add starod integration

.staroid/README.md

@@ -0,0 +1,18 @@
+## gpu-jupyter on staroid
+
+This directory contains files to deploy gpu-jupyter project on [staroid](https://staroid.com).
+
+[![Run](https://staroid.com/api/run/button.svg)](https://staroid.com/api/run)
+
+
+## Development
+
+Run locally with [skaffold](https://skaffold.dev) command.
+
+```
+$ git clone https://github.com/iot-salzburg/gpu-jupyter.git
+$ cd gpu-jupyter
+$ skaffold dev -f .staroid/skaffold.yaml --port-forward -p minikube
+```
+
+and browse `http://localhost:8888`

.staroid/build.sh

@@ -0,0 +1,18 @@
+#!/bin/bash
+# Custom builder script for Skaffold
+# https://skaffold.dev/docs/pipeline-stages/builders/custom/
+#
+
+# generate Dockerfile
+./generate-Dockerfile.sh -s --no-datascience-notebook --no-useful-packages
+cd .build
+
+# print Dockerfile
+cat Dockerfile
+
+# build
+docker build -f Dockerfile -t $IMAGE .
+
+if $PUSH_IMAGE; then
+  docker push $IMAGE
+fi

.staroid/k8s.yaml

@@ -0,0 +1,76 @@
+apiVersion: apps/v1
+kind: Deployment
+metadata:
+  name: jupyter-deployment
+spec:
+  replicas: 1
+  strategy:
+    type: "Recreate"
+  selector:
+    matchLabels:
+      app: jupyter
+  template:
+    metadata:
+      labels:
+        app: jupyter
+        pod.staroid.com/isolation: dedicated
+        pod.staroid.com/spot: "false"
+        pod.staroid.com/instance-type: gpu-1
+    spec:
+      automountServiceAccountToken: true
+      securityContext:
+        runAsUser: 1000 # will be overrided by staroid
+        runAsGroup: 100 # writable directories are accessible with GID 100. see https://github.com/jupyter/docker-stacks/blob/master/base-notebook/Dockerfile
+      containers:
+      - name: jupyter
+        image: jupyter
+        command:
+        - "bash"
+        - "-c"
+        - >-
+          mkdir -p ~/.ssh && chmod 700 ~/.ssh &&
+          echo -n "$(echo $MLFLOW_TRACKING_URI | sed 's/.*\(mlflow[^:]*\).*/\1/g') " >> ~/.ssh/known_hosts &&
+          echo $MLFLOW_ARTIFACT_STORE_RSA_PUB | base64 --decode >> ~/.ssh/known_hosts &&
+          echo $MLFLOW_ARTIFACT_STORE_RSA_PRI | base64 --decode >> ~/.ssh/id_rsa &&
+          chmod 600 ~/.ssh/* &&
+          jupyter-lab --ip='*' --NotebookApp.token='' --NotebookApp.password='' --NotebookApp.allow_origin='*'
+        env:
+        - name: JUPYTER_ENABLE_LAB
+          value: "yes"
+        envFrom:
+        - configMapRef:
+            name: mlflow-env
+        volumeMounts:
+          - name: work-volume
+            mountPath: /home/jovyan/work
+      volumes:
+        - name: work-volume
+          persistentVolumeClaim:
+            claimName: work
+---
+kind: Service
+apiVersion: v1
+metadata:
+  name: jupyter
+spec:
+  ports:
+  - name: http
+    port: 8888
+  selector:
+    app: jupyter
+---
+apiVersion: v1
+kind: PersistentVolumeClaim
+metadata:
+  name: work
+  annotations:
+    storage.staroid.com/scope: Instance
+    storage.staroid.com/file-manager: "1000:100"
+spec:
+  storageClassName: nfs
+  accessModes:
+    - ReadWriteMany
+  volumeMode: Filesystem
+  resources:
+    requests:
+      storage: 1Gi

.staroid/minikube.yaml

@@ -0,0 +1,19 @@
+apiVersion: v1
+kind: PersistentVolume
+metadata:
+  name: jupyter-work-pv
+spec:
+  accessModes:
+    - ReadWriteMany
+  capacity:
+    storage: 1Gi
+  hostPath:
+    path: ./jupyter-work-pv
+---
+kind: StorageClass
+apiVersion: storage.k8s.io/v1
+metadata:
+  name: nfs
+  labels:
+    addonmanager.kubernetes.io/mode: EnsureExists
+provisioner: k8s.io/minikube-hostpath

.staroid/skaffold.yaml

@@ -0,0 +1,18 @@
+apiVersion: skaffold/v2beta1
+kind: Config
+build:
+  artifacts:
+    - image: jupyter
+      context: .
+      custom:
+        buildCommand: .staroid/build.sh
+deploy:
+  kubectl:
+    manifests:
+      - k8s.yaml
+profiles:
+  - name: minikube
+    patches:
+      - op: add
+        path: /deploy/kubectl/manifests/0
+        value: minikube.yaml

.staroid/staroid.yaml

@@ -0,0 +1,35 @@
+# See https://docs.staroid.com/references/staroid_yaml.html for more configuration detail
+apiVersion: beta/v1
+starRank:
+  rate: 1.0 # set community rate here. https://staroid.com/site/starrank
+build:
+  skaffold: {}
+ingress:
+- serviceName: jupyter
+  port: 8888
+deploy:
+  dependencies:
+  - project: open-datastudio/mlflow-server
+    level: OPTIONAL
+  paramGroups:
+  - name: Configurations
+    params:
+    - name: "Instance type"
+      description: "GPU instance is supported only in AWS for now"
+      type: STRING
+      defaultValue: gpu-1
+      options:
+      - name: gpu-1 (8CPU, 61GB Mem, 1 GPU - Tesla V100 16GB Mem)
+        value: gpu-1
+      paths:
+      - Deployment:jupyter-deployment:spec.template.metadata.labels["pod.staroid.com/instance-type"]
+    - name: "Spot instance"
+      type: STRING
+      defaultValue: "false"
+      options:
+      - name: "false"
+        value: "false"
+      - name: "true"
+        value: "true"
+      paths:
+      - Deployment:jupyter-deployment:spec.template.metadata.labels["pod.staroid.com/spot"]