Big upgrade

- Bump root container version
- Bump  packages of
  - scipy-notebook
  - r-notebook
  - datascience-notebook
- add -y flag to jupyter lab commands in scipy-notebook
- Fix a bug in check outdated packages when packages installed through pip

datascience-notebook/Dockerfile

@@ -45,11 +45,11 @@ USER $NB_UID
 
 # R packages including IRKernel which gets installed globally.
 RUN conda install --quiet --yes \
-    'r-base=3.6.2' \
+    'r-base=3.6.3' \
     'r-caret=6.0*' \
     'r-crayon=1.3*' \
     'r-devtools=2.2*' \
-    'r-forecast=8.10*' \
+    'r-forecast=8.11*' \
     'r-hexbin=1.28*' \
     'r-htmltools=0.4*' \
     'r-htmlwidgets=1.5*' \
@@ -60,8 +60,8 @@ RUN conda install --quiet --yes \
     'r-rcurl=1.98*' \
     'r-reshape2=1.4*' \
     'r-rmarkdown=2.1*' \
-    'r-rsqlite=2.1*' \
-    'r-shiny=1.3*' \
+    'r-rsqlite=2.2*' \
+    'r-shiny=1.4*' \
     'r-tidyverse=1.3*' \
     'rpy2=3.1*' \
     && \