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| # The config file for the dask-enabled hub | ||
| jupyterhub: | ||
| hub: | ||
| extraEnv: | ||
| DASK_DISTRIBUTED__DASHBOARD_LINK: '/user/{JUPYTERHUB_USER}/proxy/{port}/status' | ||
| config: | ||
| GitHubOAuthenticator: | ||
| client_id: xxx | ||
| client_secret: xxx | ||
| oauth_callback_url: https://dhub.opensci.live/hub/oauth_callback | ||
| allowed_organizations: | ||
| - nmfs-opensci:DaskHub | ||
| - nmfs-opensci:EDMW-2024 | ||
| scope: | ||
| - read:org | ||
| Authenticator: | ||
| admin_users: | ||
| - eeholmes | ||
| JupyterHub: | ||
| authenticator_class: github | ||
| KubeSpawner: | ||
| working_dir: /home/jovyan | ||
| allowNamedServers: true | ||
| networkPolicy: | ||
| # FIXME: For dask gateway | ||
| enabled: false | ||
| readinessProbe: | ||
| enabled: false | ||
| proxy: | ||
| https: | ||
| enabled: true | ||
| hosts: | ||
| - dhub.opensci.live | ||
| letsencrypt: | ||
| contactEmail: [email protected] | ||
| singleuser: | ||
| startTimeout: 3600 | ||
| defaultUrl: /lab | ||
| storage: | ||
| capacity: 20Gi | ||
| extraVolumes: | ||
| - name: jupyterhub-shared | ||
| persistentVolumeClaim: | ||
| claimName: daskhub-pvc | ||
| extraVolumeMounts: | ||
| - name: jupyterhub-shared | ||
| mountPath: /home/jovyan/shared | ||
| image: | ||
| name: openscapes/python | ||
| tag: 6ee57a9 | ||
| pullPolicy: Always | ||
| profileList: | ||
| - display_name: "Select image and RAM" | ||
| description: &profile_list_description "Start a container with at least a chosen share of capacity on a node of this type" | ||
| default: true | ||
| slug: small | ||
| profile_options: | ||
| image: &profile_options_image | ||
| display_name: Image | ||
| choices: | ||
| python: | ||
| display_name: Py - Openscapes Python 39dffde | ||
| slug: python | ||
| kubespawner_override: | ||
| image: openscapes/python:39dffde | ||
| cmip6: | ||
| display_name: Py - CMIP6-Cookbook | ||
| slug: cmip6 | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/cmip6-cookbook:latest | ||
| pyrbase: | ||
| display_name: Py-R - base image 4.4-3.10 | ||
| slug: pyrbase | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/py-rocket-base:latest | ||
| pyrgeo: | ||
| display_name: Py-R - Base geospatial image 4.4-3.10 | ||
| slug: pyrgeo | ||
| default: true | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/py-rocket-geospatial:latest | ||
| coastwatch: | ||
| display_name: Py-R - CoastWatch - nmfs-opensci coastwatch latest | ||
| slug: coastwatch | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/coastwatch:latest | ||
| aomlomics: | ||
| display_name: Py - Tourmaline Snakemake workflow for QIIME 2 v.2023.5 | ||
| slug: aomlomics | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/aomlomics-jh:latest | ||
| iopython: | ||
| display_name: Py - Python w tensorflow - eeholmes iopython 20230714 | ||
| slug: iopython | ||
| kubespawner_override: | ||
| image: eeholmes/iopython:20230714 | ||
| iorocker: | ||
| display_name: R - R geospatial w sdmTMB - eeholmes iorocker 20230729 | ||
| slug: iorocker | ||
| kubespawner_override: | ||
| image: eeholmes/iorocker:20230729 | ||
| test: | ||
| display_name: Py - pangeo base-notebook 2024.01.23 | ||
| slug: test | ||
| kubespawner_override: | ||
| image: pangeo/base-notebook | ||
| tag: 2024.01.23 | ||
| rocker: | ||
| display_name: R - Openscapes rocker a7596b5 | ||
| slug: rocker | ||
| kubespawner_override: | ||
| image: openscapes/rocker:a7596b5 | ||
| echopype: | ||
| display_name: Py - Echopype with pangeo nmfs-opensci echopype latest | ||
| slug: echopype | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/echopype:latest | ||
| arcgis: | ||
| display_name: Py - ArcGIS Python 3.9 | ||
| slug: arcgis | ||
| kubespawner_override: | ||
| image: ghcr.io/nmfs-opensci/container-images/arcgis:latest | ||
| cboettig: | ||
| display_name: R-Py - NASA TOPS Env Jus - boettiger-lab nasa-tops latest | ||
| slug: cboettig | ||
| kubespawner_override: | ||
| image: ghcr.io/boettiger-lab/nasa-tops:latest | ||
| requests: &profile_options_resource_allocation | ||
| display_name: Resource Allocation | ||
| choices: | ||
| mem_1_9: | ||
| display_name: 1.9 GB RAM, upto 3.7 CPUs | ||
| kubespawner_override: | ||
| mem_guarantee: 1991244775 | ||
| mem_limit: 1991244775 | ||
| cpu_guarantee: 0.2328125 | ||
| cpu_limit: 3.725 | ||
| default: true | ||
| mem_3_7: | ||
| display_name: 3.7 GB RAM, upto 3.7 CPUs | ||
| kubespawner_override: | ||
| mem_guarantee: 3982489550 | ||
| mem_limit: 3982489550 | ||
| cpu_guarantee: 0.465625 | ||
| cpu_limit: 3.725 | ||
| node_selector: | ||
| node.kubernetes.io/instance-type: r5.xlarge | ||
| mem_7_4: | ||
| display_name: 7.4 GB RAM, upto 3.7 CPUs | ||
| kubespawner_override: | ||
| mem_guarantee: 7964979101 | ||
| mem_limit: 7964979101 | ||
| cpu_guarantee: 0.93125 | ||
| cpu_limit: 3.725 | ||
| mem_14_8: | ||
| display_name: 14.8 GB RAM, upto 3.7 CPUs | ||
| kubespawner_override: | ||
| mem_guarantee: 15929958203 | ||
| mem_limit: 15929958203 | ||
| cpu_guarantee: 1.8625 | ||
| cpu_limit: 3.725 | ||
| mem_29_7: | ||
| display_name: 29.7 GB RAM, upto 3.7 CPUs | ||
| kubespawner_override: | ||
| mem_guarantee: 31859916406 | ||
| mem_limit: 31859916406 | ||
| cpu_guarantee: 3.725 | ||
| cpu_limit: 3.725 | ||
| kubespawner_override: | ||
| cpu_limit: null | ||
| mem_limit: null | ||
| node_selector: | ||
| topology.kubernetes.io/zone: westus2-1 | ||
| node.kubernetes.io/instance-type: Standard_D8s_v3 | ||
| dask-gateway: | ||
| gateway: | ||
| extraConfig: | ||
| idle: |- | ||
| # timeout after 30 minutes of inactivity | ||
| c.KubeClusterConfig.idle_timeout = 1800 | ||