important refactoring.

Dockerfile

 FROM jupyter/scipy-notebook:2021-10-20
 
 USER root
+
 RUN apt-get update --yes && apt-get install --yes --no-install-recommends \
 	bash \
 	curl \
@@ -70,33 +71,27 @@ COPY code-server/icons $HOME/.jupyter/icons
 RUN [[ ! -f /home/jovyan/.jupyter/jupyter_config.py ]] && touch /home/jovyan/.jupyter/jupyter_config.py ; \
 	cat /tmp/jupyter_codeserver_config.py >> /home/jovyan/.jupyter/jupyter_config.py 
 
-RUN echo 'for dir in /home/jovyan/work/.ssh; do \n' \
-        'if [ ! -f $dir ]; then \n' \
-                'echo "Creating $dir"\n' \
-                'mkdir -p $dir\n' \
-                'chmod 700 $dir\n' \
-        'fi\n' \
-'done'>> /etc/skel/.bashrc && \
-touch /home/jovyan/work/.gitconfig
+# INSTALL NB GRADER FIXE NEEDED
+#COPY nbgrader_config.py /tmp/nbgrader_config.py
+#RUN python3 -m pip install git+https://github.com/jupyter/nbgrader.git@5a81fd5 && \
+#	jupyter nbextension install --symlink --sys-prefix --py nbgrader && \
+#	jupyter nbextension enable --sys-prefix --py nbgrader && \
+#	jupyter serverextension enable --sys-prefix --py nbgrader && \
+#	python3 -m pip install ngshare_exchange && \
+ #       cat  /tmp/nbgrader_config.py >> /etc/jupyter/nbgrader_config.py && \
+#	echo -e "\e[93m**** Clean up ****\e[38;5;241m" && \
+ #       	npm cache clean --force && \
+#			mamba clean --all -f -y && \
+#	        jupyter lab clean && \
+#			rm -rf "/home/${NB_USER}/.cache/yarn" && \
+#		    fix-permissions "$CONDA_DIR" && \
+#	    	fix-permissions "/home/$NB_USER"
 
-COPY nbgrader_config.py /tmp/nbgrader_config.py
-RUN python3 -m pip install git+https://github.com/jupyter/nbgrader.git@5a81fd5 && \
-	jupyter nbextension install --symlink --sys-prefix --py nbgrader && \
-	jupyter nbextension enable --sys-prefix --py nbgrader && \
-	jupyter serverextension enable --sys-prefix --py nbgrader && \
-	python3 -m pip install ngshare_exchange && \
-        cat  /tmp/nbgrader_config.py >> /etc/jupyter/nbgrader_config.py && \
-	echo -e "\e[93m**** Clean up ****\e[38;5;241m" && \
-        	npm cache clean --force && \
-			mamba clean --all -f -y && \
-	        jupyter lab clean && \
-			rm -rf "/home/${NB_USER}/.cache/yarn" && \
-		    fix-permissions "$CONDA_DIR" && \
-	    	fix-permissions "/home/$NB_USER"
-USER $NB_USER
+#Adds git and ssh sub directories in works
+COPY create_work_subdirs.sh /usr/local/bin/before-notebook.d/
+ENV NEEDED_WORK_DIRS .ssh
+ENV NEEDED_WORK_FILES .gitconfig
 
-RUN echo -e "\e[93m***** Moves user environment to work subdirectory ****\e[38;5;241m" && \
-	ln -s work/.gitconfig .gitconfig && \
-	mkdir work/.ssh && ln -s work/.ssh .ssh
+USER $NB_USER
 
 WORKDIR "${HOME}/work"

create_work_subdirs.sh

+#!/bin/bash
+for subdir in $NEEDED_WORK_DIRS; do
+		dir=/home/jovyan/work/$subdir
+		ln -s $dir /home/jovyan/$subdir
+        if [ ! -f $dir ]; then
+        	echo Creating $dir
+        	mkdir -p $dir
+        	chmod 700  $dir
+        fi
+done
+
+for subfile in $NEEDED_WORK_FILES; do
+		file=/home/jovyan/work/$subfile
+		ln -s $file /home/jovyan/$subfile
+        if [ ! -f $file ]; then
+        	echo Creating $file
+        	touch $file
+        	chmod 700  $dir
+        fi
+done
\ No newline at end of file

run.sh

 #!/usr/bin/env bash
 
+WORKDIR=$HOME/JUPYTER_WORK_DIR
+
 DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" >/dev/null 2>&1 && pwd )"
 . ${DIR}/env.sh
 
 docker run --rm \
 	--name ${PWD##*/} \
-	--volume $PWD/work:/home/jovyan/work \
+	--volume $WORKDIR:/home/jovyan/work \
         --publish 8888:8888 \
         --env NB_UID=$UID \
 	--env JUPYTER_ENABLE_LAB=yes \