Upgrade to JupyterLab 3.0

deployments/utoronto/image/Dockerfile

@@ -163,26 +163,25 @@ RUN sed -i -e '/^R_LIBS_USER=/s/^/#/' /etc/R/Renviron && \
 
 USER ${NB_USER}
 
-COPY environment.yml /tmp/
-
-RUN conda env update -p ${CONDA_DIR} -f /tmp/environment.yml
-
-COPY install-jupyter-extensions.bash /tmp/install-jupyter-extensions.bash
-RUN /tmp/install-jupyter-extensions.bash
-
 # Set CRAN mirror to rspm before we install anything
 COPY Rprofile.site /usr/lib/R/etc/Rprofile.site
 # RStudio needs its own config
 COPY rsession.conf /etc/rstudio/rsession.conf
 
-# Install IRKernel
-RUN r -e "install.packages('IRkernel', version='1.1.1')" && \
-    r -e "IRkernel::installspec(prefix='${CONDA_DIR}')"
-
 # Install R packages, cleanup temp package download location
 COPY install.R /tmp/install.R
 RUN /tmp/install.R && \
  	rm -rf /tmp/downloaded_packages/ /tmp/*.rds
 
+COPY requirements.txt /tmp/
+RUN python3 -m pip install -r /tmp/requirements.txt
+
+COPY install-jupyter-extensions.bash /tmp/install-jupyter-extensions.bash
+RUN /tmp/install-jupyter-extensions.bash
+
+# Install IRKernel
+RUN r -e "install.packages('IRkernel', version='1.1.1')" && \
+    r -e "IRkernel::installspec(prefix='${CONDA_DIR}')"
+
 # Disable history.
 ADD ipython_config.py ${CONDA_PREFIX}/etc/ipython/

deployments/utoronto/image/install-jupyter-extensions.bash

@@ -1,13 +1,6 @@
 #!/bin/bash
 set -euo pipefail
 
-jupyter labextension install --debug \
-    @jupyter-widgets/jupyterlab-manager@2 \
-    @jupyterlab/[email protected] \
-    [email protected] \
-    [email protected] \
-    [email protected]
-
 # Install jupyter-contrib-nbextensions
 jupyter contrib nbextension install --sys-prefix
 

deployments/utoronto/image/requirements.txt

@@ -0,0 +1,55 @@
+# for jupyter-desktop-server
+websockify
+
+numpy
+scipy
+matplotlib
+pandas
+seaborn
+sympy
+networkx
+scikit-learn
+beautifulsoup4
+statsmodels
+nltk
+spacy
+geopandas
+# From https://github.com/utoronto-2i2c/jupyterhub-deploy/issues/29
+astroquery
+astropy
+galpy
+
+# Infrastructure things
+jupyterlab==3.*
+voila==0.2.10
+nbgitpuller==0.10.*
+jupyter-resource-usage==0.5.1
+RISE==5.6.1
+jupyter_contrib_nbextensions==0.5.1
+jupyter-desktop-server==0.1.3
+git-credential-helpers==0.2
+notebook==6.1.6
+jupyterhub==1.3.0
+jupyter-rsession-proxy==1.2
+jupyter-shiny-proxy==1.1
+jupyter-tree-download==1.0.1
+ipywidgets==7.6.2
+traitlets>=5.0
+nbformat>=5.0
+# This is temporary (ref: https://github.com/utoronto-2i2c/jupyterhub-deploy/issues/77)
+jedi==0.17.2
+
+datascience
+geojson
+folium
+geopy
+
+# nbextensions
+jupyterthemes==0.20.0
+qgrid==1.3.1
+
+# JupyterLab extensions
+jupyterlab_widgets==1.0.*
+jupyter-server-proxy==3.0.2
+jupytext==1.10.*
+ipympl==0.7.0