Added charts for radar-appserver-jersey

charts/radar-appserver-jersey/.helmignore

@@ -0,0 +1,22 @@
+# Patterns to ignore when building packages.
+# This supports shell glob matching, relative path matching, and
+# negation (prefixed with !). Only one pattern per line.
+.DS_Store
+# Common VCS dirs
+.git/
+.gitignore
+.bzr/
+.bzrignore
+.hg/
+.hgignore
+.svn/
+# Common backup files
+*.swp
+*.bak
+*.tmp
+*~
+# Various IDEs
+.project
+.idea/
+*.tmproj
+.vscode/

charts/radar-appserver-jersey/Chart.lock

@@ -0,0 +1,6 @@
+dependencies:
+- name: common
+  repository: https://radar-base.github.io/radar-helm-charts
+  version: 2.27.0
+digest: sha256:397fd12e07f1aa1a5280579406a75b169f8262ac4214584ea366460277288546
+generated: "2024-12-27T13:14:52.685559173+01:00"

charts/radar-appserver-jersey/Chart.yaml

@@ -0,0 +1,32 @@
+apiVersion: v2
+appVersion: 2.4.7
+description: A Helm chart for the backend application of RADAR-base Appserver
+name: radar-appserver
+version: 0.0.1
+icon: "http://radar-base.org/wp-content/uploads/2022/09/Logo_RADAR-Base-RGB.png"
+sources:
+- https://github.com/RADAR-base/radar-helm-charts/tree/main/charts/radar-appserver
+- https://github.com/RADAR-base/RADAR-Appserver
+keywords:
+  - radar-base
+  - remote-trial
+annotations:
+  artifacthub.io/license: Apache-2.0
+deprecated: false
+type: application
+home: "https://radar-base.org"
+maintainers:
+  - email: yatharth.ranjan@kcl.ac.uk
+    name: Yatharth Ranjan
+    url: https://www.kcl.ac.uk/people/yatharth-ranjan
+  - email: pauline.conde@kcl.ac.uk
+    name: Pauline Conde
+    url: https://www.kcl.ac.uk/people/pauline-conde
+  - email: aditya.mishra@kcl.ac.uk
+    name: Aditya Mishra
+dependencies:
+- name: common
+  repository: https://radar-base.github.io/radar-helm-charts
+  tags:
+  - bitnami-common
+  version: 2.x.x

charts/radar-appserver-jersey/README.md

@@ -0,0 +1,130 @@
+
+
+# radar-appserver
+[![Artifact HUB](https://img.shields.io/endpoint?url=https://artifacthub.io/badge/repository/radar-appserver)](https://artifacthub.io/packages/helm/radar-base/radar-appserver)
+
+![Version: 0.0.1](https://img.shields.io/badge/Version-0.0.1-informational?style=flat-square) ![Type: application](https://img.shields.io/badge/Type-application-informational?style=flat-square) ![AppVersion: 2.4.7](https://img.shields.io/badge/AppVersion-2.4.7-informational?style=flat-square)
+
+A Helm chart for the backend application of RADAR-base Appserver
+
+**Homepage:** <https://radar-base.org>
+
+## Maintainers
+
+| Name | Email | Url |
+| ---- | ------ | --- |
+| Yatharth Ranjan | <yatharth.ranjan@kcl.ac.uk> | <https://www.kcl.ac.uk/people/yatharth-ranjan> |
+| Pauline Conde | <pauline.conde@kcl.ac.uk> | <https://www.kcl.ac.uk/people/pauline-conde> |
+| Aditya Mishra | <aditya.mishra@kcl.ac.uk> |  |
+
+## Source Code
+
+* <https://github.com/RADAR-base/radar-helm-charts/tree/main/charts/radar-appserver>
+* <https://github.com/RADAR-base/RADAR-Appserver>
+
+## Prerequisites
+* Kubernetes 1.28+
+* Kubectl 1.28+
+* Helm 3.1.0+
+
+## Requirements
+
+| Repository | Name | Version |
+|------------|------|---------|
+| https://radar-base.github.io/radar-helm-charts | common | 2.x.x |
+
+## Values
+
+| Key | Type | Default | Description |
+|-----|------|---------|-------------|
+| replicaCount | int | `2` | Number of radar-appserver replicas to deploy |
+| image.registry | string | `"ghcr.io"` | Image registry |
+| image.repository | string | `"radar-base/radar-appserver/radar-appserver"` | Image repository |
+| image.tag | string | `nil` | Image tag (immutable tags are recommended) Overrides the image tag whose default is the chart appVersion. |
+| image.digest | string | `""` | Image digest in the way sha256:aa.... Please note this parameter, if set, will override the tag |
+| image.pullPolicy | string | `"IfNotPresent"` | Image pull policy |
+| image.pullSecrets | list | `[]` | Optionally specify an array of imagePullSecrets. Secrets must be manually created in the namespace. e.g: pullSecrets:   - myRegistryKeySecretName  |
+| nameOverride | string | `""` | String to partially override radar-appserver.fullname template with a string (will prepend the release name) |
+| fullnameOverride | string | `""` | String to fully override radar-appserver.fullname template with a string |
+| podSecurityContext | object | `{}` | Configure radar-appserver pods' Security Context |
+| securityContext | object | `{}` | Configure radar-appserver containers' Security Context |
+| service.type | string | `"ClusterIP"` | Kubernetes Service type |
+| service.port | int | `8080` | radar-appserver port |
+| disable_tls | bool | `false` | Reconfigure Ingress to not force TLS |
+| advertised_protocol | string | `"https"` | The protocol in advertised URIs (https, http) |
+| ingress.enabled | bool | `true` | Enable ingress controller resource |
+| ingress.annotations | object | check values.yaml | Annotations that define default ingress class, certificate issuer and session configuration |
+| ingress.path | string | `"/appserver/?(.*)"` | Path within the url structure |
+| ingress.pathType | string | `"ImplementationSpecific"` | Ingress path type |
+| ingress.ingressClassName | string | `"nginx"` | IngressClass that will be be used to implement the Ingress (Kubernetes 1.18+) |
+| ingress.hosts | list | `["localhost"]` | Hosts to accept requests from |
+| ingress.tls.secretName | string | `"radar-base-tls"` | TLS Secret Name |
+| resources.requests | object | `{"cpu":"100m","memory":"128Mi"}` | CPU/Memory resource requests |
+| nodeSelector | object | `{}` | Node labels for pod assignment |
+| tolerations | list | `[]` | Toleration labels for pod assignment |
+| affinity | object | `{}` | Affinity labels for pod assignment |
+| javaOpts | string | `"-XX:GCTimeRatio=19 -XX:MinHeapFreeRatio=20 -XX:MaxHeapFreeRatio=30 --add-opens java.base/java.io=ALL-UNNAMED --add-opens java.management/javax.management.openmbean=ALL-UNNAMED --add-opens java.base/java.lang.reflect=ALL-UNNAMED --add-opens java.management/javax.management=ALL-UNNAMED -Djava.util.logging.manager=org.apache.logging.log4j.jul.LogManager"` | Standard JAVA_OPTS that should be passed to this service |
+| extraEnvVars | list | `[]` | Extra environment variables |
+| customLivenessProbe | object | `{}` | Custom livenessProbe that overrides the default one |
+| livenessProbe.enabled | bool | `true` | Enable livenessProbe |
+| livenessProbe.initialDelaySeconds | int | `5` | Initial delay seconds for livenessProbe |
+| livenessProbe.periodSeconds | int | `30` | Period seconds for livenessProbe |
+| livenessProbe.timeoutSeconds | int | `5` | Timeout seconds for livenessProbe |
+| livenessProbe.successThreshold | int | `1` | Success threshold for livenessProbe |
+| livenessProbe.failureThreshold | int | `3` | Failure threshold for livenessProbe |
+| customReadinessProbe | object | `{}` | Custom readinessProbe that overrides the default one |
+| readinessProbe.enabled | bool | `true` | Enable readinessProbe |
+| readinessProbe.initialDelaySeconds | int | `5` | Initial delay seconds for readinessProbe |
+| readinessProbe.periodSeconds | int | `30` | Period seconds for readinessProbe |
+| readinessProbe.timeoutSeconds | int | `5` | Timeout seconds for readinessProbe |
+| readinessProbe.successThreshold | int | `1` | Success threshold for readinessProbe |
+| readinessProbe.failureThreshold | int | `3` | Failure threshold for readinessProbe |
+| customStartupProbe | object | `{}` | Custom startupProbe that overrides the default one |
+| startupProbe.enabled | bool | `true` | Enable startupProbe |
+| startupProbe.initialDelaySeconds | int | `5` | Initial delay seconds for startupProbe |
+| startupProbe.periodSeconds | int | `10` | Period seconds for startupProbe |
+| startupProbe.timeoutSeconds | int | `10` | Timeout seconds for startupProbe |
+| startupProbe.successThreshold | int | `1` | Success threshold for startupProbe |
+| startupProbe.failureThreshold | int | `30` | Failure threshold for startupProbe |
+| networkpolicy | object | check `values.yaml` | Network policy defines who can access this application and who this applications has access to |
+| postgres.host | string | `nil` | host name of the postgres db |
+| postgres.port | string | `nil` | port of the postgres db |
+| postgres.database | string | `nil` | database name |
+| postgres.urlSecret | object | `{"key":"jdbc-uri","name":"radar-cloudnative-postgresql-appserver"}` | Kubernetes secret containing the database JDBC Connection url (disables use of 'host', 'port' and 'database' values). |
+| postgres.user | string | `nil` | postgres user |
+| postgres.userSecret | object | `{"key":"username","name":"radar-cloudnative-postgresql-appserver"}` | Kubernetes secret containing the database user (disables use of 'user' value). |
+| postgres.password | string | `nil` | password of the postgres user |
+| postgres.passwordSecret | object | `{"key":"password","name":"radar-cloudnative-postgresql-appserver"}` | Kubernetes secret containing the database password (disables use of 'password' value). |
+| postgres.hibernateDialect | string | `"org.hibernate.dialect.PostgreSQLDialect"` |  |
+| postgres.jdbcDriver | string | `"org.postgresql.Driver"` |  |
+| postgres.connection_parameters | string | `""` | Additional JDBC connection parameters e.g. sslmode=verify-full. Ignored when using 'urlSecret'. |
+| postgres.ssl.enabled | bool | `false` | set to true of the connecting to postgres using SSL |
+| postgres.ssl.keystorepassword | string | `"keystorepassword"` |  |
+| protocol.githubProtocolRepo | string | `"RADAR-base/RADAR-aRMT-protocols"` |  |
+| protocol.protocolFileName | string | `"protocol.json"` |  |
+| protocol.githubBranch | string | `"master"` |  |
+| managementportal_url | string | `"http://management-portal:8080/managementportal"` | URL of the Management Portal |
+| serverName | string | `"localhost"` |  |
+| managementportal_resource_name | string | `"res_AppServer"` | radar_is.yml config for token verification |
+| public_key_endpoints | list | `["http://management-portal:8080/managementportal/oauth/token_key"]` | List of OAuth2 authentication server public key endpoints for token verification |
+| google_application_credentials | string | `""` | Google credentials containing FCM server key, etc. |
+| github_client_token | string | `""` | Github client token which is used for authenticating requests |
+| smtp.enabled | bool | `false` | set to true, if sending of notifications via email should be enabled. |
+| smtp.host | string | `"smtp"` | Hostname of the SMTP server |
+| smtp.port | int | `25` | Port of the SMTP server |
+| smtp.username | string | `"username"` | Username of the SMTP server |
+| smtp.password | string | `"secret"` | Password of the SMTP server |
+| smtp.from | string | `"noreply@example.com"` | Email address which should be used to send activation emails |
+| smtp.starttls | bool | `false` | set to true,if TTLS should be enabled |
+| smtp.auth | bool | `true` | set to true, if the account should be authenticated before sending emails |
+| smtp.connect_timeout | int | `10000` | Timeout (ms) for establishing TCP connection to server |
+| smtp.read_timeout | int | `10000` | Timeout (ms) for read operations (socket read timeout), waiting for server responses |
+| upload.enabled | bool | `false` | if set to true, file upload endpoint will be enabled |
+| upload.max_file_size | string | `"20MB"` | Maximum file size for upload. Can be any number followed by MB or GB. |
+| upload.storage.type | string | `"s3"` | Type of storage to use for file upload (s3) |
+| upload.storage.url | string | `"http://minio-headless:9000"` | Internal url to storage |
+| upload.storage.bucket_name | string | `"radar-output-storage"` | Bucket name of the S3 storage |
+| upload.storage.access_key | string | `"secret"` | Access key of the S3 storage |
+| upload.storage.secret_key | string | `"secret"` | Secret key of the S3 storage |
+| upload.storage.path.prefix | string | `"output"` | Prefix for the path in the storage; will become <bucket>/<prefix>/<project>/<subject>/<topic> |
+| upload.storage.path.collection_per_day | bool | `false` | if set to true, a new folder will be created for each day |

charts/radar-appserver-jersey/README.md.gotmpl

@@ -0,0 +1,18 @@
+{{ template "common.header" . }}
+{{ template "chart.deprecationWarning" . }}
+
+{{ template "chart.badgesSection" . }}
+
+{{ template "chart.description" . }}
+
+{{ template "chart.homepageLine" . }}
+
+{{ template "chart.maintainersSection" . }}
+
+{{ template "chart.sourcesSection" . }}
+
+{{ template "common.prerequisites" . }}
+
+{{ template "chart.requirementsSection" . }}
+
+{{ template "chart.valuesSection" . }}

charts/radar-appserver-jersey/templates/_helpers.tpl

@@ -0,0 +1,73 @@
+{{/* vim: set filetype=mustache: */}}
+{{/*
+Expand the name of the chart.
+*/}}
+{{- define "radar-appserver.name" -}}
+{{- default .Chart.Name .Values.nameOverride | trunc 63 | trimSuffix "-" -}}
+{{- end -}}
+
+{{/*
+Return the proper image name
+*/}}
+{{- define "radar-appserver.image" -}}
+{{ include "common.images.image" (dict "imageRoot" .Values.image "global" .Values.global "chart" .Chart ) }}
+{{- end -}}
+
+{{/*
+Return the proper Docker Image Registry Secret Names
+*/}}
+{{- define "radar-appserver.imagePullSecrets" -}}
+{{- include "common.images.pullSecrets" (dict "images" (list .Values.image) "global" .Values.global) -}}
+{{- end -}}
+
+{{/*
+Create a default fully qualified app name.
+We truncate at 63 chars because some Kubernetes name fields are limited to this (by the DNS naming spec).
+If release name contains chart name it will be used as a full name.
+*/}}
+{{- define "radar-appserver.fullname" -}}
+{{- if .Values.fullnameOverride -}}
+{{- .Values.fullnameOverride | trunc 63 | trimSuffix "-" -}}
+{{- else -}}
+{{- $name := default .Chart.Name .Values.nameOverride -}}
+{{- if contains $name .Release.Name -}}
+{{- .Release.Name | trunc 63 | trimSuffix "-" -}}
+{{- else -}}
+{{- printf "%s-%s" .Release.Name $name | trunc 63 | trimSuffix "-" -}}
+{{- end -}}
+{{- end -}}
+{{- end -}}
+
+{{/*
+Create chart name and version as used by the chart label.
+*/}}
+{{- define "radar-appserver.chart" -}}
+{{- printf "%s-%s" .Chart.Name .Chart.Version | replace "+" "_" | trunc 63 | trimSuffix "-" -}}
+{{- end -}}
+
+{{/*
+Common labels
+*/}}
+{{- define "radar-appserver.labels" -}}
+helm.sh/chart: {{ include "radar-appserver.chart" . }}
+{{ include "radar-appserver.selectorLabels" . }}
+{{- if .Chart.AppVersion }}
+app.kubernetes.io/version: {{ .Chart.AppVersion | quote }}
+{{- end }}
+app.kubernetes.io/managed-by: {{ .Release.Service }}
+{{- end }}
+
+{{/*
+Selector labels
+*/}}
+{{- define "radar-appserver.selectorLabels" -}}
+app.kubernetes.io/name: {{ include "radar-appserver.name" . }}
+app.kubernetes.io/instance: {{ .Release.Name }}
+{{- end }}
+
+{{/*
+Create JavaOpts string
+*/}}
+{{- define "radar-appserver.javaOpts" -}}
+{{- .Values.javaOpts -}}
+{{- end -}}

charts/radar-appserver-jersey/templates/configmap.yaml

@@ -0,0 +1,74 @@
+apiVersion: v1
+kind: ConfigMap
+metadata:
+  name: {{ template "common.names.fullname" . }}
+  namespace: {{ include "common.names.namespace" . | quote }}
+  labels: {{- include "common.labels.standard" ( dict "customLabels" .Values.commonLabels "context" $ ) | nindent 4 }}
+  {{- if .Values.commonAnnotations }}
+  annotations: {{- include "common.tplvalues.render" ( dict "value" .Values.commonAnnotations "context" $ ) | nindent 4 }}
+  {{- end }}
+data:
+  healthcheck.sh: |
+    #!/bin/sh
+    STATUS=$(curl -s --max-time 4 localhost:8080/actuator/health)
+    if ! (echo "$STATUS" | grep -Fq 'db":{"status":"UP'); then
+      exit 1
+    fi
+  appserver.yml: |
+    # Resource config class
+    resourceConfig: org.radarbase.appserver.jersey.enhancer.factory.AppserverResourceEnhancerFactory
+
+    server:
+      baseUri: http://0.0.0.0:{{ .Values.service.port }}/appserver/
+      requestTimeout: 30
+      isJmxEnabled: false
+
+    auth:
+      managementPortalUrl: {{ .Values.managementportal_url }}
+      resourceName: res_AppServer
+
+    #db:
+    #  additionalProperties:
+    #    jakarta.persistence.schema-generation.database.action: drop-and-create
+    # GitHub configuration.
+
+    github:
+      # GitHub Cache configuration.
+      cache:
+        # Duration in seconds for which the cache is valid.
+        cacheDurationSec: 3600
+        # Duration in seconds after which the cache can be refreshed.
+        retryDurationSec: 60
+        # Maximum number of entries in the cache.
+        maxCacheSize: 10000
+      # GitHub HTTP Client configuration.
+      client:
+        maxContentLength: 1000000
+        timeoutSec: 10
+        githubToken:
+
+    # Quartz Scheduler Configuration.
+    quartz:
+      # Specifies the dispatcher for asynchronous operations.
+      # Options: 'io' (for I/O-bound tasks), 'default' (for CPU-bound tasks), 'unconfined' (uses calling thread).
+      # Defaults to 'unconfined' if not provided.
+      coroutineDispatcher: io
+      # Specifies the type of coroutine job.
+      # Options: 'supervisor-job' (supervises child jobs), 'coroutine-job' (no supervision).
+      # Defaults to 'supervisor-job' if not provided.
+      coroutineJob: supervisor-job
+
+    protocol:
+      githubProtocolRepo: RADAR-base/RADAR-aRMT-protocols
+      protocolFileName: protocol.json
+      githubBranch: master
+
+    email:
+      enabled: false
+
+    fcm:
+      fcmsender: org.radarbase.appserver.jersey.fcm.downstream.AdminSdkFcmSender
+      credentials:
+
+    eventBus:
+      numThreads: 3