Merge pull request #1194 from romainx/update_2020-12-01

Regular update + improvements

Author: parente

Makefile

@@ -25,7 +25,7 @@ ALL_IMAGES:=$(ALL_STACKS)
 
 # Dockerfile Linter
 HADOLINT="${HOME}/hadolint"
-HADOLINT_VERSION="v1.18.2"
+HADOLINT_VERSION="v1.19.0"
 
 help:
 # http://marmelab.com/blog/2016/02/29/auto-documented-makefile.html

all-spark-notebook/Dockerfile

@@ -27,7 +27,7 @@ RUN conda install --quiet --yes \
     'r-ggplot2=3.3*' \
     'r-irkernel=1.1*' \
     'r-rcurl=1.98*' \
-    'r-sparklyr=1.4*' \
+    'r-sparklyr=1.5*' \
     && \
     conda clean --all -f -y && \
     fix-permissions "${CONDA_DIR}" && \

base-notebook/Dockerfile

@@ -4,7 +4,7 @@
 # Ubuntu 20.04 (focal)
 # https://hub.docker.com/_/ubuntu/?tab=tags&name=focal
 # OS/ARCH: linux/amd64
-ARG ROOT_CONTAINER=ubuntu:focal-20201008@sha256:1d7b639619bdca2d008eca2d5293e3c43ff84cbee597ff76de3b7a7de3e84956
+ARG ROOT_CONTAINER=ubuntu:focal-20201106@sha256:4e4bc990609ed865e07afc8427c30ffdddca5153fd4e82c20d8f0783a291e241
 
 ARG BASE_CONTAINER=$ROOT_CONTAINER
 FROM $BASE_CONTAINER
@@ -24,9 +24,9 @@ USER root
 # (ARGS are in lower case to distinguish them from ENV)
 # Check https://github.com/conda-forge/miniforge/releases
 # Conda version
-ARG conda_version="4.9.0"
+ARG conda_version="4.9.2"
 # Miniforge installer patch version
-ARG miniforge_patch_number="4"
+ARG miniforge_patch_number="0"
 # Miniforge installer architecture
 ARG miniforge_arch="x86_64"
 # Python implementation to use 
@@ -38,15 +38,14 @@ ARG miniforge_version="${conda_version}-${miniforge_patch_number}"
 # Miniforge installer
 ARG miniforge_installer="${miniforge_python}-${miniforge_version}-Linux-${miniforge_arch}.sh"
 # Miniforge checksum
-ARG miniforge_checksum="dae28a05f0fcfed0b47c66468e8434ab42cb1ff90de96540a506949cdecd2b5a"
+ARG miniforge_checksum="6321775eb2c02d7f51d3a9004ce0be839099f126f4099c781531428536669560"
 
 # Install all OS dependencies for notebook server that starts but lacks all
 # features (e.g., download as all possible file formats)
 ENV DEBIAN_FRONTEND noninteractive
 RUN apt-get update \
  && apt-get install -yq --no-install-recommends \
     wget \
-    bzip2 \
     ca-certificates \
     sudo \
     locales \
@@ -68,7 +67,8 @@ ENV CONDA_DIR=/opt/conda \
     LANGUAGE=en_US.UTF-8
 ENV PATH=$CONDA_DIR/bin:$PATH \
     HOME=/home/$NB_USER \
-    CONDA_VERSION="${conda_version}"
+    CONDA_VERSION="${conda_version}" \
+    MINIFORGE_VERSION="${miniforge_version}"
 
 # Copy a script that we will use to correct permissions after running certain commands
 COPY fix-permissions /usr/local/bin/fix-permissions
@@ -102,6 +102,7 @@ RUN mkdir "/home/$NB_USER/work" && \
 # Install conda as jovyan and check the sha256 sum provided on the download site
 WORKDIR /tmp
 
+# Prerequisites installation: conda, pip, tini
 RUN wget --quiet "https://github.com/conda-forge/miniforge/releases/download/${miniforge_version}/${miniforge_installer}" && \
     echo "${miniforge_checksum} *${miniforge_installer}" | sha256sum --check && \
     /bin/bash "${miniforge_installer}" -f -b -p $CONDA_DIR && \
@@ -112,18 +113,14 @@ RUN wget --quiet "https://github.com/conda-forge/miniforge/releases/download/${m
     conda config --system --set show_channel_urls true && \
     if [ ! $PYTHON_VERSION = 'default' ]; then conda install --yes python=$PYTHON_VERSION; fi && \
     conda list python | grep '^python ' | tr -s ' ' | cut -d '.' -f 1,2 | sed 's/$/.*/' >> $CONDA_DIR/conda-meta/pinned && \
-    conda install --quiet --yes "conda=${CONDA_VERSION}" && \
-    conda install --quiet --yes pip && \
+    conda install --quiet --yes \
+    "conda=${CONDA_VERSION}" \
+    'pip' \
+    'tini=0.18.0' && \
     conda update --all --quiet --yes && \
-    conda clean --all -f -y && \
-    rm -rf /home/$NB_USER/.cache/yarn && \
-    fix-permissions $CONDA_DIR && \
-    fix-permissions /home/$NB_USER
-
-# Install Tini
-RUN conda install --quiet --yes 'tini=0.18.0' && \
     conda list tini | grep tini | tr -s ' ' | cut -d ' ' -f 1,2 >> $CONDA_DIR/conda-meta/pinned && \
     conda clean --all -f -y && \
+    rm -rf /home/$NB_USER/.cache/yarn && \
     fix-permissions $CONDA_DIR && \
     fix-permissions /home/$NB_USER
 
@@ -134,8 +131,8 @@ RUN conda install --quiet --yes 'tini=0.18.0' && \
 # Do all this in a single RUN command to avoid duplicating all of the
 # files across image layers when the permissions change
 RUN conda install --quiet --yes \
-    'notebook=6.1.4' \
-    'jupyterhub=1.2.1' \
+    'notebook=6.1.5' \
+    'jupyterhub=1.2.2' \
     'jupyterlab=2.2.9' && \
     conda clean --all -f -y && \
     npm cache clean --force && \

datascience-notebook/Dockerfile

@@ -18,9 +18,9 @@ USER root
 # Default values can be overridden at build time
 # (ARGS are in lower case to distinguish them from ENV)
 # Check https://julialang.org/downloads/
-ARG julia_version="1.5.2"
+ARG julia_version="1.5.3"
 # SHA256 checksum
-ARG julia_checksum="6da704fadcefa39725503e4c7a9cfa1a570ba8a647c4bd8de69a118f43584630"
+ARG julia_checksum="f190c938dd6fed97021953240523c9db448ec0a6760b574afd4e9924ab5615f1"
 
 # R pre-requisites
 RUN apt-get update && \

scipy-notebook/Dockerfile

@@ -24,7 +24,7 @@ RUN conda install --quiet --yes \
     'cython=0.29.*' \
     'dask=2.30.*' \
     'dill=0.3.*' \
-    'h5py=2.10.*' \
+    'h5py=3.1.*' \
     'ipywidgets=7.5.*' \
     'ipympl=0.5.*'\
     'matplotlib-base=3.3.*' \
@@ -40,7 +40,7 @@ RUN conda install --quiet --yes \
     'seaborn=0.11.*' \
     'sqlalchemy=1.3.*' \
     'statsmodels=0.12.*' \
-    'sympy=1.6.*' \
+    'sympy=1.7.*' \
     'vincent=0.4.*' \
     'widgetsnbextension=3.5.*'\
     'xlrd=1.2.*' \