheight": figheight}
-    )
-
-    logger.info("--------------------------------------")
-    logger.info(f"--- Save Feature Importance table ---")
-    logger.info("--------------------------------------")
-
-    dataclient.save_data(feature_importance_df, location=feature_importance_filepath)
-
-
-if __name__ == "__main__":
-
-    logger.info("----------------------------")
-    logger.info(f"--- {__file__} - Start! ---")
-    logger.info("----------------------------")
-
-    model_analysis(
-        model=model,
-        dataclient=dataclient,
-        target=target,
-        output_test_filepath=output_test_filepath,
-        feature_importance_filepath=feature_importance_filepath,
-        permutation_subsample_amount=permutation_subsample_amount,
-        loss_fns=loss_fns,
-        feature_importance_column=feature_importance_column,
-        n_repeats=n_repeats,
-        figwidth=figwidth,
-        figheight=figheight,
-    )
-
-    logger.info("-------------------------------")
-    logger.info(f"--- {__file__} - Complete! ---")
-    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/prediction_analysis.py

@@ -1,134 +0,0 @@
-"""
-Look at why the model made such a prediction
-Manual script to run
-Workflow:
-- Identify a prediction row/s that you wish to look into
-    - i.e. a bad prediction/s
-- Add these rows to the config
-- Run script
-"""
-
-import shap
-
-shap.initjs()
-
-from typing import List
-from core.interface.InterfaceModels import MLModel
-from core.interface.InterfaceDataClient import DataClient
-from core.Logger import logger
-from core.MLModels import model_factory
-from core.DataClient import dataclient_factory
-import pandas as pd
-from config import settings
-
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-feature_process_params = settings.feature_processor
-build_model_params = settings.build_model
-generate_predictions_params = settings.generate_predictions
-prediction_analysis_params = settings.prediction_analysis
-
-model = model_factory(build_model_params["model_type"])
-model.load_model(build_model_params["model_save_filepath"])
-
-dataclient_type = prediction_analysis_params["dataclient_type"]
-dataclient = dataclient_factory(
-    dataclient_type=dataclient_type,
-    dataclient_config=client_params[dataclient_type],
-)
-
-target = feature_process_params["feature_processor_config"]["target"]
-predictions_column_name = generate_predictions_params["predictions_column_name"]
-
-output_test_filepath = prepare_data_params["output_test_filepath"]
-
-predictions_output_filepath = generate_predictions_params["predictions_output_filepath"]
-
-nshap_samples = prediction_analysis_params["nshap_samples"]
-row_index = prediction_analysis_params["row_index"]
-
-
-def prediction_analysis(
-    model: MLModel,
-    dataclient: DataClient,
-    target: str,
-    predictions_column_name: str,
-    output_test_filepath: str,
-    predictions_output_filepath: str,
-    nshap_samples: int,
-    row_index: List[int],
-):
-
-    test_df = dataclient.load_data(output_test_filepath)
-    predictions = dataclient.load_data(predictions_output_filepath)
-
-    mix_df = pd.concat([test_df.copy(), predictions], axis=1)
-    mix_df["residual"] = abs(mix_df[predictions_column_name] - mix_df[target])
-    mix_df = mix_df.sort_values("residual", ascending=False)
-
-    test_df_without_target = test_df.drop(columns=[target])
-
-    class ModelWrapper:
-        def __init__(self, model, feature_names):
-            self.model = model
-            self.feature_names = feature_names
-
-        def predict(self, X):
-            if isinstance(X, pd.Series):
-                X = X.values.reshape(1, -1)
-            if not isinstance(X, pd.DataFrame):
-                X = pd.DataFrame(X, columns=self.feature_names)
-            return self.model.predict(X)
-
-    model_wrapper = ModelWrapper(model, feature_names=test_df_without_target.columns)
-
-    explainer = shap.KernelExplainer(
-        model_wrapper.predict, test_df_without_target.head(100)
-    )
-
-    shap_predictions_df = pd.DataFrame(index=test_df_without_target.columns)
-    for index in row_index:
-        single_datapoint = test_df_without_target.iloc[[index]]
-        # single_prediction = model_wrapper.predict(single_datapoint)
-        shap_values_single = explainer.shap_values(
-            single_datapoint, nsamples=nshap_samples
-        )
-        shap.force_plot(
-            explainer.expected_value,
-            shap_values_single,
-            test_df_without_target.iloc[index, :],
-        )
-        shap_single_prediction_df = pd.DataFrame(
-            shap_values_single, columns=test_df_without_target.columns
-        ).T
-        shap_single_prediction_df.columns = [index]
-        shap_single_prediction_df = shap_single_prediction_df.sort_values(index)
-        shap_predictions_df = pd.merge(
-            left=shap_predictions_df,
-            right=shap_single_prediction_df,
-            left_index=True,
-            right_index=True,
-        )
-
-    return shap_predictions_df
-
-
-if __name__ == "__main__":
-
-    logger.info("----------------------------")
-    logger.info(f"--- {__file__} - Start! ---")
-    logger.info("----------------------------")
-
-    prediction_analysis(
-        model=model,
-        dataclient=dataclient,
-        target=target,
-        predictions_column_name=predictions_column_name,
-        output_test_filepath=output_test_filepath,
-        nshap_samples=nshap_samples,
-        row_index=row_index,
-    )
-
-    logger.info("-------------------------------")
-    logger.info(f"--- {__file__} - Complete! ---")
-    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/requirements/predictions/requirements-dev.txt

@@ -1,7 +0,0 @@
-joblib==1.3.2
-boto3==1.28.17
-pandas==2.1.4
-autogluon.tabular[all]==1.0.0
-dynaconf==3.2.1
-pyarrow==13.0.0
-pre-commit==3.3.3

modules/ml-pipeline/src/pipeline/requirements/predictions/requirements.txt

@@ -1,7 +0,0 @@
-joblib==1.3.2
-boto3==1.28.17
-pandas==2.1.4
-autogluon.tabular[all]==1.0.0
-dynaconf==3.2.1
-pyarrow==13.0.0
-PyYAML==6.0.1

modules/ml-pipeline/src/pipeline/requirements/training/requirements-dev.txt

@@ -1,10 +0,0 @@
-joblib==1.3.2
-boto3==1.28.17
-pandas==2.1.4
-autogluon.tabular[all]==1.0.0
-ray==2.6.3
-dynaconf==3.2.1
-alibi==0.9.5
-shap==0.42.1
-pyarrow==13.0.0
-pre-commit==3.3.3

modules/ml-pipeline/src/pipeline/requirements/training/requirements.txt

@@ -1,4 +0,0 @@
-boto3==1.28.41
-pandas==2.1.4
-autogluon.tabular[all]==1.0.0
-dynaconf==3.2.1

modules/ml-pipeline/src/pipeline/requirements/version_control/requirements.txt

@@ -1,4 +0,0 @@
-dvc==3.51.0
-dvc-s3==3.2.0
-gto==1.7.1
-pyOpenSSL==23.3.0

modules/ml-pipeline/src/pipeline/src/.dvc/.gitignore

@@ -0,0 +1,3 @@
+/config.local
+/tmp
+/cache

modules/ml-pipeline/src/pipeline/src/.dvcignore

@@ -0,0 +1,3 @@
+# Add patterns of files dvc should ignore, which could improve
+# the performance. Learn more at
+# https://dvc.org/doc/user-guide/dvcignore

modules/ml-pipeline/src/pipeline/src/.vscode/settings.json

@@ -0,0 +1 @@
+{}

modules/ml-pipeline/src/pipeline/src/README.md

@@ -0,0 +1,35 @@
+# Training
+
+This folder contains the code base for training experimentation.
+
+To understand the pipeline, run `dvc dag`
+
+There are 3 main steps:
+- Preparing data
+    - This is loading data (locally or from s3)
+    - Splitting the data into train and validation
+    - Creating additional features (if needed)
+    - **Data is cached**
+        - This will be down to the dvc remote location
+- Build model
+    - For the prepared data, we build a model using our configurations
+    - Model is saved (locally or s3)
+    - **Model is cached**
+        - This will be down to the dvc remote location
+- Generate Metrics
+    - For the given model, we generate metrics on validation data/test data
+    - **Metrics are cached**
+        - This will be down to the dvc remote location
+
+Workflow:
+- Use `dvc metrics show` to view current metrics score
+- Adjust parameters/ codebase
+- When happy with changes, use `dvc exp run` to trigger an experiment
+- Due to cache, only need stages are re-run
+- Use `dvc metrics diff` to check the change in metrics
+- Use `dvc exp show` to view all experiments
+    - NOTE: the last experiment will always be applied to the workspace!
+- After running experiments, you can apply the the best model to workspace using `dvc exp apply [EXPERIMENT_NAME]`
+    - This experiment will have the corresponding .dvc files for the hashed model and data
+- Use version control as normal
+    - git add, git commit etc

modules/ml-pipeline/src/pipeline/src/build_model.py

@@ -0,0 +1,106 @@
+"""
+Second Pipieline step:
+Once we have the features, we build a model
+"""
+
+import os
+import yaml
+import pandas as pd
+from typing import Union
+from pathlib import Path
+from core.Logger import logger
+from core.interface.InterfaceModels import MLModel
+from core.interface.InterfaceDataClient import DataClient
+from core.DataClient import dataclient_factory
+from core.MLModels import model_factory
+
+RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
+
+prepare_data_path = Path(__file__).parent / "configs" / "prepare_data.yaml"
+prepare_data_params = yaml.safe_load(open(prepare_data_path))
+
+build_model_path = Path(__file__).parent / "configs" / "build_model.yaml"
+build_model_params = yaml.safe_load(open(build_model_path))
+
+feature_process_path = Path(__file__).parent / "configs" / "feature_processor.yaml"
+feature_process_params = yaml.safe_load(open(feature_process_path))
+
+
+def build_model(
+    dataclient: DataClient,
+    model: MLModel,
+    target: str,
+    model_save_location: str,
+    model_hyperparameters: dict,
+    train_filepath: Union[str, None] = None,
+    test_filepath: Union[str, None] = None,
+    train_data: Union[pd.DataFrame, None] = None,
+    test_data: Union[pd.DataFrame, None] = None,
+    pipeline_mode: bool = False,
+):
+    logger.info("--------------------------------------")
+    logger.info("--- Loading Data for build process ---")
+    logger.info("--------------------------------------")
+
+    if train_data is None:
+        if train_filepath is None:
+            raise ValueError(f"Need {train_filepath} if no data supplied")
+        train_data = dataclient.load_data(location=train_filepath)
+
+    if test_data is None:
+        if test_filepath is None:
+            raise ValueError(f"Need {test_filepath} if no data supplied")
+        test_data = dataclient.load_data(location=test_filepath)
+
+    logger.info("----------------------")
+    logger.info("--- Training model ---")
+    logger.info("----------------------")
+
+    model.train_model(
+        data=train_data, target=target, model_hyperparameters=model_hyperparameters
+    )
+
+    logger.info("--------------------")
+    logger.info("--- Saving model ---")
+    logger.info("--------------------")
+
+    model.save_model(path=Path(model_save_location))
+
+
+if __name__ == "__main__":
+
+    logger.info("----------------------------")
+    logger.info(f"--- {__file__} - Start! ---")
+    logger.info("----------------------------")
+
+    logger.info("----------------------------")
+    logger.info(f"--- Initiate DataClient ---")
+    logger.info("----------------------------")
+
+    # Output of previous prepare data step, will be where the data is
+    dataclient = dataclient_factory(prepare_data_params["output_dataclient_type"])
+
+    logger.info("-------------------------")
+    logger.info(f"--- Initiate MLModel ---")
+    logger.info("-------------------------")
+
+    model_type = build_model_params["model_type"]
+    model = model_factory(model_type)
+
+    logger.info("--------------------------")
+    logger.info(f"--- Build Model Stage ---")
+    logger.info("--------------------------")
+
+    build_model(
+        dataclient=dataclient,
+        model=model,
+        target=feature_process_params["feature_processor_config"]["target"],
+        model_save_location=build_model_params["model_save_filepath"],
+        model_hyperparameters=build_model_params[model_type],
+        train_filepath=prepare_data_params["output_train_filepath"],
+        test_filepath=prepare_data_params["output_test_filepath"],
+    )
+
+    logger.info("-------------------------------")
+    logger.info(f"--- {__file__} - Complete! ---")
+    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/src/configs/build_model.yaml

@@ -0,0 +1,15 @@
+model_type: SKLearnLinearRegression
+model_save_filepath: ./data/model/model.joblib
+
+SKLearnLinearRegression: null
+
+SKLearnSVMRegression:
+  kernel: "linear"
+
+AutogluonAutoML:
+  output_filepath: ./data/model/autogluonmodel/
+  problem_type: regression
+  eval_metric: mean_absolute_error
+  time_limit: 400
+  presets: high_quality
+  excluded_model_types: ['KNN']

modules/ml-pipeline/src/pipeline/src/configs/client.yaml

@@ -0,0 +1,10 @@
+aws-s3:
+  AWS_ACCESS_KEY_ID: null
+  AWS_SECRET_ACCESS_KEY: null
+  ENDPOINT_URL: null
+aws-s3-mock:
+  AWS_ACCESS_KEY_ID: minio
+  AWS_SECRET_ACCESS_KEY: minio123
+  ENDPOINT_URL: http://localhost:9000
+local:
+  null

modules/ml-pipeline/src/pipeline/src/configs/configs.py

@@ -0,0 +1,3 @@
+"""
+Stitch all yaml configuration files together, override some settings (such as bucket location) based off environment variables
+"""

modules/ml-pipeline/src/pipeline/src/configs/feature_processor.yaml

@@ -0,0 +1,8 @@
+feature_processor_type: dataframe
+feature_processor_config:
+  subsample_amount: null
+  subsample_seed: 0
+  target: RDSAP_CHANGE
+  drop_columns: ["UPRN", "HEAT_DEMAND_CHANGE", "CARBON_CHANGE"]
+  retain_features: ["TOTAL_FLOOR_AREA_STARTING", "SAP_STARTING", "HEAT_DEMAND_STARTING", "CARBON_STARTING", "NUMBER_HABITABLE_ROOMS", "NUMBER_HEATED_ROOMS", "FIXED_LIGHTING_OUTLETS_COUNT", "PHOTO_SUPPLY_STARTING", "MULTI_GLAZE_PROPORTION_STARTING", "LOW_ENERGY_LIGHTING_STARTING", "NUMBER_OPEN_FIREPLACES_STARTING", "EXTENSION_COUNT_STARTING", "FLOOR_HEIGHT_STARTING", "PHOTO_SUPPLY_ENDING", "MULTI_GLAZE_PROPORTION_ENDING", "LOW_ENERGY_LIGHTING_ENDING", "NUMBER_OPEN_FIREPLACES_ENDING", "EXTENSION_COUNT_ENDING", "TOTAL_FLOOR_AREA_ENDING", "FLOOR_HEIGHT_ENDING", "DAYS_TO_STARTING", "DAYS_TO_ENDING"]
+  # retain_features: null

modules/ml-pipeline/src/pipeline/src/configs/feature_processor_logic.py

@@ -0,0 +1,13 @@
+"""
+During the feature processor step, we can apply additional business logic and feature generation by defining them here
+"""
+
+"""
+Business Logic dict + functions
+"""
+business_logic = {}
+
+"""
+New features dict + function
+"""
+new_feature_funcs = {}

modules/ml-pipeline/src/pipeline/src/configs/generate_metrics.yaml

@@ -0,0 +1,5 @@
+dataclient_type: local
+input_datahandler_type: parquet
+output_datahandler_type: json
+metrics_type: Regression
+metrics_output_filepath: ./metrics/metrics.json

modules/ml-pipeline/src/pipeline/src/configs/generate_predictions.yaml

@@ -0,0 +1,5 @@
+input_dataclient_type: local
+output_dataclient_type: local
+test_data_filepath: ./data/prepared_data/test.parquet
+predictions_output_filepath: ./data/predictions/predictions.parquet
+predictions_column_name: predictions

modules/ml-pipeline/src/pipeline/src/configs/prepare_data.yaml

@@ -0,0 +1,9 @@
+input_dataclient_type: aws-s3
+output_dataclient_type: local
+datahandler_type: parquet
+data_filepath: s3://retrofit-data-dev/sap_change_model/dataset.parquet
+train_proportion: 0.9
+output_train_filepath: ./data/prepared_data/train.parquet
+output_test_filepath: ./data/prepared_data/test.parquet
+
+# cache_o

modules/ml-pipeline/src/pipeline/src/configs/startup_cleanup.yaml

@@ -0,0 +1,2 @@
+artefacts: ./data
+metrics: ./metrics

modules/ml-pipeline/src/pipeline/src/core/DataClient.py

@@ -8,7 +8,7 @@ import boto3
 import pandas as pd
 from pathlib import Path
 from io import BytesIO
-from typing import List, Union, Any
+from typing import List, Union
 from core.interface.InterfaceDataClient import DataClient
 from core.Logger import logger
 
@@ -105,7 +105,7 @@ class AWSS3Client:
 
     def save_data(
         self,
-        obj: Any,
+        obj: object,
         location: str,
         save_config: Union[dict, None] = None,
     ) -> None:
@@ -134,7 +134,7 @@ class AWSS3Client:
             obj=obj, location=location, save_config=save_config
         )
 
-    def _save_parquet(self, obj: pd.DataFrame, location: str, save_config: dict):
+    def _save_parquet(self, obj: object, location: str, save_config: dict):
         """
         Save object as parquet
         """
@@ -142,15 +142,9 @@ class AWSS3Client:
         buffer = BytesIO()
         obj.to_parquet(buffer, index=False)
 
-        # Reset the buffer position to the beginning
-        buffer.seek(0)
-
         bucket, key = location.strip("s3://").split("/", 1)
         self.client.upload_fileobj(buffer, bucket, key)
 
-        # Close the buffer
-        buffer.close()
-
     def _load_parquet(self, location: str, load_config: dict) -> pd.DataFrame:
         """
         Load a parquet file
@@ -245,8 +239,7 @@ class LocalClient:
 
         save_methods = {
             ".parquet": self._save_parquet,
-            ".json": self._save_json,
-            ".md": self._save_md,
+            ".json": self._save_json
             # "": _save_directory(**save_config),
             # ADD MORE save_methods HERE
         }
@@ -295,10 +288,3 @@ class LocalClient:
         # Write the contents of the buffer to the local file
         with open(location, "wb") as f:
             f.write(buffer.getvalue())
-
-    def _save_md(self, obj: pd.DataFrame, location: str, save_config: dict):
-        """
-        Save object as markdown
-        """
-
-        obj.to_markdown(location, **save_config)

modules/ml-pipeline/src/pipeline/src/core/FeatureProcessor.py

@@ -9,6 +9,7 @@ Create additional features from the dataset
 import pandas as pd
 from typing import List, Callable, Union
 from core.interface.InterfaceFeatureProcessor import FeatureProcessor
+from core.Logger import logger
 
 
 def feature_processor_factory(feature_processor_type: str) -> FeatureProcessor:
@@ -109,9 +110,7 @@ class DataFrameFeatureProcessor:
 
         # TODO: to test
         for key, value in new_feature_funcs.items():
-            key_column = value(df)
-            key_column.name = key
-            df = pd.concat([df, key_column], axis=1)
+            df[key] = value(df)
 
         return df
 
@@ -136,8 +135,6 @@ class DataFrameFeatureProcessor:
             subsample_amount=feature_processor_config["subsample_amount"],
             subsample_seed=feature_processor_config["subsample_seed"],
         )
-        df = self.apply_business_logic(df, business_logic=business_logic)
-        df = self.generate_new_features(df, new_feature_funcs=new_feature_funcs)
         df = self.drop_unused_columns(
             df, drop_columns=feature_processor_config["drop_columns"]
         )
@@ -146,4 +143,6 @@ class DataFrameFeatureProcessor:
             retain_features=feature_processor_config["retain_features"],
             target=feature_processor_config["target"],
         )
+        df = self.apply_business_logic(df, business_logic=business_logic)
+        df = self.generate_new_features(df, new_feature_funcs=new_feature_funcs)
         return df

modules/ml-pipeline/src/pipeline/src/core/Logger.py

@@ -21,7 +21,6 @@ def setup_logger():
 
     # Add the stream handler to the logger
     logger.addHandler(stream_handler)
-    logger.propagate = False
 
     return logger
 

modules/ml-pipeline/src/pipeline/src/core/MLMetrics.py

@@ -4,7 +4,6 @@ Implementation of MLMetrics, all of which will have two methods:
 - Generate Plot Suite
 """
 
-import numpy as np
 import pandas as pd
 from typing import Union
 from sklearn.metrics import (
@@ -15,18 +14,6 @@ from sklearn.metrics import (
 )
 from core.interface.InterfaceMetrics import MLMetrics
 
-# Define the function to return the SMAPE value
-def symmetric_mape(actual, predicted) -> float:
-
-    # Convert actual and predicted to numpy
-    # array data type if not already
-    if not all([isinstance(actual, np.ndarray), isinstance(predicted, np.ndarray)]):
-        actual, predicted = np.array(actual), np.array(predicted)
-
-    return np.mean(
-        np.abs(predicted - actual) / ((np.abs(predicted) + np.abs(actual)) / 2)
-    )
-
 
 def metrics_factory(metrics_type: str) -> MLMetrics:
     metrics = {
@@ -47,7 +34,7 @@ class RegressionMetrics:
         median_absolute_error,
         mean_squared_error,
         mean_absolute_percentage_error,
-        symmetric_mape,
+        # max_error
     ]
 
     def generate_metrics(

modules/ml-pipeline/src/pipeline/src/core/MLModels.py

@@ -25,7 +25,7 @@ def model_factory(model_type: str) -> MLModel:
     models = {
         "SKLearnLinearRegression": SKLearnLinearRegression(),
         "SKLearnSVMRegression": SKLearnSVMRegression(),
-        "AutogluonAutoML": AutogluonAutoML(),
+        "AutogluonAutoML": AutogluonAutoML()
         # ADD OTHER MODELS HERE
     }
 
@@ -75,9 +75,7 @@ class SKLearnLinearRegression:
         y_train = data[target]
         self.model.fit(x_train, y_train)
 
-    def predict(
-        self, data: pd.DataFrame, post_prediction_logic: dict | None = None
-    ) -> pd.Series:
+    def predict(self, data: pd.DataFrame) -> pd.Series:
         """
         Method to predict
         """
@@ -130,9 +128,7 @@ class SKLearnSVMRegression:
         y_train = data[target]
         self.model.fit(x_train, y_train)
 
-    def predict(
-        self, data: pd.DataFrame, post_prediction_logic: dict | None = None
-    ) -> pd.Series:
+    def predict(self, data: pd.DataFrame) -> pd.Series:
         """
         Method to predict
         """
@@ -149,9 +145,6 @@ class AutogluonAutoML:
         "time_limit",
         "presets",
         "excluded_model_types",
-        "infer_limit",
-        "infer_limit_batch_size",
-        "ag_args_ensemble",
     ]
 
     def load_model(self, path: Union[Path, str]) -> None:
@@ -168,12 +161,8 @@ class AutogluonAutoML:
         if self.model is None:
             raise KeyError("No model trained/ loaded - unable to save")
 
-        logger.info(
-            "Using AutoGluon Model - Model saving is using optimised deployment mode"
-        )
-
-        logger.info("Saving optimised model")
-        self.model.clone_for_deployment(str(path))
+        logger.info("In local development mode - no need for s3 client")
+        logger.info("Using AutoGluon Model - Model saving already occured")
 
         return str(path)
 
@@ -206,44 +195,17 @@ class AutogluonAutoML:
             time_limit=model_hyperparameters["time_limit"],
             presets=model_hyperparameters["presets"],
             excluded_model_types=model_hyperparameters["excluded_model_types"],
-            infer_limit=model_hyperparameters["infer_limit"],
-            infer_limit_batch_size=model_hyperparameters["infer_limit_batch_size"],
-            ag_args_ensemble=model_hyperparameters["ag_args_ensemble"],
         )
 
-    def predict(
-        self, data: pd.DataFrame, post_prediction_logic: dict | None = None
-    ) -> pd.Series:
+    def predict(self, data: pd.DataFrame) -> pd.Series:
         """
         Method to predict
         """
 
-        if post_prediction_logic is None:
-            post_prediction_logic = {}
-
         if self.model is None:
             print("No model loaded/ trained")
             exit(1)
 
         predictions = pd.Series(self.model.predict(data))
 
-        if len(post_prediction_logic) != 0:
-            predictions = self._apply_post_prediction_logic(
-                data=data,
-                predictions=predictions,
-                post_prediction_logic=post_prediction_logic,
-            )
-
-        return predictions
-
-    def _apply_post_prediction_logic(
-        self, data: pd.DataFrame, predictions: pd.Series, post_prediction_logic: dict
-    ):
-        """
-        For predictions, we can apply post processing logic to clean up predictions
-        """
-
-        for _, value in post_prediction_logic.items():
-            predictions = value(data, predictions)
-
         return predictions

modules/ml-pipeline/src/pipeline/src/core/interface/InterfaceDataClient.py

@@ -3,7 +3,8 @@ Interface for all DataClient i.e. s3, database, local etc
 """
 
 import pandas as pd
-from typing import Protocol, Union, Any
+from io import BytesIO
+from typing import Protocol, Union
 
 
 class DataClient(Protocol):
@@ -21,10 +22,9 @@ class DataClient(Protocol):
         """
         Generic to load data
         """
-        ...
 
     def save_data(
-        self, obj: Any, location: str, save_config: Union[dict, None]
+        self, obj: object, location: str, save_config: Union[dict, None]
     ) -> None:
         """
         Generic to save data

modules/ml-pipeline/src/pipeline/src/core/interface/InterfaceModels.py

@@ -32,9 +32,7 @@ class MLModel(Protocol):
         """
         ...
 
-    def predict(
-        self, data: pd.DataFrame, post_prediction_logic: dict | None
-    ) -> pd.Series:
+    def predict(self, data: pd.DataFrame) -> pd.Series:
         """
         Method to predict
         """

modules/ml-pipeline/src/pipeline/src/data/.gitignore

@@ -0,0 +1,3 @@
+/prepared_data
+/model
+/predictions

modules/ml-pipeline/src/pipeline/src/dvc.lock

@@ -0,0 +1,123 @@
+schema: '2.0'
+stages:
+  prepare_data:
+    cmd: python prepare_data.py
+    deps:
+    - path: prepare_data.py
+      hash: md5
+      md5: 2cfe9e3012280e0cecdb84da12c974d9
+      size: 5009
+    params:
+      configs/prepare_data.yaml:
+        output_test_filepath: ./data/prepared_data/test.parquet
+        output_train_filepath: ./data/prepared_data/train.parquet
+        train_proportion: 0.9
+    outs:
+    - path: data/prepared_data/
+      hash: md5
+      md5: ea0a2baf3931e692d6344ba609331089.dir
+      size: 13232732
+      nfiles: 2
+  build_model:
+    cmd: python build_model.py
+    deps:
+    - path: build_model.py
+      hash: md5
+      md5: 46bcc34f20c6851cd987640889eefde6
+      size: 3671
+    - path: data/prepared_data
+      hash: md5
+      md5: ea0a2baf3931e692d6344ba609331089.dir
+      size: 13232732
+      nfiles: 2
+    params:
+      configs/build_model.yaml:
+        AutogluonAutoML:
+          output_filepath: ./data/model/autogluonmodel/
+          problem_type: regression
+          eval_metric: mean_absolute_error
+          time_limit: 400
+          presets: high_quality
+          excluded_model_types:
+          - KNN
+        SKLearnLinearRegression:
+        SKLearnSVMRegression:
+          kernel: linear
+        model_save_filepath: ./data/model/model.joblib
+        model_type: SKLearnLinearRegression
+    outs:
+    - path: data/model/
+      hash: md5
+      md5: eb2b910dec66481e75bb6058622f6e55.dir
+      size: 1832
+      nfiles: 1
+  generate_predictions:
+    cmd: python generate_predictions.py
+    deps:
+    - path: data/model
+      hash: md5
+      md5: eb2b910dec66481e75bb6058622f6e55.dir
+      size: 1832
+      nfiles: 1
+    - path: data/prepared_data
+      hash: md5
+      md5: ea0a2baf3931e692d6344ba609331089.dir
+      size: 13232732
+      nfiles: 2
+    - path: generate_predictions.py
+      hash: md5
+      md5: d412c8c9b48b59a29f569633280a6e7f
+      size: 4237
+    params:
+      configs/generate_predictions.yaml:
+        input_dataclient_type: local
+        output_dataclient_type: local
+        predictions_column_name: predictions
+        predictions_output_filepath: ./data/predictions/predictions.parquet
+        test_data_filepath: ./data/prepared_data/test.parquet
+    outs:
+    - path: data/predictions/
+      hash: md5
+      md5: 85ec3fa0cb387a7775eccd23185f7966.dir
+      size: 643406
+      nfiles: 1
+  generate_metrics:
+    cmd: python generate_metrics.py
+    deps:
+    - path: data/predictions
+      hash: md5
+      md5: 85ec3fa0cb387a7775eccd23185f7966.dir
+      size: 643406
+      nfiles: 1
+    - path: data/prepared_data
+      hash: md5
+      md5: ea0a2baf3931e692d6344ba609331089.dir
+      size: 13232732
+      nfiles: 2
+    - path: generate_metrics.py
+      hash: md5
+      md5: 5577a28107458dc1e6bcaaa098388095
+      size: 4144
+    params:
+      configs/generate_metrics.yaml:
+        dataclient_type: local
+        input_datahandler_type: parquet
+        metrics_output_filepath: ./metrics/metrics.json
+        metrics_type: Regression
+        output_datahandler_type: json
+    outs:
+    - path: metrics/metrics.json
+      hash: md5
+      md5: d79f798a272e6b50597be4d08ae48fa8
+      size: 180
+  startup_cleanup:
+    cmd: python startup_cleanup.py
+    deps:
+    - path: startup_cleanup.py
+      hash: md5
+      md5: 2e51fbcac960d0f960bf32a8ec7486a0
+      size: 1748
+    params:
+      configs/startup_cleanup.yaml:
+        artefacts: ./data
+        metrics: ./metrics

modules/ml-pipeline/src/pipeline/src/dvc.yaml

@@ -0,0 +1,56 @@
+stages:
+  startup_cleanup:
+    cmd: python startup_cleanup.py
+    deps:
+    - startup_cleanup.py
+    params:
+    - configs/startup_cleanup.yaml:
+      - artefacts
+      - metrics
+    always_changed: true
+  prepare_data:
+    cmd: python prepare_data.py
+    deps:
+    - prepare_data.py
+    params:
+    - configs/prepare_data.yaml:
+      - output_test_filepath
+      - output_train_filepath
+      - train_proportion
+    outs:
+    - data/prepared_data/
+    always_changed: true
+  build_model:
+    cmd: python build_model.py
+    deps:
+    - build_model.py
+    - data/prepared_data
+    params:
+    - configs/build_model.yaml:
+    outs:
+    - data/model/
+    always_changed: true
+  generate_predictions:
+    cmd: python generate_predictions.py
+    deps:
+    - generate_predictions.py
+    - data/prepared_data
+    - data/model
+    params:
+    - configs/generate_predictions.yaml:
+    outs:
+    - data/predictions/
+    always_changed: true
+  generate_metrics:
+    cmd: python generate_metrics.py
+    deps:
+    - generate_metrics.py
+    - data/prepared_data
+    - data/predictions
+    params:
+    - configs/generate_metrics.yaml:
+    outs:
+    - metrics/metrics.json
+    always_changed: true
+metrics:
+  - metrics/metrics.json

modules/ml-pipeline/src/pipeline/src/generate_metrics.py

@@ -0,0 +1,120 @@
+"""
+Third part of the pipeline:
+After the model is built, we can evaluate its performance
+"""
+
+import os
+import yaml
+import pandas as pd
+from pathlib import Path
+from core.interface.InterfaceModels import MLModel
+from core.interface.InterfaceMetrics import MLMetrics
+from core.interface.InterfaceDataClient import DataClient
+from core.DataClient import dataclient_factory
+from core.MLModels import model_factory
+from core.MLMetrics import metrics_factory
+from core.Logger import logger
+
+
+RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
+
+client_path = Path(__file__).parent / "configs" / "client.yaml"
+client_params = yaml.safe_load(open(client_path))
+
+prepare_data_path = Path(__file__).parent / "configs" / "prepare_data.yaml"
+prepare_data_params = yaml.safe_load(open(prepare_data_path))
+
+build_model_path = Path(__file__).parent / "configs" / "build_model.yaml"
+build_model_params = yaml.safe_load(open(build_model_path))
+
+generate_predictions_path = (
+    Path(__file__).parent / "configs" / "generate_predictions.yaml"
+)
+generate_predictions_params = yaml.safe_load(open(generate_predictions_path))
+
+generate_metrics_path = Path(__file__).parent / "configs" / "generate_metrics.yaml"
+generate_metrics_params = yaml.safe_load(open(generate_metrics_path))
+
+feature_process_path = Path(__file__).parent / "configs" / "feature_processor.yaml"
+feature_process_params = yaml.safe_load(open(feature_process_path))
+
+
+def generate_metrics(
+    input_dataclient: DataClient,
+    output_dataclient: DataClient,
+    model: MLModel,
+    metrics: MLMetrics,
+    target: str,
+    test_data_filepath: str,
+    predictions_output_filepath: str,
+    predictions_column_name: str,
+    metrics_output_filepath: str,
+):
+    """
+    For a given model, we generate prediction and evaluate this against the true target
+    """
+
+    logger.info("-------------------------")
+    logger.info("--- Loading test data ---")
+    logger.info("-------------------------")
+
+    test_data = input_dataclient.load_data(
+        location=test_data_filepath,
+    )
+
+    logger.info("---------------------------")
+    logger.info("--- Loading predictions ---")
+    logger.info("---------------------------")
+
+    predictions = input_dataclient.load_data(location=predictions_output_filepath)
+
+    logger.info("--------------------------")
+    logger.info("--- Generating metrics ---")
+    logger.info("--------------------------")
+
+    metrics_output = metrics.generate_metrics(
+        target=test_data[target],
+        predictions=pd.Series(predictions[predictions_column_name]),
+    )
+
+    logger.info("----------------------")
+    logger.info("--- Saving metrics ---")
+    logger.info("----------------------")
+
+    output_dataclient.save_data(obj=metrics_output, location=metrics_output_filepath)
+
+
+if __name__ == "__main__":
+
+    logger.info("----------------------------")
+    logger.info(f"--- {__file__} - Start! ---")
+    logger.info("----------------------------")
+
+    model = model_factory(build_model_params["model_type"])
+
+    # Use data client for input and output, as we use dvc to cache later to the cloud
+    dataclient_type = generate_metrics_params["dataclient_type"]
+    dataclient = dataclient_factory(
+        dataclient_type=dataclient_type,
+        dataclient_config=client_params[dataclient_type],
+    )
+
+    metrics = metrics_factory(generate_metrics_params["metrics_type"])
+
+    generate_metrics(
+        input_dataclient=dataclient,
+        output_dataclient=dataclient,
+        model=model,
+        metrics=metrics,
+        target=feature_process_params["feature_processor_config"]["target"],
+        test_data_filepath=generate_predictions_params["test_data_filepath"],
+        predictions_output_filepath=generate_predictions_params[
+            "predictions_output_filepath"
+        ],
+        predictions_column_name=generate_predictions_params["predictions_column_name"],
+        metrics_output_filepath=generate_metrics_params["metrics_output_filepath"],
+    )
+
+    logger.info("-------------------------------")
+    logger.info(f"--- {__file__} - Complete! ---")
+    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/src/generate_predictions.py

@@ -0,0 +1,123 @@
+"""
+Third part of the pipeline:
+After the model is built, we can evaluate its performance
+"""
+
+import os
+import yaml
+import pandas as pd
+from pathlib import Path
+from core.interface.InterfaceModels import MLModel
+from core.interface.InterfaceDataClient import DataClient
+from core.DataClient import dataclient_factory
+from core.MLModels import model_factory
+from core.Logger import logger
+
+
+RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
+
+client_path = Path(__file__).parent / "configs" / "client.yaml"
+client_params = yaml.safe_load(open(client_path))
+
+prepare_data_path = Path(__file__).parent / "configs" / "prepare_data.yaml"
+prepare_data_params = yaml.safe_load(open(prepare_data_path))
+
+build_model_path = Path(__file__).parent / "configs" / "build_model.yaml"
+build_model_params = yaml.safe_load(open(build_model_path))
+
+generate_predictions_path = (
+    Path(__file__).parent / "configs" / "generate_predictions.yaml"
+)
+generate_predictions_params = yaml.safe_load(open(generate_predictions_path))
+
+feature_process_path = Path(__file__).parent / "configs" / "feature_processor.yaml"
+feature_process_params = yaml.safe_load(open(feature_process_path))
+
+
+def generate_predictions(
+    input_dataclient: DataClient,
+    output_dataclient: DataClient,
+    model: MLModel,
+    target: str,
+    model_filepath: str,
+    test_data_filepath: str,
+    predictions_output_filepath: str,
+    predictions_column_name: str,
+):
+    """
+    For a given model, we generate prediction and evaluate this against the true target
+    """
+
+    logger.info("-------------------------")
+    logger.info("--- Loading test data ---")
+    logger.info("-------------------------")
+
+    test_data = input_dataclient.load_data(location=test_data_filepath)
+
+    logger.info("---------------------")
+    logger.info("--- Loading model ---")
+    logger.info("---------------------")
+
+    model.load_model(model_filepath)
+
+    logger.info("------------------------------")
+    logger.info("--- Generating predictions ---")
+    logger.info("------------------------------")
+
+    prediction_data = (
+        test_data.drop(columns=target) if target in test_data.columns else test_data
+    )
+
+    predictions = model.predict(data=prediction_data)
+
+    logger.info("--------------------------")
+    logger.info("--- Saving predictions ---")
+    logger.info("--------------------------")
+
+    predictions_df = pd.DataFrame(predictions)
+    predictions_df.columns = [predictions_column_name]
+
+    output_dataclient.save_data(
+        obj=predictions_df, location=predictions_output_filepath
+    )
+
+
+if __name__ == "__main__":
+
+    logger.info("----------------------------")
+    logger.info(f"--- {__file__} - Start! ---")
+    logger.info("----------------------------")
+
+    model = model_factory(build_model_params["model_type"])
+    # We may have different locations of loading hence why we use one specified in generate_predictions.yaml
+    # I.e. for metric runs, this will be a local data client
+    # For predictions, we will want a cloud data client
+
+    input_dataclient_type = generate_predictions_params["input_dataclient_type"]
+    input_dataclient = dataclient_factory(
+        dataclient_type=input_dataclient_type,
+        dataclient_config=client_params[input_dataclient_type],
+    )
+
+    output_dataclient_type = generate_predictions_params["output_dataclient_type"]
+    output_dataclient = dataclient_factory(
+        dataclient_type=output_dataclient_type,
+        dataclient_config=client_params[output_dataclient_type],
+    )
+
+    generate_predictions(
+        input_dataclient=input_dataclient,
+        output_dataclient=output_dataclient,
+        model=model,
+        target=feature_process_params["feature_processor_config"]["target"],
+        model_filepath=build_model_params["model_save_filepath"],
+        test_data_filepath=generate_predictions_params["test_data_filepath"],
+        predictions_output_filepath=generate_predictions_params[
+            "predictions_output_filepath"
+        ],
+        predictions_column_name=generate_predictions_params["predictions_column_name"],
+    )
+
+    logger.info("-------------------------------")
+    logger.info(f"--- {__file__} - Complete! ---")
+    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/src/metrics/.gitignore

@@ -0,0 +1 @@
+/metrics.json

modules/ml-pipeline/src/pipeline/src/prepare_data.py

@@ -15,41 +15,17 @@ from configs.feature_processor_logic import business_logic, new_feature_funcs
 from core.Logger import logger
 from core.DataClient import dataclient_factory
 from core.FeatureProcessor import feature_processor_factory
-from config import settings
-
-logger.info(f"--- Initiate Parameters ---")
 
 RUNTIME_ENVIRONMENT = os.environ.get("RUNTIME_ENVIRONMENT", "local")
 
-client_params = settings.client
-prepare_data_params = settings.prepare_data
-feature_process_params = settings.feature_processor
+client_path = Path(__file__).parent / "configs" / "client.yaml"
+client_params = yaml.safe_load(open(client_path))
 
-data_filepath = prepare_data_params["data_filepath"]
-train_proportion = prepare_data_params["train_proportion"]
-output_train_filepath = prepare_data_params["output_train_filepath"]
-output_test_filepath = prepare_data_params["output_test_filepath"]
-feature_processor_config = feature_process_params["feature_processor_config"]
+prepare_data_path = Path(__file__).parent / "configs" / "prepare_data.yaml"
+prepare_data_params = yaml.safe_load(open(prepare_data_path))
 
-logger.info(f"--- Initiate DataClient ---")
-
-input_dataclient_type = prepare_data_params["input_dataclient_type"]
-output_dataclient_type = prepare_data_params["output_dataclient_type"]
-
-input_dataclient = dataclient_factory(
-    dataclient_type=input_dataclient_type,
-    dataclient_config=client_params[input_dataclient_type],
-)
-output_dataclient = dataclient_factory(
-    dataclient_type=output_dataclient_type,
-    dataclient_config=client_params[output_dataclient_type],
-)
-
-logger.info(f"--- Initiate FeatureProcessor ---")
-
-feature_processor = feature_processor_factory(
-    feature_process_params["feature_processor_type"]
-)
+feature_process_path = Path(__file__).parent / "configs" / "feature_processor.yaml"
+feature_process_params = yaml.safe_load(open(feature_process_path))
 
 
 def prepare_data(
@@ -70,11 +46,15 @@ def prepare_data(
     :param pipeline_mode: bool, Default False, this caches out the file for experimentation, objects returned in pipeline mode
     """
 
+    logger.info("--------------------")
     logger.info("--- Loading data ---")
+    logger.info("--------------------")
 
     data = input_dataclient.load_data(location=data_filepath, load_config={})
 
+    logger.info("--------------------------")
     logger.info("--- Feature Processing ---")
+    logger.info("--------------------------")
 
     data = feature_processor.feature_process(
         data,
@@ -83,51 +63,77 @@ def prepare_data(
         new_feature_funcs=new_feature_funcs,
     )
 
+    logger.info("----------------------")
     logger.info("--- Splitting data ---")
+    logger.info("----------------------")
 
     if train_proportion == 1:
         train = data
-        # Sample 10% of the data for testing
-        test = data.sample(round(len(data) * 0.1))
+        test = None
     else:
         train, test = train_test_split(
             data, train_size=train_proportion, test_size=(1 - train_proportion)
         )
-        test = test.reset_index(drop=True)
-
-    train = train.reset_index(drop=True)
 
+    logger.info("-----------------------")
     logger.info("--- Outputting data ---")
+    logger.info("-----------------------")
 
-    output_dataclient.save_data(
-        obj=train, location=output_train_filepath, save_config=None
-    )
+    output_dataclient.save_data(obj=train, location=output_train_filepath)
 
     if test is not None:
-        output_dataclient.save_data(
-            obj=test, location=output_test_filepath, save_config=None
-        )
+        output_dataclient.save_data(obj=test, location=output_test_filepath)
 
     return train, test
 
 
 if __name__ == "__main__":
 
+    logger.info("----------------------------")
     logger.info(f"--- {__file__} - Start! ---")
+    logger.info("----------------------------")
 
+    logger.info("----------------------------")
+    logger.info(f"--- Initiate DataClient ---")
+    logger.info("----------------------------")
+
+    input_dataclient_type = prepare_data_params["input_dataclient_type"]
+    output_dataclient_type = prepare_data_params["output_dataclient_type"]
+
+    input_dataclient = dataclient_factory(
+        dataclient_type=input_dataclient_type,
+        dataclient_config=client_params[input_dataclient_type],
+    )
+    output_dataclient = dataclient_factory(
+        dataclient_type=output_dataclient_type,
+        dataclient_config=client_params[output_dataclient_type],
+    )
+
+    logger.info("----------------------------------")
+    logger.info(f"--- Initiate FeatureProcessor ---")
+    logger.info("----------------------------------")
+
+    feature_processor = feature_processor_factory(
+        feature_process_params["feature_processor_type"]
+    )
+
+    logger.info("---------------------------")
     logger.info(f"--- Prepare Data Stage ---")
+    logger.info("---------------------------")
 
     prepare_data(
         input_dataclient=input_dataclient,
         output_dataclient=output_dataclient,
         feature_processor=feature_processor,
-        data_filepath=data_filepath,
-        train_proportion=train_proportion,
-        output_train_filepath=output_train_filepath,
-        output_test_filepath=output_test_filepath,
-        feature_processor_config=feature_processor_config,
+        data_filepath=prepare_data_params["data_filepath"],
+        train_proportion=prepare_data_params["train_proportion"],
+        output_train_filepath=prepare_data_params["output_train_filepath"],
+        output_test_filepath=prepare_data_params["output_test_filepath"],
+        feature_processor_config=feature_process_params["feature_processor_config"],
         business_logic=business_logic,
         new_feature_funcs=new_feature_funcs,
     )
 
+    logger.info("-------------------------------")
     logger.info(f"--- {__file__} - Complete! ---")
+    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline/src/requirements/predictions/requirements-dev.txt

@@ -0,0 +1,8 @@
+joblib==1.3.2
+boto3==1.28.17
+pandas==1.5.3
+autogluon==0.8.2
+pyarrow==13.0.0
+pre-commit==3.3.3
+sphinx==7.2.5
+sphinx_rtd_theme==1.3.0

modules/ml-pipeline/src/pipeline/src/requirements/predictions/requirements.txt

@@ -0,0 +1,6 @@
+joblib==1.3.2
+boto3==1.28.17
+pandas==1.5.3
+autogluon==0.8.2
+pyarrow==13.0.0
+PyYAML==6.0.1

modules/ml-pipeline/src/pipeline/src/requirements/training/requirements-dev.txt

@@ -0,0 +1,8 @@
+joblib==1.3.2
+boto3==1.28.17
+pandas==1.5.3
+autogluon==0.8.2
+pyarrow==13.0.0
+pre-commit==3.3.3
+sphinx==7.2.5
+sphinx_rtd_theme==1.3.0

modules/ml-pipeline/src/pipeline/src/requirements/training/requirements.txt

@@ -0,0 +1,3 @@
+boto3==1.28.41
+pandas==1.5.3
+autogluon==0.8.2

modules/ml-pipeline/src/pipeline/src/requirements/version_control/requirements.txt

@@ -0,0 +1,3 @@
+dvc==3.18.0
+dvc-s3==2.23.0
+gto==1.0.4

modules/ml-pipeline/src/pipeline/src/startup_cleanup.py

@@ -6,9 +6,9 @@ import shutil
 import yaml
 from pathlib import Path
 from core.Logger import logger
-from config import settings
 
-startup_cleanup_params = settings.startup_cleanup
+startup_cleanup_path = Path(__file__).parent / "configs" / "startup_cleanup.yaml"
+startup_cleanup_params = yaml.safe_load(open(startup_cleanup_path))
 
 
 def run_cleanup(artefacts_directory: str, metrics_directory: str) -> None:
@@ -16,9 +16,13 @@ def run_cleanup(artefacts_directory: str, metrics_directory: str) -> None:
     Remove the directory where artefacts are stored
     """
 
+    logger.info("---------------------")
     logger.info(f"--- Run Clean up ---")
+    logger.info("---------------------")
 
+    logger.info("-------------------------")
     logger.info(f"--- Delete artefacts ---")
+    logger.info("-------------------------")
 
     artefact_directory_path = Path(artefacts_directory)
 
@@ -27,7 +31,9 @@ def run_cleanup(artefacts_directory: str, metrics_directory: str) -> None:
         logger.info(f"Removing the directory: {artefacts_directory}")
         shutil.rmtree(artefact_directory_path)
 
+    logger.info("-----------------------")
     logger.info(f"--- Delete metrics ---")
+    logger.info("-----------------------")
 
     metrics_directory_path = Path(metrics_directory)
 
@@ -39,11 +45,15 @@ def run_cleanup(artefacts_directory: str, metrics_directory: str) -> None:
 
 if __name__ == "__main__":
 
+    logger.info("----------------------------")
     logger.info(f"--- {__file__} - Start! ---")
+    logger.info("----------------------------")
 
     run_cleanup(
         artefacts_directory=startup_cleanup_params["artefacts"],
         metrics_directory=startup_cleanup_params["metrics"],
     )
 
+    logger.info("-------------------------------")
     logger.info(f"--- {__file__} - Complete! ---")
+    logger.info("-------------------------------")

modules/ml-pipeline/src/pipeline2/README.md

@@ -0,0 +1,3 @@
+# Pipeline2
+
+PLACEHOLDER PIPELINE IF NEEDED