update for base

Dockerfile

@@ -1,6 +1,6 @@
-FROM ubuntu:16.04
+FROM ubuntu:18.04
 LABEL maintainer="imperialgenomicsfacility"
-LABEL version="0.0.5"
+LABEL version="0.0.6"
 LABEL description="Base docker image for IGF notebooks"
 ENV NB_USER vmuser
 ENV NB_GROUP vmuser
@@ -55,13 +55,14 @@ RUN chown -R ${NB_UID} /home/$NB_USER && \
      rm -rf /tmp/*
 USER ${NB_USER}
 WORKDIR /home/$NB_USER
-ENV TMPDIR=/home/$NB_USER/.tmp
+ENV TMPDIR=/tmp
 RUN  mkdir -p ${TMPDIR} && \
      wget --quiet --no-check-certificate \
        -O /home/$NB_USER/Miniconda3-latest-Linux-x86_64.sh \
        https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh && \
      bash /home/$NB_USER/Miniconda3-latest-Linux-x86_64.sh -b
-ENV PATH $PATH:/home/$NB_USER/miniconda3/bin/
+ENV PATH=$PATH:/home/$NB_USER/miniconda3/bin/
+ENV MPLCONFIGDIR=/tmp
 RUN . /home/$NB_USER/miniconda3/etc/profile.d/conda.sh && \
     conda config --set safety_checks disabled && \
     conda update -n base -c defaults conda && \

environment.yml

@@ -2,20 +2,20 @@ channels:
   - conda-forge
   - default
 dependencies:
-  - conda-forge::cython=0.29.21
-  - conda-forge::r-base=4.0.3
+  - conda-forge::cython=0.29.23
+  - conda-forge::r-base=4.0.5
   - conda-forge::r-irkernel
   - conda-forge::python-graphviz=0.8.4
   - pip
   - pip:
     - jupyter==1.0.0
-    - jupyterlab==2.2.9
-    - matplotlib==3.3.3
-    - seaborn==0.11.0
-    - scikit-learn==0.23.2
-    - numpy==1.19.4
-    - pandas==1.1.4
-    - jupyter-server==1.2.2
-    - jupyter-server-proxy==1.5.0
-    - rpy2==3.3.6
-    - elyra<2.0.0
+    - jupyterlab==3.0.16
+    - matplotlib==3.4.2
+    - seaborn==0.11.1
+    - scikit-learn==0.24.2
+    - numpy==1.20.3
+    - pandas==1.2.4
+    - jupyter-server==1.7.0
+    - jupyter-server-proxy==3.0.2
+    - rpy2==3.4.4
+    - elyra==2.2.4