berkeley-dsep-infra · balajialg · Jan 15, 2024 · Jan 11, 2024 · Jan 11, 2024 · Jan 11, 2024
diff --git a/deployments/a11y/image/environment.yml b/deployments/a11y/image/environment.yml
@@ -7,6 +7,7 @@ dependencies:
 - python==3.11.0
 - git==2.40.0
 - coverage==7.2.2
+- jupyter-archive==3.4.0
 - jupyter_server==2.7.0
 - jupyter-book==0.15.1
 - jupyter-resource-usage==0.7.1

diff --git a/deployments/a11y/image/infra-requirements.txt b/deployments/a11y/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/astro/image/infra-requirements.txt b/deployments/astro/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/astro/image/postBuild b/deployments/astro/image/postBuild
@@ -1,5 +1,6 @@
 #!/bin/bash
 set -euo pipefail
 
-jupyter contrib nbextensions install --sys-prefix --symlink
-jupyter nbextensions_configurator enable --sys-prefix
+# 2024-01-13 sknapp: incompatible due to notebook 7
+# jupyter contrib nbextensions install --sys-prefix --symlink
+# jupyter nbextensions_configurator enable --sys-prefix
diff --git a/deployments/biology/image/Dockerfile b/deployments/biology/image/Dockerfile
@@ -172,8 +172,9 @@ COPY infra-requirements.txt /tmp/
 RUN mamba env update -p ${CONDA_DIR} -f /tmp/environment.yml && \
     mamba clean -afy
 
-RUN jupyter contrib nbextensions install --sys-prefix --symlink && \
-    jupyter nbextensions_configurator enable --sys-prefix
+# 2024-01-13 sknapp: incompatible due to notebook 7
+# RUN jupyter contrib nbextensions install --sys-prefix --symlink && \
+#     jupyter nbextensions_configurator enable --sys-prefix
 
 # Set CRAN mirror to rspm before we install anything
 COPY Rprofile.site /usr/lib/R/etc/Rprofile.site

diff --git a/deployments/biology/image/infra-requirements.txt b/deployments/biology/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/cee/image/infra-requirements.txt b/deployments/cee/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/data100/image/environment.yml b/deployments/data100/image/environment.yml
@@ -7,7 +7,7 @@ dependencies:
 - python==3.11.0
 - git==2.39.1
 - jupyter-resource-usage==1.0.0
-- jupyterlab==4.0.4
+- jupyterlab==4.0.10
 - jupyterlab-favorites==3.0.0
 - jupyterlab_server==2.23.0
 - jupyterlab_widgets==3.0.8
@@ -19,7 +19,6 @@ dependencies:
 - ipywidgets==8.0.7
 - jupysql==0.8.0
 - jupyter-archive==3.4.0
-- jupyterlab==4.0.4
 - matplotlib==3.7.1
 - mdit-py-plugins==0.4.0
 - numpy==1.24.2

diff --git a/deployments/data100/image/infra-requirements.txt b/deployments/data100/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/data101/image/environment.yml b/deployments/data101/image/environment.yml
@@ -31,10 +31,11 @@ dependencies:
 - ipympl==0.9.2
 - ipyparallel==8.4.1
 - jsonschema==4.17.3
+- jupyter-archive==3.4.0
 - jupyter-book==0.15.1
 - jupyter-resource-usage==1.0.0
 - jupyter_bokeh
-- jupyterlab==4.0.4
+- jupyterlab==4.0.10
 - jupyterlab-favorites==3.0.0
 - jupyterlab-geojson==3.2.0
 - jupyterlab-variableinspector==3.0.9

diff --git a/deployments/data101/image/infra-requirements.txt b/deployments/data101/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/data102/image/environment.yml b/deployments/data102/image/environment.yml
@@ -9,8 +9,9 @@ dependencies:
 - git==2.39.1
 - bambi==0.12.0
 - graphviz==8.0.3
+- jupyter-archive==3.4.0
 - jupyter-resource-usage==1.0.0
-- jupyterlab==4.0.4
+- jupyterlab==4.0.10
 - jupyterlab-favorites==3.0.0
 - jupyterlab_server==2.23.0
 - jupyterlab_widgets==3.0.8

diff --git a/deployments/data102/image/infra-requirements.txt b/deployments/data102/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/data8/image/environment.yml b/deployments/data8/image/environment.yml
@@ -12,6 +12,7 @@ dependencies:
 # data8
 - datascience==0.17.6
 - folium==0.15.1
+- jupyter-archive==3.4.0
 - jupyterlab==4.0.10
 - jupyter_server==2.7.0
 - matplotlib==3.4.3

diff --git a/deployments/data8/image/infra-requirements.txt b/deployments/data8/image/infra-requirements.txt
@@ -8,24 +8,25 @@
 # everwhere one by one.
 
 # FIXME: Freeze this to get exact versions of all dependencies
-notebook==6.4.12
-jupyterlab==3.4.5
-retrolab==0.3.21
-nbgitpuller==1.1.0
-jupyter-resource-usage==0.6.1
+notebook==7.0.6
+jupyterlab==4.0.10
+nbgitpuller==1.2.0
+jupyter-resource-usage==1.0.1
 # Matches version in images/hub/Dockerfile
 jupyterhub==4.0.2
 appmode==0.8.0
-ipywidgets==7.7.2
+ipywidgets==8.0.7
 jupyter-tree-download==1.0.1
 git-credential-helpers==0.2
 # Enough people like this, let's load it in.
-jupyter-contrib-nbextensions==0.5.1
-jupyter_nbextensions_configurator==0.4.1
+jupyter-contrib-nbextensions==0.7.0
+jupyter_nbextensions_configurator==0.6.3
 # Measure popularity of different packages in our hubs
 # https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
 git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
 # RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
 RISE==5.7.1
 # syncthing for dropbox-like functionality
 jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0
diff --git a/deployments/datahub/images/default/Dockerfile b/deployments/datahub/images/default/Dockerfile
@@ -136,12 +136,14 @@ COPY environment.yml /tmp/environment.yml
 
 RUN echo "/srv/conda/bin/mamba env update -p ${CONDA_DIR} -f /tmp/environment.yml" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
 RUN echo "/srv/conda/bin/mamba clean -afy" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
+RUN echo "/srv/conda/bin/pip install --no-cache -r /tmp/infra-requirements.txt" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
 
-RUN jupyter contrib nbextensions install --sys-prefix --symlink && \
-    jupyter nbextensions_configurator enable --sys-prefix
+# 2024-01-13 sknapp: incompatible due to notebook 7
+# RUN jupyter contrib nbextensions install --sys-prefix --symlink && \
+#     jupyter nbextensions_configurator enable --sys-prefix
 
 # Used by MCB32, but incompatible with ipywidgets 8.x
-RUN jupyter nbextension enable --py --sys-prefix qgrid
+# RUN jupyter nbextension enable --py --sys-prefix qgrid
 
 # install chromium browser for playwright
 # https://github.com/berkeley-dsep-infra/datahub/issues/5062
@@ -154,8 +156,9 @@ RUN playwright install chromium
 # Install IR kernelspec
 RUN echo "/usr/bin/r -e \"IRkernel::installspec(user = FALSE, prefix='${CONDA_DIR}')\"" | /usr/bin/time -f "User\t%U\nSys\t%S\nReal\t%E\nCPU\t%P" /usr/bin/bash
 
-COPY d8extension.bash /usr/local/sbin/d8extension.bash
-RUN /usr/local/sbin/d8extension.bash
+# 2024-01-13 sknapp: incompatible due to notebook 7
+# COPY d8extension.bash /usr/local/sbin/d8extension.bash
+# RUN /usr/local/sbin/d8extension.bash
 
 ENV NLTK_DATA ${CONDA_DIR}/nltk_data
 COPY connectors/text.bash /usr/local/sbin/connector-text.bash