wip

images/Dockerfile

@@ -1,13 +1,25 @@
 FROM rocker/geospatial 
+ENV NB_USER rstudio
+ENV VIRTUAL_ENV /opt/venv
+
 RUN /rocker_scripts/install_jupyter.sh
 
-COPY requirements.txt requirements.txt
-RUN python3 -m pip install -r requirements.txt && rm requirements.txt
 COPY install.R install.R
 RUN Rscript install.R && rm install.R
-RUN python3 -m ipykernel install --user --name=nasa
 
 # some teaching preferences
 RUN git config --global pull.rebase false
 
 
+EXPOSE 8888
+CMD ["/bin/sh", "-c", "jupyter lab --ip 0.0.0.0 --no-browser"]
+
+RUN chown -R root:staff ${VIRTUAL_ENV}
+USER ${NB_USER}
+COPY requirements.txt requirements.txt
+RUN python3 -m pip install -r requirements.txt && rm requirements.txt
+RUN python3 -m ipykernel install --user --name=spatial
+
+
+WORKDIR /home/${NB_USER}
+

jupyterhub/public-config.yaml

@@ -20,39 +20,57 @@ singleuser:
     - display_name: "GPU Server"
       description: "Spawns a notebook server with access to a GPU"
       kubespawner_override:
-        extra_resource_limits:
+       image: ghcr.io/boettiger-lab/k8s:latest
+       extra_resource_limits:
           nvidia.com/gpu: "1"
     - display_name: "Rocker Geospatial with RStudio"
       slug: rocker
       description: R environment with many geospatial libraries pre-installed
-			profile_options: &profile_options
-				resource_allocation: &profile_options_resource_allocation
-					display_name: Resource Allocation
-					choices:
-						mem_1_9:
-							display_name: 2 GB RAM
-							kubespawner_override:
-								mem_guarantee: 1991341312
-								mem_limit: 1991341312
-							default: true
-						mem_7_4:
-							display_name: 7.4 GB RAM
-							kubespawner_override:
-								mem_guarantee: 7965365248
-								mem_limit: 7965365248
-						mem_14_8:
-							display_name: 14.8 GB RAM
-							kubespawner_override:
-								mem_guarantee: 15930730496
-								mem_limit: 15930730496
-						mem_29_7:
-							display_name: 29.7 GB RAM
-							kubespawner_override:
-								mem_guarantee: 31861460992
-								mem_limit: 31861460992
-			kubespawner_override:
+      profile_options: &profile_options
+        resource_allocation: &profile_options_resource_allocation
+          display_name: Resource Allocation
+          choices:
+            mem_1_9:
+              display_name: CPU only + 2 GB RAM
+              kubespawner_override:
+                mem_guarantee: 1991341312
+                mem_limit: 1991341312
+              default: true
+              mem_14_8:
+              display_name: CPU only + 14.8 GB RAM
+              kubespawner_override:
+                mem_guarantee: 15930730496
+                mem_limit: 15930730496
+            mem_29_7:
+              display_name: CPU only + 29.7 GB RAM
+              kubespawner_override:
+                mem_guarantee: 31861460992
+                mem_limit: 31861460992
+            gpu_1_9:
+              display_name: GPU + 2 GB RAM
+              kubespawner_override:
+                mem_guarantee: 1991341312
+                mem_limit: 1991341312
+                extra_resource_limits:
+                  nvidia.com/gpu: "1"
+            gpu_14_8:
+              display_name: GPU + 14.8 GB RAM
+              kubespawner_override:
+                mem_guarantee: 15930730496
+                mem_limit: 15930730496
+                extra_resource_limits:
+                  nvidia.com/gpu: "1"
+            gpu_29_7:
+              display_name: GPU + 29.7 GB RAM
+              kubespawner_override:
+                mem_guarantee: 31861460992
+                mem_limit: 31861460992
+                extra_resource_limits:
+                  nvidia.com/gpu: "1"
+      kubespawner_override:
         image: rocker/binder:4.3
-        default_url: /rstudio
+#       image: ghcr.io/boettiger-lab/k8s:latest
+        default_url: /lab # change to /rstudio to go straight to RStudio
         working_dir: /home/rstudio
     - display_name: "Bring your own image"
       description: Specify your own docker image (must have python and jupyterhub installed in it)