1 - Wallaroo Edge Computer Vision For Health Care Imaging Demonstration: Preparation

A demonstration on publishing a CV model for health care images based Wallaroo pipeline to Edge devices.

The following tutorial is available on the Wallaroo Github Repository.

Image Detection for Health Care Computer Vision Tutorial Part 00: Prerequisites

The following tutorial demonstrates how to use Wallaroo to detect mitochondria from high resolution images. For this example we will be using a high resolution 1536x2048 image that is broken down into “patches” of 256x256 images that can be quickly analyzed.

Mitochondria are known as the “powerhouse” of the cell, and having a healthy amount of mitochondria indicates that a patient has enough energy to live a healthy life, or may have underlying issues that a doctor can check for.

Scanning high resolution images of patient cells can be used to count how many mitochondria a patient has, but the process is laborious. The following ML Model is trained to examine an image of cells, then detect which structures are mitochondria. This is used to speed up the process of testing patients and determining next steps.

Prerequisites

The included TiffImagesUtils class is included in this demonstration as CVDemoUtils.py, and requires the following dependencies:

  • ffmpeg
  • libsm
  • libxext

Internal JupyterHub Service

To install these dependencies in the Wallaroo JupyterHub service, use the following commands from a terminal shell via the following procedure:

  1. Launch the JupyterHub Service within the Wallaroo install.

  2. Select File->New->Terminal.

  3. Enter the following:

    sudo apt-get update
    
    sudo apt-get install ffmpeg libsm6 libxext6  -y
    

External SDK Users

For users using the Wallaroo SDK to connect with a remote Wallaroo instance, the following commands will install the required dependancies:

For Linux users, this can be installed with:

sudo apt-get update
sudo apt-get install ffmpeg libsm6 libxext6  -y

MacOS users can prepare their environments using a package manager such as Brew with the following:

brew install ffmpeg libsm libxext

### Libraries and Dependencies

1. This repository may use large file sizes for the models.  If necessary, install [Git Large File Storage (LFS)](https://git-lfs.com) or use the [Wallaroo Tutorials Releases](https://github.com/WallarooLabs/Wallaroo_Tutorials/releases) to download a .zip file of the most recent computer vision tutorial that includes the models.
1. Import the following Python libraries into your environment:
    1. [torch](https://pypi.org/project/torch/)
    1. [wallaroo](https://pypi.org/project/wallaroo/)
    1. [torchvision](https://pypi.org/project/torchvision/)
    1. [opencv-python](https://pypi.org/project/opencv-python/)
    1. [onnx](https://pypi.org/project/onnx/)
    1. [onnxruntime](https://pypi.org/project/onnxruntime/)
    1. [imutils](https://pypi.org/project/imutils/)
    1. [pytz](https://pypi.org/project/pytz/)
    1. [ipywidgets](https://pypi.org/project/ipywidgets/)

These can be installed by running the command below in the Wallaroo JupyterHub service.  Note the use of `pip install torch --no-cache-dir` for low memory environments.

```python
!pip install torchvision==0.15.2
!pip install torch==2.0.1 --no-cache-dir
!pip install opencv-python==4.7.0.72
!pip install onnx==1.12.0
!pip install onnxruntime==1.15.0
!pip install imutils==0.5.4
!pip install pytz
!pip install ipywidgets==8.0.6
!pip install patchify==0.2.3
!pip install tifffile==2023.4.12
!pip install piexif==1.1.3
Requirement already satisfied: torchvision==0.15.2 in /opt/conda/lib/python3.9/site-packages (0.15.2)
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Wallaroo SDK

The Wallaroo SDK is provided by default with the Wallaroo instance’s JupyterHub service. To install the Wallaroo SDK manually, it is provided from the Python Package Index and is installed with pip. Verify that the same version of the Wallaroo SDK is the same version as the Wallaroo instance. For example for Wallaroo release 2023.2, the SDK install command is:

pip install wallaroo==2023.3.0

See the Wallaroo SDK Install Guides for full details.

1.1 - Wallaroo Edge Computer Vision For Health Care Imaging Demonstration: Preparation

A demonstration on publishing a CV model based Wallaroo pipeline to Edge devices.

The following tutorial is available on the Wallaroo Github Repository.

Computer Vision Healthcare Images Edge Deployment Demonstration

The following tutorial demonstrates how to use Wallaroo to detect mitochondria from high resolution images, publish the Wallaroo pipeline to an Open Container Initiative (OCI) Registry, and deploy it in an edge system. For this example we will be using a high resolution 1536x2048 image that is broken down into “patches” of 256x256 images that can be quickly analyzed.

Mitochondria are known as the “powerhouse” of the cell, and having a healthy amount of mitochondria indicates that a patient has enough energy to live a healthy life, or may have underling issues that a doctor can check for.

Scanning high resolution images of patient cells can be used to count how many mitochondria a patient has, but the process is laborious. The following ML Model is trained to examine an image of cells, then detect which structures are mitochondria. This is used to speed up the process of testing patients and determining next steps.

Tutorial Goals

This tutorial will perform the following:

  1. As a Data Scientist in the Wallaroo Ops instance:
    1. Upload and deploy the mitochondria_epochs_15.onnx model to a Wallaroo pipeline.
    2. Randomly select from from a selection of 256x256 images that were originally part of a larger 1536x2048 image.
    3. Convert the images into a numpy array inserted into a pandas DataFrame.
    4. Submit the DataFrame to the Wallaroo pipeline and use the results to create a mask image of where the model detects mitochondria.
    5. Compare the original image against a map of “ground truth” and the model’s mask image.
    6. Undeploy the pipeline and return the resources back to the Wallaroo instance.
    7. Publish the pipeline to an Edge deployment registry.
    8. Display different pipeline publishes functions.
  2. As a DevOps Engineer in a remote aka edge device:
    1. Deploy the published pipeline as a Wallaroo Inference Server through a Docker based deployment.
    2. Perform inference requests using the same data samples as in the Wallaroo deployed pipeline.
    3. Display the results.

References

Prerequisites

Complete the steps from Mitochondria Detection Computer Vision Tutorial Part 00: Prerequisites.

Mitochondria Computer Vision Detection Steps

Import Libraries

The first step is to import the necessary libraries. Included with this tutorial are the following custom modules:

  • tiff_utils: Organizes the tiff images to perform random image selections and other tasks.

Note that tensorflow may return warnings depending on the environment.

import json
import IPython.display as display
import time
import matplotlib.pyplot as plt
from IPython.display import clear_output, display
from lib.TiffImageUtils import TiffUtils
import tifffile as tiff
import requests

import pandas as pd

import wallaroo
from wallaroo.object import EntityNotFoundError
from wallaroo.framework import Framework

import numpy as np
from matplotlib import pyplot as plt
import cv2
from tensorflow.keras.utils import normalize

tiff_utils = TiffUtils()

# used for unique connection names

import string
import random

suffix= ''.join(random.choice(string.ascii_lowercase) for i in range(4))

# ignoring warnings for demonstration
import warnings
warnings.filterwarnings('ignore')

Open a Connection to Wallaroo

The next step is connect to Wallaroo through the Wallaroo client. The Python library is included in the Wallaroo install and available through the Jupyter Hub interface provided with your Wallaroo environment.

This is accomplished using the wallaroo.Client() command, which provides a URL to grant the SDK permission to your specific Wallaroo environment. When displayed, enter the URL into a browser and confirm permissions. Store the connection into a variable that can be referenced later.

If logging into the Wallaroo instance through the internal JupyterHub service, use wl = wallaroo.Client(). If logging in externally, update the wallarooPrefix and wallarooSuffix variables with the proper DNS information. For more information on Wallaroo DNS settings, see the Wallaroo DNS Integration Guide.

wl = wallaroo.Client()

Create Workspace and Pipeline

We will create a workspace to manage our pipeline and models. The following variables will set the name of our sample workspace then set it as the current workspace.

Workspace, pipeline, and model names should be unique to each Wallaroo instance, so we’ll add in a randomly generated suffix so multiple people can run this tutorial in a Wallaroo instance without affecting each other.

workspace_name = f'edgebiolabsworkspace{suffix}'
pipeline_name = f'edgebiolabspipeline'
model_name = f'edgebiolabsmodel'
model_file_name = 'models/mitochondria_epochs_15.onnx'
def get_workspace(name):
    workspace = None
    for ws in wl.list_workspaces():
        if ws.name() == name:
            workspace= ws
    if(workspace == None):
        workspace = wl.create_workspace(name)
    return workspace

def get_pipeline(name):
    try:
        pipeline = wl.pipelines_by_name(name)[0]
    except EntityNotFoundError:
        pipeline = wl.build_pipeline(name)
    return pipeline
workspace = get_workspace(workspace_name)

wl.set_current_workspace(workspace)

pipeline = get_pipeline(pipeline_name)
pipeline
nameedgebiolabspipeline
created2023-09-08 18:50:52.714306+00:00
last_updated2023-09-08 18:54:59.685240+00:00
deployedFalse
tags
versions59a163a3-e9c7-4213-88bf-d732bcae7dbd, d608aa0f-4961-496f-b57c-ce02299b4e39, bf426f14-e3c4-4450-81d4-e833026505a9, b56f68b5-ae1d-49dc-b640-c964b10b117f, 951e4096-b3d7-426d-9eee-2b763d4a0558, e36b6b52-5652-440e-b856-89e42782b62f, 46ad2f62-987f-459d-8283-f495300647fa, 9c283c94-0ecd-4160-998e-b462d03008e1, 78b125a9-5311-46e7-adc8-5794f9ca29f0
stepsedgebiolabsmodel
publishedTrue

Upload the Models

Now we will:

  1. Upload our model.
  2. Apply it as a step in our pipeline.
  3. Create a pipeline deployment with enough memory to perform the inferences.
  4. Deploy the pipeline.
model = wl.upload_model(model_name, model_file_name, framework=Framework.ONNX)

Reserve Pipeline Resources

Before deploying an inference engine we need to tell wallaroo what resources it will need.
To do this we will use the wallaroo DeploymentConfigBuilder() and fill in the options listed below to determine what the properties of our inference engine will be.

We will be testing this deployment for an edge scenario, so the resource specifications are kept small – what’s the minimum needed to meet the expected load on the planned hardware.

  • cpus - 4 => allow the engine to use 4 CPU cores when running the neural net
  • memory - 8Gi => each inference engine will have 8 GB of memory, which is plenty for processing a single image at a time.
deployment_config = wallaroo.DeploymentConfigBuilder().replica_count(1).cpus(4).memory("8Gi").build()

pipeline = wl.build_pipeline(pipeline_name) \
            .clear() \
            .add_model_step(model) \
            .deploy(deployment_config = deployment_config)
pipeline.deploy()
nameedgebiolabspipeline
created2023-09-08 18:50:52.714306+00:00
last_updated2023-09-08 19:02:06.905356+00:00
deployedTrue
tags
versionsb411c8aa-8368-484f-a615-d2a2bce634ca, 0321956b-098c-47eb-8f4c-3bd90e443f2d, 88bcc7a5-d618-4c72-90e5-651f1e252db9, d2425979-98ac-468c-83db-dd4f542e7217, 59a163a3-e9c7-4213-88bf-d732bcae7dbd, d608aa0f-4961-496f-b57c-ce02299b4e39, bf426f14-e3c4-4450-81d4-e833026505a9, b56f68b5-ae1d-49dc-b640-c964b10b117f, 951e4096-b3d7-426d-9eee-2b763d4a0558, e36b6b52-5652-440e-b856-89e42782b62f, 46ad2f62-987f-459d-8283-f495300647fa, 9c283c94-0ecd-4160-998e-b462d03008e1, 78b125a9-5311-46e7-adc8-5794f9ca29f0
stepsedgebiolabsmodel
publishedTrue
pipeline.status()
{'status': 'Running',
 'details': [],
 'engines': [{'ip': '10.244.3.161',
   'name': 'engine-5577857f96-z52g4',
   'status': 'Running',
   'reason': None,
   'details': [],
   'pipeline_statuses': {'pipelines': [{'id': 'edgebiolabspipeline',
      'status': 'Running'}]},
   'model_statuses': {'models': [{'name': 'edgebiolabsmodel',
      'version': 'd023bbc7-9c4d-44b8-92a8-27c0b1e9bcb4',
      'sha': 'e80fcdaf563a183b0c32c027dcb3890a64e1764d6d7dcd29524cd270dd42e7bd',
      'status': 'Running'}]}}],
 'engine_lbs': [{'ip': '10.244.4.193',
   'name': 'engine-lb-584f54c899-gswpx',
   'status': 'Running',
   'reason': None,
   'details': []}],
 'sidekicks': []}

Retrieve Image and Convert to Data

The next step is to process the image into a numpy array that the model is trained to detect from.

We start by retrieving all the patch images from a recorded time series tiff recorded on one of our microscopes.

For this tutorial, we will be using the path ./patches/condensed, with a more limited number of images to save on local memory.

sample_mitochondria_patches_path = "./patches/condensed"

patches = tiff_utils.get_all_patches(sample_mitochondria_patches_path)

Randomly we will retrieve a 256x256 patch image and use it to do our semantic segmentation prediction.

We’ll then convert it into a numpy array and insert into a DataFrame for a single inference.

The following helper function loadImageAndConvertTiff is used to convert the image into a numpy, then insert that into the DataFrame. This allows a later command to take the randomly grabbed image perform the process on other images.

def loadImageAndConvertTiff(imagePath, width, height):
    img = cv2.imread(imagePath, 0)
    imgNorm = np.expand_dims(normalize(np.array(img), axis=1),2)
    imgNorm=imgNorm[:,:,0][:,:,None]
    imgNorm=np.expand_dims(imgNorm, 0)
    
    resizedImage = None
    #creates a dictionary with the wallaroo "tensor" key and the numpy ndim array representing image as the value.
    dictData = {"tensor":[imgNorm]}
    dataframedata = pd.DataFrame(dictData)
    # display(dataframedata)
    return dataframedata, resizedImage
def run_semantic_segmentation_inference(pipeline, input_tiff_image, width, height, threshold):
    
    tensor, resizedImage = loadImageAndConvertTiff(input_tiff_image, width, height)
    # print(tensor)

    # #
    # # run inference on the 256x256 patch image get the predicted mitochandria mask
    # #
    output = pipeline.infer(tensor)
    # print(output)

    # # Obtain the flattened predicted mitochandria mask result
    list1d = output.loc[0]["out.conv2d_37"]
    np1d = np.array(list1d)
    
    # # unflatten it
    predicted_mask = np1d.reshape(1,width,height,1)
    
    # # perform the element-wise comaprison operation using the threshold provided
    predicted_mask = (predicted_mask[0,:,:,0] > threshold).astype(np.uint8)
    
    # return predicted_mask
    return predicted_mask

Infer and Display Results

We will now perform our inferences and display the results. This results in a predicted mask showing us where the mitochondria cells are located.

  1. The first image is the input image.
  2. The 2nd image is the ground truth. The mask was created by a human who identified the mitochondria cells in the input image
  3. The 3rd image is the predicted mask after running inference on the Wallaroo pipeline.

We’ll perform this 10 times to show how quickly the inferences can be submitted.

random_patches = []

for x in range(10):
    random_patches.append(tiff_utils.get_random_patch_sample(patches))

for random_patch in random_patches:     
    # get a sample 256x256 mitochondria image
    # random_patch = tiff_utils.get_random_patch_sample(patches)

    # build the path to the image
    patch_image_path = sample_mitochondria_patches_path + "/images/" + random_patch['patch_image_file']

    # run inference in order to get the predicted 256x256 mask
    predicted_mask = run_semantic_segmentation_inference(pipeline, patch_image_path, 256,256, 0.2)

    # # plot the results
    test_image = random_patch['patch_image'][:,:,0]
    test_image_title = f"Testing Image - {random_patch['index']}"

    ground_truth_image = random_patch['patch_mask'][:,:,0]
    ground_truth_image_title = "Ground Truth Mask"

    predicted_mask_title = 'Predicted Mask'

    tiff_utils.plot_test_results(test_image, test_image_title, \
                            ground_truth_image, ground_truth_image_title, \
                            predicted_mask, predicted_mask_title)

Undeploy Pipeline

With the experiment complete, we will undeploy the pipeline.

pipeline.undeploy()
nameedgebiolabspipeline
created2023-09-08 18:50:52.714306+00:00
last_updated2023-09-08 18:59:30.140145+00:00
deployedFalse
tags
versions0321956b-098c-47eb-8f4c-3bd90e443f2d, 88bcc7a5-d618-4c72-90e5-651f1e252db9, d2425979-98ac-468c-83db-dd4f542e7217, 59a163a3-e9c7-4213-88bf-d732bcae7dbd, d608aa0f-4961-496f-b57c-ce02299b4e39, bf426f14-e3c4-4450-81d4-e833026505a9, b56f68b5-ae1d-49dc-b640-c964b10b117f, 951e4096-b3d7-426d-9eee-2b763d4a0558, e36b6b52-5652-440e-b856-89e42782b62f, 46ad2f62-987f-459d-8283-f495300647fa, 9c283c94-0ecd-4160-998e-b462d03008e1, 78b125a9-5311-46e7-adc8-5794f9ca29f0
stepsedgebiolabsmodel
publishedTrue

Publish the Pipeline for Edge Deployment

It worked! For a demo, we’ll take working once as “tested”. So now that we’ve tested our pipeline, we are ready to publish it for edge deployment.

Publishing it means assembling all of the configuration files and model assets and pushing them to an Open Container Initiative (OCI) repository set in the Wallaroo instance as the Edge Registry service. DevOps engineers then retrieve that image and deploy it through Docker, Kubernetes, or similar deployments.

See Edge Deployment Registry Guide for details on adding an OCI Registry Service to Wallaroo as the Edge Deployment Registry.

This is done through the SDK command wallaroo.pipeline.publish(deployment_config) which has the following parameters and returns.

Publish a Pipeline Parameters

The publish method takes the following parameters. The containerized pipeline will be pushed to the Edge registry service with the model, pipeline configurations, and other artifacts needed to deploy the pipeline.

ParameterTypeDescription
deployment_configwallaroo.deployment_config.DeploymentConfig (Optional)Sets the pipeline deployment configuration. For example: For more information on pipeline deployment configuration, see the Wallaroo SDK Essentials Guide: Pipeline Deployment Configuration.

Publish a Pipeline Returns

FieldTypeDescription
idintegerNumerical Wallaroo id of the published pipeline.
pipeline version idintegerNumerical Wallaroo id of the pipeline version published.
statusstringThe status of the pipeline publication. Values include:
  • PendingPublish: The pipeline publication is about to be uploaded or is in the process of being uploaded.
  • Published: The pipeline is published and ready for use.
Engine URLstringThe URL of the published pipeline engine in the edge registry.
Pipeline URLstringThe URL of the published pipeline in the edge registry.
Helm Chart URLstringThe URL of the helm chart for the published pipeline in the edge registry.
Helm Chart ReferencestringThe help chart reference.
Helm Chart VersionstringThe version of the Helm Chart of the published pipeline. This is also used as the Docker tag.
Engine Configwallaroo.deployment_config.DeploymentConfigThe pipeline configuration included with the published pipeline.
Created AtDateTimeWhen the published pipeline was created.
Updated AtDateTimeWhen the published pipeline was updated.

Publish Example

We will now publish the pipeline to our Edge Deployment Registry with the pipeline.publish(deployment_config) command. deployment_config is an optional field that specifies the pipeline deployment. This can be overridden by the DevOps engineer during deployment.

pub=pipeline.publish(deployment_config)
pub
Waiting for pipeline publish... It may take up to 600 sec.
Pipeline is Publishing...Published.
ID11
Pipeline Version59a163a3-e9c7-4213-88bf-d732bcae7dbd
StatusPublished
Engine URLghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798
Pipeline URLghcr.io/wallaroolabs/doc-samples/pipelines/edgebiolabspipeline:59a163a3-e9c7-4213-88bf-d732bcae7dbd
Helm Chart URLghcr.io/wallaroolabs/doc-samples/charts/edgebiolabspipeline
Helm Chart Referenceghcr.io/wallaroolabs/doc-samples/charts@sha256:5d2a7b51c608133c6718a40d3dd589612260fd2f629de472ba13e7f95553fada
Helm Chart Version0.0.1-59a163a3-e9c7-4213-88bf-d732bcae7dbd
Engine Config{'engine': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}, 'engineAux': {'images': {}}, 'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}}
User Images[]
Created Byjohn.hummel@wallaroo.ai
Created At2023-09-08 18:54:59.802486+00:00
Updated At2023-09-08 18:54:59.802486+00:00

List Published Pipeline

The method wallaroo.client.list_pipelines() shows a list of all pipelines in the Wallaroo instance, and includes the published field that indicates whether the pipeline was published to the registry (True), or has not yet been published (False).

wl.list_pipelines()
namecreatedlast_updateddeployedtagsversionsstepspublished
edgebiolabspipeline2023-08-Sep 18:50:522023-08-Sep 18:54:04Trued608aa0f-4961-496f-b57c-ce02299b4e39, bf426f14-e3c4-4450-81d4-e833026505a9, b56f68b5-ae1d-49dc-b640-c964b10b117f, 951e4096-b3d7-426d-9eee-2b763d4a0558, e36b6b52-5652-440e-b856-89e42782b62f, 46ad2f62-987f-459d-8283-f495300647fa, 9c283c94-0ecd-4160-998e-b462d03008e1, 78b125a9-5311-46e7-adc8-5794f9ca29f0edgebiolabsmodelTrue
edge-cv-demo2023-08-Sep 18:25:242023-08-Sep 18:37:14False69a912fb-47da-4049-98d5-aa024e7d66b2, 482fc033-00a6-42e7-b359-90611b76f74d, 32805f9a-40eb-4366-b444-635ab466ef76, b412ff15-c87b-46ea-8d96-48868b7867f0, aaf2c947-af26-4b0e-9819-f8aca5657017, 7ad0a22c-6472-4390-8f33-a8b3eccc7877, c73bbf20-8fe3-4714-be5e-e35773fe4779, fc431a83-22dc-43db-8610-cde3095af584resnet-50True
edge-pipeline2023-08-Sep 17:30:282023-08-Sep 18:21:00False2d8f9e1d-dc65-4e90-a5ce-ee619162d8cd, 1ea2d089-1127-464d-a980-e087d1f052e2ccfraudTrue
edge-pipeline2023-08-Sep 17:24:442023-08-Sep 17:24:59False873582f4-4b39-4a69-a2b9-536a0e29927c, 079cf5a1-7e95-4cb7-ae40-381b538371dbccfraudTrue
edge-pipeline-classification-cybersecurity2023-08-Sep 15:40:282023-08-Sep 15:45:22False60222730-4fb5-4179-b8bf-fa53762fecd1, 86040216-0bbb-4715-b08f-da461857c515, 34204277-bdbd-4ae2-9ce9-86dabe4be5f5, 729ccaa2-41b5-4c8f-89f4-fe1e98f2b303, 216bb86b-f6e8-498f-b8a5-020347355715alohaTrue
edge-pipeline2023-08-Sep 15:36:032023-08-Sep 15:36:03False83b49e9e-f43d-4459-bb2a-7fa144352307, 73a5d31f-75f5-42c4-9a9d-3ee524113b6calohaFalse
vgg16-clustering-pipeline2023-08-Sep 14:52:442023-08-Sep 14:56:09False50d6586a-0661-4f26-802d-c71da2ceea2e, d94e44b3-7ff6-4138-8b76-be1795cb6690, 8d2a8143-2255-408a-bd09-e3008a5bde0bvgg16-clusteringTrue

List Publishes from a Pipeline

All publishes created from a pipeline are displayed with the wallaroo.pipeline.publishes method. The pipeline_version_id is used to know what version of the pipeline was used in that specific publish. This allows for pipelines to be updated over time, and newer versions to be sent and tracked to the Edge Deployment Registry service.

List Publishes Parameters

N/A

List Publishes Returns

A List of the following fields:

FieldTypeDescription
idintegerNumerical Wallaroo id of the published pipeline.
pipeline_version_idintegerNumerical Wallaroo id of the pipeline version published.
engine_urlstringThe URL of the published pipeline engine in the edge registry.
pipeline_urlstringThe URL of the published pipeline in the edge registry.
created_bystringThe email address of the user that published the pipeline.
Created AtDateTimeWhen the published pipeline was created.
Updated AtDateTimeWhen the published pipeline was updated.
pipeline.publishes()
idpipeline_version_nameengine_urlpipeline_urlcreated_bycreated_atupdated_at
10d608aa0f-4961-496f-b57c-ce02299b4e39ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798ghcr.io/wallaroolabs/doc-samples/pipelines/edgebiolabspipeline:d608aa0f-4961-496f-b57c-ce02299b4e39john.hummel@wallaroo.ai2023-08-Sep 18:54:042023-08-Sep 18:54:04

Undeploy Pipeline

With the testing complete, the pipeline is undeployed and the resources returned back to the Wallaroo instance.

pipeline.undeploy()
Waiting for undeployment - this will take up to 45s .................................... ok
nameedgebiolabspipeline
created2023-09-08 18:50:52.714306+00:00
last_updated2023-09-08 18:54:04.264810+00:00
deployedFalse
tags
versionsd608aa0f-4961-496f-b57c-ce02299b4e39, bf426f14-e3c4-4450-81d4-e833026505a9, b56f68b5-ae1d-49dc-b640-c964b10b117f, 951e4096-b3d7-426d-9eee-2b763d4a0558, e36b6b52-5652-440e-b856-89e42782b62f, 46ad2f62-987f-459d-8283-f495300647fa, 9c283c94-0ecd-4160-998e-b462d03008e1, 78b125a9-5311-46e7-adc8-5794f9ca29f0
stepsedgebiolabsmodel
publishedFalse

DevOps - Pipeline Edge Deployment

Once a pipeline is deployed to the Edge Registry service, it can be deployed in environments such as Docker, Kubernetes, or similar container running services by a DevOps engineer.

Docker Deployment

First, the DevOps engineer must authenticate to the same OCI Registry service used for the Wallaroo Edge Deployment registry.

For more details, check with the documentation on your artifact service. The following are provided for the three major cloud services:

For the deployment, the engine URL is specified with the following environmental variables:

  • DEBUG (true|false): Whether to include debug output.
  • OCI_REGISTRY: The URL of the registry service.
  • CONFIG_CPUS: The number of CPUs to use.
  • OCI_USERNAME: The edge registry username.
  • OCI_PASSWORD: The edge registry password or token.
  • PIPELINE_URL: The published pipeline URL.

Docker Deployment Example

Using our sample environment, here’s sample deployment using Docker with a computer vision ML model, the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials.

For docker run commands, the persistent volume for storing session data is stored with -v ./data:/persist. Updated as required for your deployments.

docker run -p 8080:8080 \
    -v ./data:/persist \
    -e DEBUG=true -e OCI_REGISTRY={your registry server} \
    -e CONFIG_CPUS=4 \
    -e OCI_USERNAME=oauth2accesstoken \
    -e OCI_PASSWORD={registry token here} \
    -e PIPELINE_URL={your registry server}/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555 \
    {your registry server}/engine:v2023.3.0-main-3707

Docker Compose Deployment

For users who prefer to use docker compose, the following sample compose.yaml file is used to launch the Wallaroo Edge pipeline. This is the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials. The session and other data is stored with the volumes entry to add a persistent volume.

services:
  engine:
    image: {Your Engine URL}
    ports:
      - 8080:8080
    volumes:
      - ./data:/persist
    environment:
      PIPELINE_URL: {Your Pipeline URL}
      OCI_REGISTRY: {Your Edge Registry URL}
      OCI_USERNAME:  {Your Registry Username}
      OCI_PASSWORD: {Your Token or Password}
      CONFIG_CPUS: 1

For example:

services:
  engine:
    image: sample-registry.com/engine:v2023.3.0-main-3707
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
      OCI_REGISTRY: sample-registry.com
      OCI_USERNAME:  _json_key_base64
      OCI_PASSWORD: abc123
      CONFIG_CPUS: 1

Docker Compose Deployment Example

The deployment and undeployment is then just a simple docker compose up and docker compose down. The following shows an example of deploying the Wallaroo edge pipeline using docker compose.

docker compose up
[+] Running 1/1
 ✔ Container cv_data-engine-1  Recreated                                                                                                                                                                 0.5s
Attaching to cv_data-engine-1
cv_data-engine-1  | Wallaroo Engine - Standalone mode
cv_data-engine-1  | Login Succeeded
cv_data-engine-1  | Fetching manifest and config for pipeline: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
cv_data-engine-1  | Fetching model layers
cv_data-engine-1  | digest: sha256:c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   filename: c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   name: resnet-50
cv_data-engine-1  |   type: model
cv_data-engine-1  |   runtime: onnx
cv_data-engine-1  |   version: 693e19b5-0dc7-4afb-9922-e3f7feefe66d
cv_data-engine-1  |
cv_data-engine-1  | Fetched
cv_data-engine-1  | Starting engine
cv_data-engine-1  | Looking for preexisting `yaml` files in //modelconfigs
cv_data-engine-1  | Looking for preexisting `yaml` files in //pipelines

Helm Deployment

Published pipelines can be deployed through the use of helm charts.

Helm deployments take up to two steps - the first step is in retrieving the required values.yaml and making updates to override.

  1. Pull the helm charts from the published pipeline. The two fields are the Helm Chart URL and the Helm Chart version to specify the OCI . This typically takes the format of:
helm pull oci://{published.helm_chart_url} --version {published.helm_chart_version}
  1. Extract the tgz file and copy the values.yaml and copy the values used to edit engine allocations, etc. The following are required for the deployment to run:
ociRegistry:
  registry: {your registry service}
  username:  {registry username here}
  password: {registry token here}

Store this into another file, suc as local-values.yaml.

  1. Create the namespace to deploy the pipeline to. For example, the namespace wallaroo-edge-pipeline would be:
kubectl create -n wallaroo-edge-pipeline
  1. Deploy the helm installation with helm install through one of the following options:

    1. Specify the tgz file that was downloaded and the local values file. For example:

      helm install --namespace {namespace} --values {local values file} {helm install name} {tgz path}
      
    2. Specify the expended directory from the downloaded tgz file.

      helm install --namespace {namespace} --values {local values file} {helm install name} {helm directory path}
      
    3. Specify the Helm Pipeline Helm Chart and the Pipeline Helm Version.

      helm install --namespace {namespace} --values {local values file} {helm install name} oci://{published.helm_chart_url} --version {published.helm_chart_version}
      
  2. Once deployed, the DevOps engineer will have to forward the appropriate ports to the svc/engine-svc service in the specific pipeline. For example, using kubectl port-forward to the namespace ccfraud that would be:

    kubectl port-forward svc/engine-svc -n ccfraud01 8080 --address 0.0.0.0`
    

The following code segment generates a docker compose template based on the previously published pipeline.

docker_compose = f'''
services:
  engine:
    image: {pub.engine_url}
    ports:
      - 8080:8080
    volumes:
      - ./data:/persist
    environment:
      PIPELINE_URL: {pub.pipeline_url}
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 4
'''

print(docker_compose)
services:
  engine:
    image: ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: ghcr.io/wallaroolabs/doc-samples/pipelines/edgebiolabspipeline:d608aa0f-4961-496f-b57c-ce02299b4e39
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 4

Edge Deployed Pipeline API Endpoints

Once deployed, we can check the pipelines and models available. We’ll use a curl command, but any HTTP based request will work the same way.

The endpoint /pipelines returns:

  • id (String): The name of the pipeline.
  • status (String): The status as either Running, or Error if there are any issues.

For this example, the deployment is made on a machine called testboy.local. Replace this URL with the URL of you edge deployment.

!curl testboy.local:8080/pipelines
{"pipelines":[{"id":"edgebiolabspipeline","status":"Running"}]}

The endpoint /models returns a List of models with the following fields:

  • name (String): The model name.
  • sha (String): The sha hash value of the ML model.
  • status (String): The status of either Running or Error if there are any issues.
  • version (String): The model version. This matches the version designation used by Wallaroo to track model versions in UUID format.
!curl testboy.local:8080/models
{"models":[{"name":"edgebiolabsmodel","sha":"e80fcdaf563a183b0c32c027dcb3890a64e1764d6d7dcd29524cd270dd42e7bd","status":"Running","version":"37b76f7a-cef3-4dfb-8bed-c0779c0e668c"}]}

Edge Inference Endpoint

The inference endpoint takes the following pattern:

  • /pipelines/{pipeline-name}: The pipeline-name is the same as returned from the /pipelines endpoint as id.

Wallaroo inference endpoint URLs accept the following data inputs through the Content-Type header:

  • Content-Type: application/vnd.apache.arrow.file: For Apache Arrow tables.
  • Content-Type: application/json; format=pandas-records: For pandas DataFrame in record format.

Once deployed, we can perform an inference through the deployment URL.

The endpoint returns Content-Type: application/json; format=pandas-records by default with the following fields:

  • check_failures (List[Integer]): Whether any validation checks were triggered. For more information, see Wallaroo SDK Essentials Guide: Pipeline Management: Anomaly Testing.
  • elapsed (List[Integer]): A list of time in nanoseconds for:
    • [0] The time to serialize the input.
    • [1…n] How long each step took.
  • model_name (String): The name of the model used.
  • model_version (String): The version of the model in UUID format.
  • original_data: The original input data. Returns null if the input may be too long for a proper return.
  • outputs (List): The outputs of the inference result separated by data type, where each data type includes:
    • data: The returned values.
    • dim (List[Integer]): The dimension shape returned.
    • v (Integer): The vector shape of the data.
  • pipeline_name (String): The name of the pipeline.
  • shadow_data: Any shadow deployed data inferences in the same format as outputs.
  • time (Integer): The time since UNIX epoch.

We’ll repeat our process above - only this time through the Python requests library to our locally deployed pipeline.

def loadImageAndConvertTiffList(imagePath, width, height):
    img = cv2.imread(imagePath, 0)
    imgNorm = np.expand_dims(normalize(np.array(img), axis=1),2)
    imgNorm=imgNorm[:,:,0][:,:,None]
    imgNorm=np.expand_dims(imgNorm, 0)
    
    resizedImage = None
    #creates a dictionary with the wallaroo "tensor" key and the numpy ndim array representing image as the value.
    dictData = {"tensor":imgNorm.tolist()}
    dataframedata = pd.DataFrame(dictData)
    # display(dataframedata)
    return dataframedata, resizedImage
def run_semantic_segmentation_inference_requests(pipeline_url, input_tiff_image, width, height, threshold):
    
    tensor, resizedImage = loadImageAndConvertTiffList(input_tiff_image, width, height)
    # print(tensor)

    # #
    # # run inference on the 256x256 patch image get the predicted mitochondria mask
    # #

    # set the content type and accept headers
    headers = {
        'Content-Type': 'application/json; format=pandas-records'
    }

    data = tensor.to_json(orient="records")

    # print(data)

    # print(pipeline_url)

    response = requests.post(
                    pipeline_url, 
                    headers=headers, 
                    data=data, 
                    verify=True
                )

    # list1d = response.json()[0]['outputs'][0]['Float']['data']
    output = pd.DataFrame(response.json())
    # display(output)
    list1d = output.loc[0]["outputs"][0]['Float']['data']

    # output = pipeline.infer(tensor)
    # print(output)

    # # Obtain the flattened predicted mitochandria mask result
    # list1d = output.loc[0]["out.conv2d_37"]
    np1d = np.array(list1d)
    
    # # # unflatten it
    predicted_mask = np1d.reshape(1,width,height,1)
    
    # # # perform the element-wise comaprison operation using the threshold provided
    predicted_mask = (predicted_mask[0,:,:,0] > threshold).astype(np.uint8)
    
    # # return predicted_mask
    return predicted_mask
# set this to your deployed pipeline's URL

host = 'http://testboy.local:8080'

deployurl = f'{host}/pipelines/edgebiolabspipeline'

for random_patch in random_patches:      

    # build the path to the image
    patch_image_path = sample_mitochondria_patches_path + "/images/" + random_patch['patch_image_file']

    # run inference in order to get the predicted 256x256 mask
    predicted_mask = run_semantic_segmentation_inference_requests(deployurl, patch_image_path, 256,256, 0.2)
    
    # # plot the results
    test_image = random_patch['patch_image'][:,:,0]
    test_image_title = f"Testing Image - {random_patch['index']}"

    ground_truth_image = random_patch['patch_mask'][:,:,0]
    ground_truth_image_title = "Ground Truth Mask"

    predicted_mask_title = 'Predicted Mask'

    tiff_utils.plot_test_results(test_image, test_image_title, \
                            ground_truth_image, ground_truth_image_title, \
                            predicted_mask, predicted_mask_title)

2 - Wallaroo Edge Classification Financial Services Deployment via MLOps API Demonstration

A demonstration on publishing a classification financial services model for edge deployment via the Wallaroo MLOps API.

The following tutorial is available on the Wallaroo Github Repository.

Classification Financial Services Edge Deployment Demonstration via API

This notebook will walk through building Wallaroo pipeline with a a Classification model deployed to detect the likelihood of credit card fraud, then publishing that pipeline to an Open Container Initiative (OCI) Registry where it can be deployed in other Docker and Kubernetes environments. This example uses the Wallaroo MLOps API.

This demonstration will focus on deployment to the edge.

This demonstration performs the following:

  1. As a Data Scientist in Wallaroo Ops:
    1. Upload a computer vision model to Wallaroo, deploy it in a Wallaroo pipeline, then perform a sample inference.
    2. Publish the pipeline to an Open Container Initiative (OCI) Registry service. This is configured in the Wallaroo instance. See Edge Deployment Registry Guide for details on adding an OCI Registry Service to Wallaroo as the Edge Deployment Registry. This demonstration uses a GitHub repository - see Introduction to GitHub Packages for setting up your own package repository using GitHub, which can then be used with this tutorial.
    3. View the pipeline publish details.
  2. As a DevOps Engineer in a remote aka edge device:
    1. Deploy the published pipeline as a Wallaroo Inference Server. This example will use Docker.
    2. Perform a sample inference through the Wallaroo Inference Server with the same data used in the data scientist example.

References

Data Scientist Pipeline Publish Steps

Load Libraries

The first step is to import the libraries used in this notebook.

import wallaroo
from wallaroo.object import EntityNotFoundError

import pyarrow as pa
import pandas as pd
import requests

# used to display dataframe information without truncating
from IPython.display import display
pd.set_option('display.max_colwidth', None)

Connect to the Wallaroo Instance through the User Interface

The next step is to connect to Wallaroo through the Wallaroo client. The Python library is included in the Wallaroo install and available through the Jupyter Hub interface provided with your Wallaroo environment.

This is accomplished using the wallaroo.Client() command, which provides a URL to grant the SDK permission to your specific Wallaroo environment. When displayed, enter the URL into a browser and confirm permissions. Store the connection into a variable that can be referenced later.

If logging into the Wallaroo instance through the internal JupyterHub service, use wl = wallaroo.Client(). For more information on Wallaroo Client settings, see the Client Connection guide.

wl = wallaroo.Client()

Create a New Workspace

We’ll use the SDK below to create our workspace , assign as our current workspace, then display all of the workspaces we have at the moment. We’ll also set up variables for our models and pipelines down the road, so we have one spot to change names to whatever fits your organization’s standards best.

To allow this tutorial to be run by multiple users in the same Wallaroo instance, a random 4 character prefix will be added to the workspace, pipeline, and model. Feel free to set suffix='' if this is not required.

import string
import random

# make a random 4 character suffix to verify uniqueness in tutorials
suffix= ''.join(random.choice(string.ascii_lowercase) for i in range(4))

workspace_name = f'edge-publish-api-demo{suffix}'
pipeline_name = 'edge-pipeline'
model_name = 'ccfraud'
model_file_name = './models/xgboost_ccfraud.onnx'
def get_workspace(name):
    workspace = None
    for ws in wl.list_workspaces():
        if ws.name() == name:
            workspace= ws
    if(workspace == None):
        workspace = wl.create_workspace(name)
    return workspace

def get_pipeline(name):
    try:
        pipeline = wl.pipelines_by_name(name)[0]
    except EntityNotFoundError:
        pipeline = wl.build_pipeline(name)
    return pipeline
workspace = get_workspace(workspace_name)

wl.set_current_workspace(workspace)
{'name': 'edge-publish-api-demozbnv', 'id': 27, 'archived': False, 'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5', 'created_at': '2023-09-19T19:44:20.31345+00:00', 'models': [], 'pipelines': []}

Upload the Model

When a model is uploaded to a Wallaroo cluster, it is optimized and packaged to make it ready to run as part of a pipeline. In many times, the Wallaroo Server can natively run a model without any Python overhead. In other cases, such as a Python script, a custom Python environment will be automatically generated. This is comparable to the process of “containerizing” a model by adding a small HTTP server and other wrapping around it.

Our pretrained model is in ONNX format, which is specified in the framework parameter.

edge_demo_model = wl.upload_model(
    model_name,
    model_file_name,
    framework=wallaroo.framework.Framework.ONNX,
).configure(tensor_fields=["tensor"])

Reserve Pipeline Resources

Before deploying an inference engine we need to tell wallaroo what resources it will need.
To do this we will use the wallaroo DeploymentConfigBuilder() and fill in the options listed below to determine what the properties of our inference engine will be.

We will be testing this deployment for an edge scenario, so the resource specifications are kept small – what’s the minimum needed to meet the expected load on the planned hardware.

  • cpus - 0.5 => allow the engine to use 4 CPU cores when running the neural net
  • memory - 900Mi => each inference engine will have 2 GB of memory, which is plenty for processing a single image at a time.
  • arch - we will specify the X86 architecture.
deploy_config = (wallaroo
                 .DeploymentConfigBuilder()
                 .replica_count(1)
                 .cpus(1)
                 .memory("900Mi")
                 .build()
                 )

Simulated Edge Deployment

We will now deploy our pipeline into the current Kubernetes environment using the specified resource constraints. This is a “simulated edge” deploy in that we try to mimic the edge hardware as closely as possible.

pipeline = get_pipeline(pipeline_name)
display(pipeline)

pipeline.add_model_step(edge_demo_model)

pipeline.deploy(deployment_config = deploy_config)
nameedge-pipeline
created2023-09-19 19:38:20.298800+00:00
last_updated2023-09-19 19:41:15.049021+00:00
deployedFalse
tags
versionsde226e15-5500-4b26-9c80-ee089e196585, 15be4514-3459-462c-a633-153511608d4a
stepsccfraud-xgboost
publishedFalse
nameedge-pipeline
created2023-09-19 19:44:25.627257+00:00
last_updated2023-09-19 19:44:25.627257+00:00
deployedTrue
tags
versionsed209209-c8dc-4d9b-b381-1255e1d57800
stepsccfraud
publishedFalse

Run Single Image Inference

A single image, encoded using the Apache Arrow format, is sent to the deployed pipeline. Arrow is used here because, as a binary protocol, there is far lower network and compute overhead than using JSON. The Wallaroo Server engine accepts both JSON, pandas DataFrame, and Apache Arrow formats.

The sample DataFrames and arrow tables are in the ./data directory. We’ll use the Apache Arrow table cc_data_10k.arrow.

Once complete, we’ll display how long the inference request took.

deploy_url = pipeline._deployment._url()

headers = wl.auth.auth_header()

headers['Content-Type']='application/vnd.apache.arrow.file'
# headers['Content-Type']='application/json; format=pandas-records'
headers['Accept']='application/json; format=pandas-records'

dataFile = './data/cc_data_10k.arrow'
!curl -X POST {deploy_url} \
     -H "Authorization:{headers['Authorization']}" \
     -H "Content-Type:{headers['Content-Type']}" \
     -H "Accept:{headers['Accept']}" \
     --data-binary @{dataFile} > curl_response.df.json
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 7731k  100 6568k  100 1162k  2343k   414k  0:00:02  0:00:02 --:--:-- 2761k

Undeploy the Pipeline

With the testing complete, we can undeploy the pipeline. Note that deploying and undeploying a pipeline is not required for publishing a pipeline to the Edge Registry - this is done just for this demonstration.

pipeline.undeploy()
nameedge-pipeline
created2023-09-19 19:44:25.627257+00:00
last_updated2023-09-19 19:44:25.627257+00:00
deployedFalse
tags
versionsed209209-c8dc-4d9b-b381-1255e1d57800
stepsccfraud
publishedFalse

Publish the Pipeline for Edge Deployment

It worked! For a demo, we’ll take working once as “tested”. So now that we’ve tested our pipeline, we are ready to publish it for edge deployment.

Publishing it means assembling all of the configuration files and model assets and pushing them to an Open Container Initiative (OCI) repository set in the Wallaroo instance as the Edge Registry service. DevOps engineers then retrieve that image and deploy it through Docker, Kubernetes, or similar deployments.

See Edge Deployment Registry Guide for details on adding an OCI Registry Service to Wallaroo as the Edge Deployment Registry.

This is done through the SDK command wallaroo.pipeline.publish(deployment_config) which has the following parameters and returns.

Publish a Pipeline Endpoint

Pipelines are published as images to the edge registry set in the Enable Wallaroo Edge Registry through the following endpoint.

  • Endpoint:
    • /v1/api/pipelines/publish
  • Parameters
    • pipeline_id (Integer Required): The numerical id of the pipeline to publish to the edge registry.
    • pipeline_version_id (Integer Required): The numerical id of the pipeline’s version to publish to the edge registry.
    • model_config_ids (List Optional): The list of model config ids to include.
  • Returns
    • id (Integer): Numerical Wallaroo id of the published pipeline.
    • pipeline_version_id (Integer): Numerical Wallaroo id of the pipeline version published.
    • status: The status of the pipeline publish. Values include:
      • PendingPublish: The pipeline publication is about to be uploaded or is in the process of being uploaded.
      • Published: The pipeline is published and ready for use.
    • created_at (String): When the published pipeline was created.
    • updated_at (String): When the published pipeline was updated.
    • created_by (String): The email address of the Wallaroo user that created the pipeline publish.
    • pipeline_url (String): The URL of the published pipeline in the edge registry. May be null until the status is Published)
    • engine_url (String): The URL of the published pipeline engine in the edge registry. May be null until the status is Published.
    • helm: ???
    • engine_config (*wallaroo.deployment_config.DeploymentConfig) | The pipeline configuration included with the published pipeline.

Publish Example

We will now publish the pipeline to our Edge Deployment Registry with the pipeline.publish(deployment_config) command. deployment_config is an optional field that specifies the pipeline deployment. This can be overridden by the DevOps engineer during deployment. For this demonstration, we will be retrieving the most recent pipeline version.

For this, we will require the pipeline version id, the workspace id, and the model config ids (which will be empty as not required).

# get the pipeline version
pipeline_version_id = pipeline.versions()[-1].id()
display(pipeline_version_id)

pipeline_id = pipeline.id()
display(pipeline_id)
headers = {
    "Authorization": wl.auth._bearer_token_str(),
    "Content-Type": "application/json",
}

url = f"{wl.api_endpoint}/v1/api/pipelines/publish"
response = requests.post(
    url,
    headers=headers,
    json={"pipeline_id": 1, 
          "pipeline_version_id": pipeline_version_id, 
          "model_config_ids": [edge_demo_model.id()]
          }
    )
display(response.json())
13

13

{'id': 8,
 'pipeline_version_id': 13,
 'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
 'status': 'PendingPublish',
 'created_at': '2023-09-08T18:21:51.987293+00:00',
 'updated_at': '2023-09-08T18:21:51.987293+00:00',
 'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
 'pipeline_url': None,
 'engine_url': None,
 'helm': None,
 'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
     'memory': '3Gi'},
    'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
  'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
    'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
  'engineAux': {}},
 'error': None,
 'user_images': []}
publish_id = response.json()['id']
display(publish_id)
8

Get Publish Status

The status of a created Wallaroo pipeline publish is available through the following endpoint.

  • Endpoint:
    • /v1/api/pipelines/get_publish_status
  • Parameters
    • publish_id (Integer Required): The numerical id of the pipeline publish to retrieve.
  • Returns
    • id (Integer): Numerical Wallaroo id of the published pipeline.
    • pipeline_version_id (Integer): Numerical Wallaroo id of the pipeline version published.
    • status: The status of the pipeline publish. Values include:
      • PendingPublish: The pipeline publication is about to be uploaded or is in the process of being uploaded.
      • Published: The pipeline is published and ready for use.
    • created_at (String): When the published pipeline was created.
    • updated_at (String): When the published pipeline was updated.
    • created_by (String): The email address of the Wallaroo user that created the pipeline publish.
    • pipeline_url (String): The URL of the published pipeline in the edge registry. May be null until the status is Published)
    • engine_url (String): The URL of the published pipeline engine in the edge registry. May be null until the status is Published.
    • helm: The Helm chart information including the following fields:
      • reference (String): The Helm reference.
      • chart (String): The Helm chart URL.
      • version (String): The Helm chart version.
    • engine_config (*wallaroo.deployment_config.DeploymentConfig) | The pipeline configuration included with the published pipeline.

Get Publish Status Example

The following example shows retrieving the status of a recently created pipeline publish. Once the published status is Published we know the pipeline is ready for deployment.

headers = {
    "Authorization": wl.auth._bearer_token_str(),
    "Content-Type": "application/json",
}
url = f"{wl.api_endpoint}/v1/api/pipelines/get_publish_status"
response = requests.post(
    url,
    headers=headers,
    json={
        "id": publish_id
        },
)
display(response.json())
pub = response.json()
{'id': 8,
 'pipeline_version_id': 13,
 'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
 'status': 'Published',
 'created_at': '2023-09-08T18:21:51.987293+00:00',
 'updated_at': '2023-09-08T18:21:51.987293+00:00',
 'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
 'pipeline_url': 'ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:1ea2d089-1127-464d-a980-e087d1f052e2',
 'engine_url': 'ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798',
 'helm': {'reference': 'ghcr.io/wallaroolabs/doc-samples/charts@sha256:1c19b448ae2adc33c39a954665bba079377a4a4a5bf73f81ebcc4a067eeb3fde',
  'chart': 'ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline',
  'version': '0.0.1-1ea2d089-1127-464d-a980-e087d1f052e2'},
 'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
     'memory': '3Gi'},
    'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
  'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
    'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
  'engineAux': {}},
 'error': None,
 'user_images': []}

List Publishes for a Pipeline

A list of publishes created for a specific pipeline is retrieved through the following endpoint.

  • Endpoint:
    • /v1/api/pipelines/list_publishes_for_pipeline
  • Parameters
    • publish_id (Integer Required): The numerical id of the pipeline to retrieve all publishes for.
  • Returns a List of pipeline publishes with the following fields:
    • id (Integer): Numerical Wallaroo id of the published pipeline.
    • pipeline_version_id (Integer): Numerical Wallaroo id of the pipeline version published.
    • status: The status of the pipeline publish. Values include:
      • PendingPublish: The pipeline publication is about to be uploaded or is in the process of being uploaded.
      • Published: The pipeline is published and ready for use.
    • created_at (String): When the published pipeline was created.
    • updated_at (String): When the published pipeline was updated.
    • created_by (String): The email address of the Wallaroo user that created the pipeline publish.
    • pipeline_url (String): The URL of the published pipeline in the edge registry. May be null until the status is Published)
    • engine_url (String): The URL of the published pipeline engine in the edge registry. May be null until the status is Published.
    • helm: The Helm chart information including the following fields:
      • reference (String): The Helm reference.
      • chart (String): The Helm chart URL.
      • version (String): The Helm chart version.
    • engine_config (*wallaroo.deployment_config.DeploymentConfig) | The pipeline configuration included with the published pipeline.

List Publishes for a Pipeline Example

headers = {
    "Authorization": wl.auth._bearer_token_str(),
    "Content-Type": "application/json",
}

url = f"{wl.api_endpoint}/v1/api/pipelines/list_publishes_for_pipeline"

response = requests.post(
    url,
    headers=headers,
    json={"pipeline_id": pipeline_id},
)
display(response.json())
{'pipelines': [{'id': 7,
   'pipeline_version_id': 13,
   'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
   'status': 'Published',
   'created_at': '2023-09-08T18:17:12.975417+00:00',
   'updated_at': '2023-09-08T18:17:12.975417+00:00',
   'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
   'pipeline_url': 'ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:1ea2d089-1127-464d-a980-e087d1f052e2',
   'engine_url': 'ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798',
   'helm': {'reference': 'ghcr.io/wallaroolabs/doc-samples/charts@sha256:6e6b2fa3b595b2add4bf177588a131d4493b9c38999ee22a00a34af41332f307',
    'chart': 'ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline',
    'version': '0.0.1-1ea2d089-1127-464d-a980-e087d1f052e2'},
   'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
       'memory': '3Gi'},
      'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
    'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
      'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
    'engineAux': {}},
   'error': None,
   'user_images': []},
  {'id': 5,
   'pipeline_version_id': 13,
   'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
   'status': 'Error',
   'created_at': '2023-09-08T17:44:10.957028+00:00',
   'updated_at': '2023-09-08T17:44:10.957028+00:00',
   'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
   'pipeline_url': None,
   'engine_url': None,
   'helm': None,
   'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
       'memory': '3Gi'},
      'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
    'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
      'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
    'engineAux': {}},
   'error': 'Authentication failure: ',
   'user_images': []},
  {'id': 4,
   'pipeline_version_id': 13,
   'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
   'status': 'Published',
   'created_at': '2023-09-08T17:31:35.735893+00:00',
   'updated_at': '2023-09-08T17:31:35.735893+00:00',
   'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
   'pipeline_url': 'ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:1ea2d089-1127-464d-a980-e087d1f052e2',
   'engine_url': 'ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798',
   'helm': {'reference': 'ghcr.io/wallaroolabs/doc-samples/charts@sha256:819e7476614f99e5d83069fccac4b7eef347b891915625c39978b94718c116e7',
    'chart': 'ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline',
    'version': '0.0.1-1ea2d089-1127-464d-a980-e087d1f052e2'},
   'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
       'memory': '3Gi'},
      'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
    'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
      'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
    'engineAux': {}},
   'error': None,
   'user_images': []},
  {'id': 6,
   'pipeline_version_id': 13,
   'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
   'status': 'Published',
   'created_at': '2023-09-08T18:07:42.61758+00:00',
   'updated_at': '2023-09-08T18:07:42.61758+00:00',
   'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
   'pipeline_url': 'ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:1ea2d089-1127-464d-a980-e087d1f052e2',
   'engine_url': 'ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798',
   'helm': {'reference': 'ghcr.io/wallaroolabs/doc-samples/charts@sha256:be785f7bbc91a4cad8d5fa15893e1a198e507242e801e40322d5d61ee537906e',
    'chart': 'ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline',
    'version': '0.0.1-1ea2d089-1127-464d-a980-e087d1f052e2'},
   'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
       'memory': '3Gi'},
      'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
    'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
      'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
    'engineAux': {}},
   'error': None,
   'user_images': []},
  {'id': 8,
   'pipeline_version_id': 13,
   'pipeline_version_name': '1ea2d089-1127-464d-a980-e087d1f052e2',
   'status': 'Publishing',
   'created_at': '2023-09-08T18:21:51.987293+00:00',
   'updated_at': '2023-09-08T18:21:51.987293+00:00',
   'created_by': 'aa707604-ec80-495a-a9a1-87774c8086d5',
   'pipeline_url': None,
   'engine_url': None,
   'helm': None,
   'engine_config': {'engine': {'resources': {'limits': {'cpu': 4.0,
       'memory': '3Gi'},
      'requests': {'cpu': 4.0, 'memory': '3Gi'}}},
    'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'},
      'requests': {'cpu': 0.2, 'memory': '512Mi'}}},
    'engineAux': {}},
   'error': None,
   'user_images': []}]}

DevOps Deployment

We now have our pipeline published to our Edge Registry service. We can deploy this in a x86 environment running Docker that is logged into the same registry service that we deployed to.

For more details, check with the documentation on your artifact service. The following are provided for the three major cloud services:

DevOps - Pipeline Edge Deployment

Once a pipeline is deployed to the Edge Registry service, it can be deployed in environments such as Docker, Kubernetes, or similar container running services by a DevOps engineer.

Docker Deployment

First, the DevOps engineer must authenticate to the same OCI Registry service used for the Wallaroo Edge Deployment registry.

For more details, check with the documentation on your artifact service. The following are provided for the three major cloud services:

For the deployment, the engine URL is specified with the following environmental variables:

  • DEBUG (true|false): Whether to include debug output.
  • OCI_REGISTRY: The URL of the registry service.
  • CONFIG_CPUS: The number of CPUs to use.
  • OCI_USERNAME: The edge registry username.
  • OCI_PASSWORD: The edge registry password or token.
  • PIPELINE_URL: The published pipeline URL.

Docker Deployment Example

Using our sample environment, here’s sample deployment using Docker with a computer vision ML model, the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials.

docker run -p 8080:8080 \
    -e DEBUG=true -e OCI_REGISTRY={your registry server} \
    -e CONFIG_CPUS=1 \
    -e OCI_USERNAME=oauth2accesstoken \
    -e OCI_PASSWORD={registry token here} \
    -e PIPELINE_URL={your registry server}/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555 \
    {your registry server}/engine:v2023.3.0-main-3707

Docker Compose Deployment

For users who prefer to use docker compose, the following sample compose.yaml file is used to launch the Wallaroo Edge pipeline. This is the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials.

services:
  engine:
    image: {Your Engine URL}
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: {Your Pipeline URL}
      OCI_REGISTRY: {Your Edge Registry URL}
      OCI_USERNAME:  {Your Registry Username}
      OCI_PASSWORD: {Your Token or Password}
      CONFIG_CPUS: 1

For example:

services:
  engine:
    image: sample-registry.com/engine:v2023.3.0-main-3707
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
      OCI_REGISTRY: sample-registry.com
      OCI_USERNAME:  _json_key_base64
      OCI_PASSWORD: abc123
      CONFIG_CPUS: 1

Docker Compose Deployment Example

The deployment and undeployment is then just a simple docker compose up and docker compose down. The following shows an example of deploying the Wallaroo edge pipeline using docker compose.

docker compose up
[+] Running 1/1
 ✔ Container cv_data-engine-1  Recreated                                                                                                                                                                 0.5s
Attaching to cv_data-engine-1
cv_data-engine-1  | Wallaroo Engine - Standalone mode
cv_data-engine-1  | Login Succeeded
cv_data-engine-1  | Fetching manifest and config for pipeline: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
cv_data-engine-1  | Fetching model layers
cv_data-engine-1  | digest: sha256:c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   filename: c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   name: resnet-50
cv_data-engine-1  |   type: model
cv_data-engine-1  |   runtime: onnx
cv_data-engine-1  |   version: 693e19b5-0dc7-4afb-9922-e3f7feefe66d
cv_data-engine-1  |
cv_data-engine-1  | Fetched
cv_data-engine-1  | Starting engine
cv_data-engine-1  | Looking for preexisting `yaml` files in //modelconfigs
cv_data-engine-1  | Looking for preexisting `yaml` files in //pipelines

Helm Deployment

Published pipelines can be deployed through the use of helm charts.

Helm deployments take up to two steps - the first step is in retrieving the required values.yaml and making updates to override.

  1. Pull the helm charts from the published pipeline. The two fields are the Helm Chart URL and the Helm Chart version to specify the OCI . This typically takes the format of:
helm pull oci://{published.helm_chart_url} --version {published.helm_chart_version}
  1. Extract the tgz file and copy the values.yaml and copy the values used to edit engine allocations, etc. The following are required for the deployment to run:
ociRegistry:
  registry: {your registry service}
  username:  {registry username here}
  password: {registry token here}

Store this into another file, suc as local-values.yaml.

  1. Create the namespace to deploy the pipeline to. For example, the namespace wallaroo-edge-pipeline would be:
kubectl create -n wallaroo-edge-pipeline
  1. Deploy the helm installation with helm install through one of the following options:

    1. Specify the tgz file that was downloaded and the local values file. For example:

      helm install --namespace {namespace} --values {local values file} {helm install name} {tgz path}
      
    2. Specify the expended directory from the downloaded tgz file.

      helm install --namespace {namespace} --values {local values file} {helm install name} {helm directory path}
      
    3. Specify the Helm Pipeline Helm Chart and the Pipeline Helm Version.

      helm install --namespace {namespace} --values {local values file} {helm install name} oci://{published.helm_chart_url} --version {published.helm_chart_version}
      
  2. Once deployed, the DevOps engineer will have to forward the appropriate ports to the svc/engine-svc service in the specific pipeline. For example, using kubectl port-forward to the namespace ccfraud that would be:

    kubectl port-forward svc/engine-svc -n ccfraud01 8080 --address 0.0.0.0`
    
docker_compose = f'''
services:
  engine:
    image: {pub['engine_url']}
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: {pub['pipeline_url']}
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 1
'''

print(docker_compose)
services:
  engine:
    image: ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.3.0-3798
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:1ea2d089-1127-464d-a980-e087d1f052e2
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 4

Edge Deployed Pipeline API Endpoints

Once deployed, we can check the pipelines and models available. We’ll use a curl command, but any HTTP based request will work the same way.

The endpoint /pipelines returns:

  • id (String): The name of the pipeline.
  • status (String): The status as either Running, or Error if there are any issues.

For this example, the deployment is made on a machine called testboy.local. Replace this URL with the URL of you edge deployment.

!curl testboy.local:8080/pipelines
{"pipelines":[{"id":"edge-pipeline","status":"Running"}]}

The endpoint /models returns a List of models with the following fields:

  • name (String): The model name.
  • sha (String): The sha hash value of the ML model.
  • status (String): The status of either Running or Error if there are any issues.
  • version (String): The model version. This matches the version designation used by Wallaroo to track model versions in UUID format.
!curl testboy.local:8080/models
{"models":[{"name":"ccfraud","sha":"054810e3e3ebbdd34438d9c1a08ed6a6680ef10bf97b9223f78ebf38e14b3b52","status":"Running","version":"4b28d9f8-31ad-4f4b-a262-a2196530c3d0"}]}

Edge Inference Endpoint

The inference endpoint takes the following pattern:

  • /pipelines/{pipeline-name}: The pipeline-name is the same as returned from the /pipelines endpoint as id.

Wallaroo inference endpoint URLs accept the following data inputs through the Content-Type header:

  • Content-Type: application/vnd.apache.arrow.file: For Apache Arrow tables.
  • Content-Type: application/json; format=pandas-records: For pandas DataFrame in record format.

Once deployed, we can perform an inference through the deployment URL.

The endpoint returns Content-Type: application/json; format=pandas-records by default with the following fields:

  • check_failures (List[Integer]): Whether any validation checks were triggered. For more information, see Wallaroo SDK Essentials Guide: Pipeline Management: Anomaly Testing.
  • elapsed (List[Integer]): A list of time in nanoseconds for:
    • [0] The time to serialize the input.
    • [1…n] How long each step took.
  • model_name (String): The name of the model used.
  • model_version (String): The version of the model in UUID format.
  • original_data: The original input data. Returns null if the input may be too long for a proper return.
  • outputs (List): The outputs of the inference result separated by data type, where each data type includes:
    • data: The returned values.
    • dim (List[Integer]): The dimension shape returned.
    • v (Integer): The vector shape of the data.
  • pipeline_name (String): The name of the pipeline.
  • shadow_data: Any shadow deployed data inferences in the same format as outputs.
  • time (Integer): The time since UNIX epoch.
!curl -X POST testboy.local:8080/pipelines/edge-pipeline -H "Content-Type: application/vnd.apache.arrow.file" --data-binary @./data/cc_data_10k.arrow
[{"check_failures":[],"elapsed":[1831692,4085791],"model_name":"ccfraud","model_version":"4b28d9f8-31ad-4f4b-a262-a2196530c3d0","original_data":null,"outputs":[{"Float":{"data":[1.0094895362854004,1.0094895362854004,1.0094895362854004,1.0094895362854004,-1.8477439880371094e-6,-0.00004494190216064453,-0.00009369850158691406,-0.0000832676887512207,-0.00008344650268554688,0.0004897117614746094,0.0006609857082366943,0.00007578730583190918,-0.00010061264038085938,-0.000519871711730957,-3.7550926208496094e-6,-0.00010895729064941406,-0.00017696619033813477,-0.000028371810913085938,0.00002181529998779297,-0.00008505582809448242,-0.000049233436584472656,0.00020524859428405762,0.00001677870750427246,-0.00008910894393920898,0.00008806586265563965,0.0002167224884033203,-0.00003045797348022461,-0.0001615285873413086,-0.00007712841033935547,-8.046627044677734e-6,-0.000048100948333740234,-0.00013583898544311523,-0.000014126300811767578,-0.00015842914581298828,-0.00004863739013671875,0.0000731050968170166,-7.212162017822266e-6,0.0005553662776947021,7.420778274536133e-6,9.000301361083984e-6,0.00011602044105529785,0.00005555152893066406,-0.00020551681518554688,0.0006919503211975098,-0.00003838539123535156,-0.00010466575622558594,0.000025719404220581055,0.00022289156913757324,-0.00014388561248779297,0.00006046891212463379,0.0006777942180633545,-0.0006906390190124512,-0.000011146068572998047,-0.0000692605972290039,-4.172325134277344e-6,0.00008225440979003906,0.0013971328735351562,-0.00010895729064941406,-0.00002586841583251953,-0.00024509429931640625,0.0001341700553894043,0.0000641942024230957,-0.00023108720779418945,0.00012108683586120605,-0.000026285648345947266,-0.00005835294723510742,-0.000056803226470947266,0.0002706944942474365,-9.298324584960938e-6,0.0013747215270996094,0.00010889768600463867,0.0001391768455505371,0.00033020973205566406,-2.9206275939941406e-6,0.00009962916374206543,-0.000033855438232421875,-0.00003886222839355469,0.00020307302474975586,0.00041168928146362305,0.00003641843795776367,0.0007800459861755371,-0.00003427267074584961,-0.0003724098205566406,6.556510925292969e-7,-0.000026047229766845703,-0.00004279613494873047,-0.00003844499588012695,0.0000171661376953125,0.000019282102584838867,0.00004598498344421387,-0.00011116266250610352,0.0008075833320617676,0.0003064572811126709,-0.000026226043701171875,0.00022932887077331543,-0.00015473365783691406,0.000012218952178955078,0.0007858872413635254,0.0010485351085662842,-0.000953972339630127,0.00006034970283508301,-0.00013965368270874023,0.00014868378639221191,-0.0000960230827331543,0.00022268295288085938,-0.00002372264862060547,0.00015243887901306152,0.000058531761169433594,-0.00020366907119750977,-0.00003266334533691406,0.000046372413635253906,0.0003497898578643799,-0.00004309415817260742,-0.00007253885269165039,0.00013744831085205078,-0.00005334615707397461,0.00008705258369445801,0.00015547871589660645,0.00010827183723449707,0.00015839934349060059,-0.000951230525970459,0.0005430281162261963,0.0006096959114074707,0.00005373358726501465,0.00014838576316833496,-5.543231964111328e-6,-0.000038564205169677734,0.0002301037311553955,0.0002828240394592285,0.0000254213809967041,0.00009182095527648926,0.00012382864952087402,0.000030219554901123047,-0.0001442432403564453,-0.0010399818420410156,0.000041604042053222656,0.00030282139778137207,0.0004699230194091797,0.00001004338264465332,-8.761882781982422e-6,0.0006243288516998291,-0.00013703107833862305,0.0004756748676300049,0.00006377696990966797,0.00004094839096069336,-0.00004678964614868164,-0.000261843204498291,0.000060230493545532227,-0.00003314018249511719,-0.00006818771362304688,-0.000022351741790771484,0.0002624392509460449,0.00011542439460754395,-0.0001252889633178711,0.00009205937385559082,0.000047087669372558594,-0.00013875961303710938,0.00016242265701293945,0.00018420815467834473,0.0000667572021484375,-0.00004190206527709961,1.0031051635742188,8.374452590942383e-6,-0.000011146068572998047,-0.00010162591934204102,-0.000054776668548583984,-0.00003916025161743164,0.00008448958396911621,0.0006806254386901855,0.00007832050323486328,-0.00006818771362304688,7.957220077514648e-6,0.000030159950256347656,1.4007091522216797e-6,0.000012487173080444336,0.00011420249938964844,0.000038564205169677734,-0.00006175041198730469,0.00010338425636291504,0.0006650686264038086,6.705522537231445e-6,0.0000705718994140625,-0.00001341104507446289,-0.00016045570373535156,-0.00001436471939086914,8.821487426757812e-6,-0.00004565715789794922,0.00005206465721130371,0.0000788569450378418,-0.00005453824996948242,-0.00010496377944946289,-0.000057578086853027344,0.000014543533325195312,0.00007987022399902344,0.00005200505256652832,-0.00004106760025024414,0.00017750263214111328,0.00004857778549194336,0.00022241473197937012,5.8710575103759766e-6,0.00012260675430297852,-0.00009238719940185547,-0.00009495019912719727,-0.00006073713302612305,-0.0000603795051574707,-0.00002372264862060547,0.0003605782985687256,0.00006362795829772949,0.000194519758224487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!curl -X POST testboy.local:8080/pipelines/edge-pipeline -H "Content-Type: application/json; format=pandas-records" --data-binary @./data/cc_data_10k.df.json
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3 - Wallaroo Edge Classification Financial Services Deployment Demonstration

A demonstration on publishing a classification financial services model for edge deployment via the Wallaroo SDK.

The following tutorial is available on the Wallaroo Github Repository.

Classification Financial Services Edge Deployment Demonstration

This notebook will walk through building Wallaroo pipeline with a a Classification model deployed to detect the likelihood of credit card fraud, then publishing that pipeline to an Open Container Initiative (OCI) Registry where it can be deployed in other Docker and Kubernetes environments.

This demonstration will focus on deployment to the edge.

This demonstration will perform the following:

  1. As a Data Scientist in Wallaroo Ops:
    1. Upload a computer vision model to Wallaroo, deploy it in a Wallaroo pipeline, then perform a sample inference.
    2. Publish the pipeline to an Open Container Initiative (OCI) Registry service. This is configured in the Wallaroo instance. See Edge Deployment Registry Guide for details on adding an OCI Registry Service to Wallaroo as the Edge Deployment Registry. This demonstration uses a GitHub repository - see Introduction to GitHub Packages for setting up your own package repository using GitHub, which can then be used with this tutorial.
    3. View the pipeline publish details.
  2. As a DevOps Engineer in a remote aka edge device:
    1. Deploy the published pipeline as a Wallaroo Inference Server. This example will use Docker.
    2. Perform a sample inference through the Wallaroo Inference Server with the same data used in the data scientist example.

References

Data Scientist Pipeline Publish Steps

Load Libraries

The first step is to import the libraries used in this notebook.

import wallaroo
from wallaroo.object import EntityNotFoundError

import pyarrow as pa
import pandas as pd
import requests

# used to display dataframe information without truncating
from IPython.display import display
pd.set_option('display.max_colwidth', None)

Connect to the Wallaroo Instance through the User Interface

The next step is to connect to Wallaroo through the Wallaroo client. The Python library is included in the Wallaroo install and available through the Jupyter Hub interface provided with your Wallaroo environment.

This is accomplished using the wallaroo.Client() command, which provides a URL to grant the SDK permission to your specific Wallaroo environment. When displayed, enter the URL into a browser and confirm permissions. Store the connection into a variable that can be referenced later.

If logging into the Wallaroo instance through the internal JupyterHub service, use wl = wallaroo.Client(). For more information on Wallaroo Client settings, see the Client Connection guide.

wl = wallaroo.Client()

Create a New Workspace

We’ll use the SDK below to create our workspace , assign as our current workspace, then display all of the workspaces we have at the moment. We’ll also set up variables for our models and pipelines down the road, so we have one spot to change names to whatever fits your organization’s standards best.

To allow this tutorial to be run by multiple users in the same Wallaroo instance, a random 4 character prefix will be added to the workspace, pipeline, and model. Feel free to set suffix='' if this is not required.

import string
import random

# make a random 4 character suffix to verify uniqueness in tutorials
suffix= ''.join(random.choice(string.ascii_lowercase) for i in range(4))

suffix=''

workspace_name = f'edge-publish-demo{suffix}'
pipeline_name = 'edge-pipeline'
xgboost_model_name = 'ccfraud-xgboost'
xgboost_model_file_name = './models/xgboost_ccfraud.onnx'
keras_model_name = 'ccfraud-keras'
keras_model_file_name = './models/keras_ccfraud.onnx'
def get_workspace(name):
    workspace = None
    for ws in wl.list_workspaces():
        if ws.name() == name:
            workspace= ws
    if(workspace == None):
        workspace = wl.create_workspace(name)
    return workspace

def get_pipeline(name):
    try:
        pipeline = wl.pipelines_by_name(name)[0]
    except EntityNotFoundError:
        pipeline = wl.build_pipeline(name)
    return pipeline
workspace = get_workspace(workspace_name)

wl.set_current_workspace(workspace)
{'name': 'edge-publish-demo', 'id': 5, 'archived': False, 'created_by': '1b26fc10-d0f9-4f92-a1a2-ab342b3d069e', 'created_at': '2023-10-29T23:33:31.225119+00:00', 'models': [], 'pipelines': []}

Upload the Model

When a model is uploaded to a Wallaroo cluster, it is optimized and packaged to make it ready to run as part of a pipeline. In many times, the Wallaroo Server can natively run a model without any Python overhead. In other cases, such as a Python script, a custom Python environment will be automatically generated. This is comparable to the process of “containerizing” a model by adding a small HTTP server and other wrapping around it.

Our pretrained model is in ONNX format, which is specified in the framework parameter.

xgboost_edge_demo_model = wl.upload_model(
    xgboost_model_name,
    xgboost_model_file_name,
    framework=wallaroo.framework.Framework.ONNX,
).configure(tensor_fields=["tensor"])

keras_edge_demo_model = wl.upload_model(
    keras_model_name,
    keras_model_file_name,
    framework=wallaroo.framework.Framework.ONNX,
).configure(tensor_fields=["tensor"])

Reserve Pipeline Resources

Before deploying an inference engine we need to tell wallaroo what resources it will need.
To do this we will use the wallaroo DeploymentConfigBuilder() and fill in the options listed below to determine what the properties of our inference engine will be.

We will be testing this deployment for an edge scenario, so the resource specifications are kept small – what’s the minimum needed to meet the expected load on the planned hardware.

  • cpus - 1 => allow the engine to use 4 CPU cores when running the neural net
  • memory - 900Mi => each inference engine will have 2 GB of memory, which is plenty for processing a single image at a time.
  • arch - we will specify the X86 architecture.
deploy_config = (wallaroo
                 .DeploymentConfigBuilder()
                 .replica_count(1)
                 .cpus(1)
                 .memory("900Mi")
                 .build()
                 )

Simulated Edge Deployment

We will now deploy our pipeline into the current Kubernetes environment using the specified resource constraints. This is a “simulated edge” deploy in that we try to mimic the edge hardware as closely as possible.

pipeline = get_pipeline(pipeline_name)
display(pipeline)

# clear the pipeline if previously run
pipeline.clear()
pipeline.add_model_step(xgboost_edge_demo_model)

pipeline.deploy(deployment_config = deploy_config)
nameedge-pipeline
created2023-10-29 23:33:35.884674+00:00
last_updated2023-10-29 23:33:35.884674+00:00
deployed(none)
archNone
tags
versions642d3781-600b-452d-8cea-a8aafe08da17
steps
publishedFalse
nameedge-pipeline
created2023-10-29 23:33:35.884674+00:00
last_updated2023-10-29 23:33:37.744245+00:00
deployedTrue
archNone
tags
versionsf388c109-8d57-4ed2-9806-aa13f854576b, 642d3781-600b-452d-8cea-a8aafe08da17
stepsccfraud-xgboost
publishedFalse
xgboost_pipeline_version = pipeline.versions()[0]
xgboost_pipeline_version
nameedge-pipeline
versionf388c109-8d57-4ed2-9806-aa13f854576b
creation_time2023-29-Oct 23:33:37
last_updated_time2023-29-Oct 23:33:37
deployedFalse
tags
stepsccfraud-xgboost

Run Single Image Inference

A single image, encoded using the Apache Arrow format, is sent to the deployed pipeline. Arrow is used here because, as a binary protocol, there is far lower network and compute overhead than using JSON. The Wallaroo Server engine accepts both JSON, pandas DataFrame, and Apache Arrow formats.

The sample DataFrames and arrow tables are in the ./data directory. We’ll use the Apache Arrow table cc_data_10k.arrow.

Once complete, we’ll display how long the inference request took.

deploy_url = pipeline._deployment._url()

headers = wl.auth.auth_header()

headers['Content-Type']='application/vnd.apache.arrow.file'
# headers['Content-Type']='application/json; format=pandas-records'
headers['Accept']='application/json; format=pandas-records'

dataFile = './data/cc_data_10k.arrow'
!curl -X POST {deploy_url} \
     -H "Authorization:{headers['Authorization']}" \
     -H "Content-Type:{headers['Content-Type']}" \
     -H "Accept:{headers['Accept']}" \
     --data-binary @{dataFile} > curl_response_xgboost.df.json
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0100 7841k  100 6679k  100 1162k  3282k   571k  0:00:02  0:00:02 --:--:-- 3862k

Redeploy with Keras version

We will now redeploy the pipeline with the converted keras version of our model, then set that version of the pipeline.

# clear the pipeline if previously run
pipeline.clear()
pipeline.add_model_step(keras_edge_demo_model)
pipeline.deploy(deployment_config = deploy_config)

# give a moment to verify the model swap
import time
time.sleep(10)

keras_pipeline_version = pipeline.versions()[0]
keras_pipeline_version
nameedge-pipeline
version3e77697e-7957-42e6-a796-72a6155e3b6e
creation_time2023-30-Oct 13:54:17
last_updated_time2023-30-Oct 13:54:17
deployedFalse
tags
stepsccfraud-keras
deploy_url = pipeline._deployment._url()

headers = wl.auth.auth_header()

headers['Content-Type']='application/vnd.apache.arrow.file'
# headers['Content-Type']='application/json; format=pandas-records'
headers['Accept']='application/json; format=pandas-records'

dataFile = './data/cc_data_10k.arrow'
import datetime

local_inference_start = datetime.datetime.now()
!curl -X POST {deploy_url} \
     -H "Authorization:{headers['Authorization']}" \
     -H "Content-Type:{headers['Content-Type']}" \
     -H "Accept:{headers['Accept']}" \
     --data-binary @{dataFile} > curl_response_keras.df.json
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100 8141k  100 6979k  100 1162k  3636k   605k  0:00:01  0:00:01 --:--:-- 4249k

Undeploy Pipeline

With our testing complete, we will undeploy the pipeline and return the resources back to the cluster.

pipeline.undeploy()
nameedge-pipeline
created2023-10-29 23:33:35.884674+00:00
last_updated2023-10-29 23:34:07.750085+00:00
deployedFalse
archNone
tags
versions60fb5c6e-db3e-497d-afc8-ccc149beba4a, f388c109-8d57-4ed2-9806-aa13f854576b, 642d3781-600b-452d-8cea-a8aafe08da17
stepsccfraud-xgboost
publishedFalse

Publish the Pipeline for Edge Deployment

It worked! For a demo, we’ll take working once as “tested”. So now that we’ve tested our pipeline, we are ready to publish it for edge deployment.

Publishing it means assembling all of the configuration files and model assets and pushing them to an Open Container Initiative (OCI) repository set in the Wallaroo instance as the Edge Registry service. DevOps engineers then retrieve that image and deploy it through Docker, Kubernetes, or similar deployments.

See Edge Deployment Registry Guide for details on adding an OCI Registry Service to Wallaroo as the Edge Deployment Registry.

This is done through the SDK command wallaroo.pipeline.publish(deployment_config) which has the following parameters and returns.

Publish a Pipeline Parameters

The publish method takes the following parameters. The containerized pipeline will be pushed to the Edge registry service with the model, pipeline configurations, and other artifacts needed to deploy the pipeline.

ParameterTypeDescription
deployment_configwallaroo.deployment_config.DeploymentConfig (Optional)Sets the pipeline deployment configuration. For example: For more information on pipeline deployment configuration, see the Wallaroo SDK Essentials Guide: Pipeline Deployment Configuration.

Publish a Pipeline Returns

FieldTypeDescription
idintegerNumerical Wallaroo id of the published pipeline.
pipeline version idintegerNumerical Wallaroo id of the pipeline version published.
statusstringThe status of the pipeline publication. Values include:
  • PendingPublish: The pipeline publication is about to be uploaded or is in the process of being uploaded.
  • Published: The pipeline is published and ready for use.
Engine URLstringThe URL of the published pipeline engine in the edge registry.
Pipeline URLstringThe URL of the published pipeline in the edge registry.
Helm Chart URLstringThe URL of the helm chart for the published pipeline in the edge registry.
Helm Chart ReferencestringThe help chart reference.
Helm Chart VersionstringThe version of the Helm Chart of the published pipeline. This is also used as the Docker tag.
Engine Configwallaroo.deployment_config.DeploymentConfigThe pipeline configuration included with the published pipeline.
Created AtDateTimeWhen the published pipeline was created.
Updated AtDateTimeWhen the published pipeline was updated.

Publish Example

We will now publish the pipeline to our Edge Deployment Registry with the pipeline.publish(deployment_config) command. deployment_config is an optional field that specifies the pipeline deployment. This can be overridden by the DevOps engineer during deployment.

xgb_pub=xgboost_pipeline_version.publish(deploy_config)
display(xgb_pub)
keras_pub=keras_pipeline_version.publish(deploy_config)
display(keras_pub)
Waiting for pipeline publish... It may take up to 600 sec.
Pipeline is Publishing...Published.
ID1
Pipeline Versionf388c109-8d57-4ed2-9806-aa13f854576b
StatusPublished
Engine URLghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079
Pipeline URLghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:f388c109-8d57-4ed2-9806-aa13f854576b
Helm Chart URLoci://ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline
Helm Chart Referenceghcr.io/wallaroolabs/doc-samples/charts@sha256:429aae187be641c22de5a333c737219a5ffaf908ac3673781cdf83f4ebbf7abc
Helm Chart Version0.0.1-f388c109-8d57-4ed2-9806-aa13f854576b
Engine Config{'engine': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}, 'engineAux': {'images': {}}, 'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}}
User Images[]
Created Byjohn.hummel@wallaroo.ai
Created At2023-10-29 23:35:03.508703+00:00
Updated At2023-10-29 23:35:03.508703+00:00
Docker Run Variables{}
Waiting for pipeline publish... It may take up to 600 sec.
Pipeline is Publishing...Published.
ID2
Pipeline Version60fb5c6e-db3e-497d-afc8-ccc149beba4a
StatusPublished
Engine URLghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079
Pipeline URLghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:60fb5c6e-db3e-497d-afc8-ccc149beba4a
Helm Chart URLoci://ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline
Helm Chart Referenceghcr.io/wallaroolabs/doc-samples/charts@sha256:2de830d875ac8e60984c391091e5fdc981ad74e56925545c99b5e5b222c612bc
Helm Chart Version0.0.1-60fb5c6e-db3e-497d-afc8-ccc149beba4a
Engine Config{'engine': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}, 'engineAux': {'images': {}}, 'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}}
User Images[]
Created Byjohn.hummel@wallaroo.ai
Created At2023-10-29 23:35:21.956532+00:00
Updated At2023-10-29 23:35:21.956532+00:00
Docker Run Variables{}
display(pipeline)
nameedge-pipeline
created2023-10-29 23:33:35.884674+00:00
last_updated2023-10-29 23:34:07.750085+00:00
deployedFalse
archNone
tags
versions60fb5c6e-db3e-497d-afc8-ccc149beba4a, f388c109-8d57-4ed2-9806-aa13f854576b, 642d3781-600b-452d-8cea-a8aafe08da17
stepsccfraud-xgboost
publishedFalse

List Published Pipelines

The method wallaroo.client.list_pipelines() shows a list of all pipelines in the Wallaroo instance, and includes the published field that indicates whether the pipeline was published to the registry (True), or has not yet been published (False).

wl.list_pipelines()
namecreatedlast_updateddeployedarchtagsversionsstepspublished
edge-pipeline2023-29-Oct 23:33:352023-29-Oct 23:34:07FalseNone60fb5c6e-db3e-497d-afc8-ccc149beba4a, f388c109-8d57-4ed2-9806-aa13f854576b, 642d3781-600b-452d-8cea-a8aafe08da17ccfraud-xgboostTrue

List Publishes from a Pipeline

All publishes created from a pipeline are displayed with the wallaroo.pipeline.publishes method. The pipeline_version_id is used to know what version of the pipeline was used in that specific publish. This allows for pipelines to be updated over time, and newer versions to be sent and tracked to the Edge Deployment Registry service.

List Publishes Parameters

N/A

List Publishes Returns

A List of the following fields:

FieldTypeDescription
idintegerNumerical Wallaroo id of the published pipeline.
pipeline_version_idintegerNumerical Wallaroo id of the pipeline version published.
engine_urlstringThe URL of the published pipeline engine in the edge registry.
pipeline_urlstringThe URL of the published pipeline in the edge registry.
created_bystringThe email address of the user that published the pipeline.
Created AtDateTimeWhen the published pipeline was created.
Updated AtDateTimeWhen the published pipeline was updated.
pipeline.publishes()
idpipeline_version_nameengine_urlpipeline_urlcreated_bycreated_atupdated_at
1f388c109-8d57-4ed2-9806-aa13f854576bghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:f388c109-8d57-4ed2-9806-aa13f854576bjohn.hummel@wallaroo.ai2023-29-Oct 23:35:032023-29-Oct 23:35:03
260fb5c6e-db3e-497d-afc8-ccc149beba4aghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:60fb5c6e-db3e-497d-afc8-ccc149beba4ajohn.hummel@wallaroo.ai2023-29-Oct 23:35:212023-29-Oct 23:35:21

DevOps - Pipeline Edge Deployment

Once a pipeline is deployed to the Edge Registry service, it can be deployed in environments such as Docker, Kubernetes, or similar container running services by a DevOps engineer as a Wallaroo Server.

The following guides will demonstrate publishing a Wallaroo Pipeline as a Wallaroo Server.

Add Edge Location

Wallaroo Servers can optionally connect to the Wallaroo Ops instance and transmit their inference results. These are added to the pipeline logs for the published pipeline the Wallaroo Server is associated with.

Wallaroo Servers are added with the wallaroo.pipeline_publish.add_edge(name: string) method. The name is the unique primary key for each edge added to the pipeline publish and must be unique.

This returns a Publish Edge with the following fields:

FieldTypeDescription
idIntegerThe integer ID of the pipeline publish.
created_atDateTimeThe DateTime of the pipeline publish.
docker_run_variablesStringThe Docker variables in UUID format that include the following: The BUNDLE_VERSION, EDGE_NAME, JOIN_TOKEN_, OPSCENTER_HOST, PIPELINE_URL, and WORKSPACE_ID.
engine_configStringThe Wallaroo wallaroo.deployment_config.DeploymentConfig for the pipeline.
pipeline_version_idIntegerThe integer identifier of the pipeline version published.
statusStringThe status of the publish. Published is a successful publish.
updated_atDateTimeThe DateTime when the pipeline publish was updated.
user_imagesList[String]User images used in the pipeline publish.
created_byStringThe UUID of the Wallaroo user that created the pipeline publish.
engine_urlStringThe URL for the published pipeline’s Wallaroo engine in the OCI registry.
errorStringAny errors logged.
helmStringThe helm chart, helm reference and helm version.
pipeline_urlStringThe URL for the published pipeline’s container in the OCI registry.
pipeline_version_nameStringThe UUID identifier of the pipeline version published.
additional_propertiesStringAny other identities.
xgb_edge = xgb_pub.add_edge("xgb-ccfraud-edge-publish")
display(xgb_edge)

keras_edge = keras_pub.add_edge("keras-ccfraud-publish")
display(keras_edge)
PipelinePublish(created_at=datetime.datetime(2023, 10, 29, 23, 35, 3, 508703, tzinfo=tzutc()), docker_run_variables={'EDGE_BUNDLE': 'abcde'}, engine_config={'engine': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}, 'engineAux': {'images': {}}, 'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}}, id=1, pipeline_version_id=2, status='Published', updated_at=datetime.datetime(2023, 10, 29, 23, 35, 3, 508703, tzinfo=tzutc()), user_images=[], created_by='1b26fc10-d0f9-4f92-a1a2-ab342b3d069e', engine_url='ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079', error=None, helm={'reference': 'ghcr.io/wallaroolabs/doc-samples/charts@sha256:429aae187be641c22de5a333c737219a5ffaf908ac3673781cdf83f4ebbf7abc', 'values': {'edgeBundle': 'ZXhwb3J0IEJVTkRMRV9WRVJTSU9OPTEKZXhwb3J0IEVER0VfTkFNRT14Z2ItY2NmcmF1ZC1lZGdlLXRlc3QKZXhwb3J0IEpPSU5fVE9LRU49MzE0OGFkYTUtMjg1YS00ZmNhLWIzYjgtYjUwYTQ4ZDc1MTFiCmV4cG9ydCBPUFNDRU5URVJfSE9TVD1kb2MtdGVzdC5lZGdlLndhbGxhcm9vY29tbXVuaXR5Lm5pbmphCmV4cG9ydCBQSVBFTElORV9VUkw9Z2hjci5pby93YWxsYXJvb2xhYnMvZG9jLXNhbXBsZXMvcGlwZWxpbmVzL2VkZ2UtcGlwZWxpbmU6ZjM4OGMxMDktOGQ1Ny00ZWQyLTk4MDYtYWExM2Y4NTQ1NzZiCmV4cG9ydCBXT1JLU1BBQ0VfSUQ9NQ=='}, 'chart': 'ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline', 'version': '0.0.1-f388c109-8d57-4ed2-9806-aa13f854576b'}, pipeline_url='ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:f388c109-8d57-4ed2-9806-aa13f854576b', pipeline_version_name='f388c109-8d57-4ed2-9806-aa13f854576b', additional_properties={})
ID2
Pipeline Version60fb5c6e-db3e-497d-afc8-ccc149beba4a
StatusPublished
Engine URLghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079
Pipeline URLghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:60fb5c6e-db3e-497d-afc8-ccc149beba4a
Helm Chart URLoci://ghcr.io/wallaroolabs/doc-samples/charts/edge-pipeline
Helm Chart Referenceghcr.io/wallaroolabs/doc-samples/charts@sha256:2de830d875ac8e60984c391091e5fdc981ad74e56925545c99b5e5b222c612bc
Helm Chart Version0.0.1-60fb5c6e-db3e-497d-afc8-ccc149beba4a
Engine Config{'engine': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}, 'engineAux': {'images': {}}, 'enginelb': {'resources': {'limits': {'cpu': 1.0, 'memory': '512Mi'}, 'requests': {'cpu': 1.0, 'memory': '512Mi'}}}}
User Images[]
Created Byjohn.hummel@wallaroo.ai
Created At2023-10-29 23:35:21.956532+00:00
Updated At2023-10-29 23:35:21.956532+00:00
Docker Run Variables{'EDGE_BUNDLE': 'abcde'}

DevOps - Pipeline Edge Deployment

Once a pipeline is deployed to the Edge Registry service, it can be deployed in environments such as Docker, Kubernetes, or similar container running services by a DevOps engineer.

Docker Deployment

First, the DevOps engineer must authenticate to the same OCI Registry service used for the Wallaroo Edge Deployment registry.

For more details, check with the documentation on your artifact service. The following are provided for the three major cloud services:

For the deployment, the engine URL is specified with the following environmental variables:

  • DEBUG (true|false): Whether to include debug output.
  • OCI_REGISTRY: The URL of the registry service.
  • CONFIG_CPUS: The number of CPUs to use.
  • OCI_USERNAME: The edge registry username.
  • OCI_PASSWORD: The edge registry password or token.
  • PIPELINE_URL: The published pipeline URL.

Docker Deployment Example

Using our sample environment, here’s sample deployment using Docker with a computer vision ML model, the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials.

For docker run commands, the persistent volume for storing session data is stored with -v ./data:/persist. Updated as required for your deployments.

docker run -p 8080:8080 \
    -v ./data:/persist \
    -e DEBUG=true -e OCI_REGISTRY={your registry server} \
    -e CONFIG_CPUS=4 \
    -e OCI_USERNAME=oauth2accesstoken \
    -e OCI_PASSWORD={registry token here} \
    -e PIPELINE_URL={your registry server}/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555 \
    {your registry server}/engine:v2023.3.0-main-3707

Docker Compose Deployment

For users who prefer to use docker compose, the following sample compose.yaml file is used to launch the Wallaroo Edge pipeline. This is the same used in the Wallaroo Use Case Tutorials Computer Vision: Retail tutorials. The session and other data is stored with the volumes entry to add a persistent volume.

services:
  engine:
    image: {Your Engine URL}
    ports:
      - 8080:8080
    volumes:
      - ./data:/persist
    environment:
      PIPELINE_URL: {Your Pipeline URL}
      OCI_REGISTRY: {Your Edge Registry URL}
      OCI_USERNAME:  {Your Registry Username}
      OCI_PASSWORD: {Your Token or Password}
      CONFIG_CPUS: 1

For example:

services:
  engine:
    image: sample-registry.com/engine:v2023.3.0-main-3707
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
      OCI_REGISTRY: sample-registry.com
      OCI_USERNAME:  _json_key_base64
      OCI_PASSWORD: abc123
      CONFIG_CPUS: 1

Docker Compose Deployment Example

The deployment and undeployment is then just a simple docker compose up and docker compose down. The following shows an example of deploying the Wallaroo edge pipeline using docker compose.

docker compose up
[+] Running 1/1
 ✔ Container cv_data-engine-1  Recreated                                                                                                                                                                 0.5s
Attaching to cv_data-engine-1
cv_data-engine-1  | Wallaroo Engine - Standalone mode
cv_data-engine-1  | Login Succeeded
cv_data-engine-1  | Fetching manifest and config for pipeline: sample-registry.com/pipelines/edge-cv-retail:bf70eaf7-8c11-4b46-b751-916a43b1a555
cv_data-engine-1  | Fetching model layers
cv_data-engine-1  | digest: sha256:c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   filename: c6c8869645962e7711132a7e17aced2ac0f60dcdc2c7faa79b2de73847a87984
cv_data-engine-1  |   name: resnet-50
cv_data-engine-1  |   type: model
cv_data-engine-1  |   runtime: onnx
cv_data-engine-1  |   version: 693e19b5-0dc7-4afb-9922-e3f7feefe66d
cv_data-engine-1  |
cv_data-engine-1  | Fetched
cv_data-engine-1  | Starting engine
cv_data-engine-1  | Looking for preexisting `yaml` files in //modelconfigs
cv_data-engine-1  | Looking for preexisting `yaml` files in //pipelines

Helm Deployment

Published pipelines can be deployed through the use of helm charts.

Helm deployments take up to two steps - the first step is in retrieving the required values.yaml and making updates to override.

  1. Pull the helm charts from the published pipeline. The two fields are the Helm Chart URL and the Helm Chart version to specify the OCI . This typically takes the format of:
helm pull oci://{published.helm_chart_url} --version {published.helm_chart_version}
  1. Extract the tgz file and copy the values.yaml and copy the values used to edit engine allocations, etc. The following are required for the deployment to run:
ociRegistry:
  registry: {your registry service}
  username:  {registry username here}
  password: {registry token here}

Store this into another file, suc as local-values.yaml.

  1. Create the namespace to deploy the pipeline to. For example, the namespace wallaroo-edge-pipeline would be:
kubectl create -n wallaroo-edge-pipeline
  1. Deploy the helm installation with helm install through one of the following options:

    1. Specify the tgz file that was downloaded and the local values file. For example:

      helm install --namespace {namespace} --values {local values file} {helm install name} {tgz path}
      
    2. Specify the expended directory from the downloaded tgz file.

      helm install --namespace {namespace} --values {local values file} {helm install name} {helm directory path}
      
    3. Specify the Helm Pipeline Helm Chart and the Pipeline Helm Version.

      helm install --namespace {namespace} --values {local values file} {helm install name} oci://{published.helm_chart_url} --version {published.helm_chart_version}
      
  2. Once deployed, the DevOps engineer will have to forward the appropriate ports to the svc/engine-svc service in the specific pipeline. For example, using kubectl port-forward to the namespace ccfraud that would be:

    kubectl port-forward svc/engine-svc -n ccfraud01 8080 --address 0.0.0.0`
    

The following code segment generates a docker compose template based on the previously published pipeline.

xgboost_docker_compose = f'''
services:
  engine:
    image: {xgb_edge.engine_url}
    ports:
      - 8080:8080
    volumes:
      - ./data:/persist
    environment:
      PIPELINE_URL: {xgb_edge.pipeline_url}
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 1
'''

print(xgboost_docker_compose)
services:
  engine:
    image: ghcr.io/wallaroolabs/doc-samples/engines/proxy/wallaroo/ghcr.io/wallaroolabs/standalone-mini:v2023.4.0-main-4079
    ports:
      - 8080:8080
    environment:
      PIPELINE_URL: ghcr.io/wallaroolabs/doc-samples/pipelines/edge-pipeline:f388c109-8d57-4ed2-9806-aa13f854576b
      OCI_USERNAME: YOUR USERNAME 
      OCI_PASSWORD: YOUR PASSWORD OR TOKEN
      OCI_REGISTRY: ghcr.io
      CONFIG_CPUS: 1

Edge Deployed Pipeline API Endpoints

Once deployed, we can check the pipelines and models available. We’ll use a curl command, but any HTTP based request will work the same way.

The endpoint /pipelines returns:

  • id (String): The name of the pipeline.
  • status (String): The status as either Running, or Error if there are any issues.

For this example, the deployment is made on a machine called localhost. Replace this URL with the URL of you edge deployment.

!curl testboy.local:8080/pipelines
{"pipelines":[{"id":"edge-pipeline","status":"Running"}]}

The endpoint /models returns a List of models with the following fields:

  • name (String): The model name.
  • sha (String): The sha hash value of the ML model.
  • status (String): The status of either Running or Error if there are any issues.
  • version (String): The model version. This matches the version designation used by Wallaroo to track model versions in UUID format.
!curl testboy.local:8080/models
{"models":[{"name":"ccfraud-xgboost","version":"d7970a71-9982-4c5c-9535-2677a4d87597","sha":"054810e3e3ebbdd34438d9c1a08ed6a6680ef10bf97b9223f78ebf38e14b3b52","status":"Running"}]}

Edge Inference Endpoint

The inference endpoint takes the following pattern:

  • /pipelines/{pipeline-name}: The pipeline-name is the same as returned from the /pipelines endpoint as id.

Wallaroo inference endpoint URLs accept the following data inputs through the Content-Type header:

  • Content-Type: application/vnd.apache.arrow.file: For Apache Arrow tables.
  • Content-Type: application/json; format=pandas-records: For pandas DataFrame in record format.

Once deployed, we can perform an inference through the deployment URL.

The endpoint returns Content-Type: application/json; format=pandas-records by default with the following fields:

  • check_failures (List[Integer]): Whether any validation checks were triggered. For more information, see Wallaroo SDK Essentials Guide: Pipeline Management: Anomaly Testing.
  • elapsed (List[Integer]): A list of time in nanoseconds for:
    • [0] The time to serialize the input.
    • [1…n] How long each step took.
  • model_name (String): The name of the model used.
  • model_version (String): The version of the model in UUID format.
  • original_data: The original input data. Returns null if the input may be too long for a proper return.
  • outputs (List): The outputs of the inference result separated by data type, where each data type includes:
    • data: The returned values.
    • dim (List[Integer]): The dimension shape returned.
    • v (Integer): The vector shape of the data.
  • pipeline_name (String): The name of the pipeline.
  • shadow_data: Any shadow deployed data inferences in the same format as outputs.
  • time (Integer): The time since UNIX epoch.
!curl -X POST testboy.local:8080/pipelines/edge-pipeline -H "Content-Type: application/vnd.apache.arrow.file" --data-binary @./data/cc_data_10k.arrow
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