Update nwb explorer - port to new dependencies

applications/nwb-explorer/.dockerignore

@@ -1 +1,2 @@
-/deploy
+/deploy
+.git

applications/nwb-explorer/Dockerfile

@@ -1,23 +1,14 @@
-FROM node:15 as clone
-ENV BRANCH_TAG="develop"
-ENV REPO=https://github.com/MetaCell/nwb-explorer.git
-RUN echo "cache 2024-02-05"
-RUN git clone $REPO -b $BRANCH_TAG
-RUN rm -Rf .git
-
 FROM node:20 as jsbuild
 
 
 ENV FOLDER=nwb-explorer
 
-
-
 WORKDIR $FOLDER/webapp
 
-COPY --from=clone nwb-explorer/webapp/package.json .
-COPY --from=clone nwb-explorer/webapp/yarn.lock .
+COPY dependencies/nwb-explorer.git/webapp/package.json .
+COPY dependencies/nwb-explorer.git/webapp/yarn.lock .
 RUN yarn install --network-timeout 1000000000
-COPY --from=clone nwb-explorer/webapp/ .
+COPY dependencies/nwb-explorer.git/webapp/ .
 COPY geppetto/GeppettoConfiguration.json GeppettoConfiguration.json
 RUN yarn build
 
@@ -40,23 +31,21 @@ RUN apt-get update -qq &&\
 RUN chown $NB_UID /opt
 RUN chown $NB_UID .
 
-
-
 USER $NB_UID
 
-COPY --from=clone $FOLDER/requirements.txt requirements.txt
+COPY dependencies/nwb-explorer.git/requirements.txt requirements.txt
 RUN --mount=type=cache,target=/root/.cache python -m pip install --upgrade pip &&\ 
     pip install -r requirements.txt
 RUN --mount=type=cache,target=/root/.cache python -m pip install --upgrade pip &&\ 
     pip install cython --no-cache-dir
-COPY --from=clone $FOLDER .
+COPY dependencies/nwb-explorer.git/ .
 
 
 RUN mkdir -p /opt/workspace
 RUN ln -s /opt/workspace workspace
 RUN mkdir -p /opt/home
 RUN python utilities/install.py --npm-skip --no-test
-COPY --from=clone $FOLDER/utilities/custom.css /home/jovyan/.jupyter/custom/custom.css
+COPY dependencies/nwb-explorer.git/utilities/custom.css /home/jovyan/.jupyter/custom/custom.css
 
 # this removes the frame ancestor default cors settings
 RUN rm -f ~/.jupyter/*.json

applications/nwb-explorer/deploy/values.yaml

@@ -4,6 +4,10 @@ harness:
     auto: false
     port: 80
     name: proxy-public
+  dependencies:
+    git:
+      - url: https://github.com/MetaCell/nwb-explorer.git
+        branch_tag: development
   jupyterhub:
     args: ["--debug", "--NotebookApp.default_url=/geppetto", "--library=nwb_explorer", "--NotebookApp.notebook_dir=/opt/workspace"]
     applicationHook: "osb_jupyter.change_pod_manifest"

applications/osb-portal/deploy/values-minimal.yaml

@@ -6,5 +6,5 @@ harness:
       - workspaces
       - jupyterhub
       - notifications
-      - jupyterlab-minimal
+      - nwb-explorer
 

deployment/codefresh-dev.yaml

@@ -26,6 +26,12 @@ steps:
       revision: '${{CLOUDHARNESS_BRANCH}}'
       working_directory: .
       git: github
+    - title: Cloning nwb-explorer.git repository...
+      type: git-clone
+      repo: https://github.com/MetaCell/nwb-explorer.git
+      revision: development
+      working_directory: /home/user/OSBv2/./applications/dependencies/nwb-explorer.git
+      git: github
   prepare_deployment:
     title: Prepare helm chart
     image: python:3.9.10
@@ -702,6 +708,16 @@ steps:
     commands:
     - echo $APP_NAME
     scale:
+      volumemanager_api_test:
+        title: volumemanager api test
+        volumes:
+        - '${{CF_REPO_NAME}}/cloud-harness/applications/volumemanager:/home/test'
+        - '${{CF_REPO_NAME}}/deployment/helm/values.yaml:/opt/cloudharness/resources/allvalues.yaml'
+        environment:
+        - APP_URL=https://volumemanager.${{DOMAIN}}/api
+        commands:
+        - st --pre-run cloudharness_test.apitest_init run api/openapi.yaml --base-url
+          https://volumemanager.${{DOMAIN}}/api -c all
       common_api_test:
         title: common api test
         volumes: