Add oasys installer

Dockerfile

@@ -25,7 +25,12 @@ RUN chown -R $NB_UID:$NB_GID $HOME
 
 ADD . /opt/install
 RUN fix-permissions /opt/install
-
+ADD ./install-oasys.sh /install-oasys.sh
+RUN chmod +x /install-oasys.sh && /install-oasys.sh && rm /install-oasys.sh
+ADD ./oasys/oasys.sh /usr/local/bin/oasys.sh
+ADD ./oasys/oasys.desktop /usr/share/applications/oasys.desktop
+ADD ./oasys/oasys-icon.xpm /usr/share/pixmaps/oasys-icon.xpm
+RUN chmod +x /usr/local/bin/*.sh
 USER $NB_USER
 RUN cd /opt/install && \
    conda env update -n base --file environment.yml

README.md

-# Jupyter Desktop Server
+# Jupyter Desktop with Oasys
+
 [![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/yuvipanda/jupyter-desktop-server/master?urlpath=desktop)
 
 Run XFCE (or other desktop environments) on a JupyterHub.
 
-This is based on https://github.com/ryanlovett/nbnovnc and a fork of https://github.com/manics/jupyter-omeroanalysis-desktop
+This is a fork based on this repo https://github.com/yuvipanda/jupyter-desktop-server.
 
 If a `vncserver` executable is found in `PATH` it will be used, otherwise a bundled TightVNC server is run.
 You can use this to install vncserver with support for other features, for example the [`Dockerfile`](./Dockerfile) in this repository installs TurboVNC for improved OpenGL support.
@@ -40,4 +41,4 @@ Executing the command: jupyter notebook
 *snip*
 ```
 
-Now head to the URL shown and you will be greated with a XFCE desktop.
\ No newline at end of file
+Now head to the URL shown and you will be greated with a XFCE desktop with Oasys too :)

install-oasys.sh

+#!/bin/bash
+# ver 0.3 
+# 31.01.2022
+# author Marco De Simone marco.desimone@ceric-eric.eu
+
+export DEBIAN_FRONTEND=noninteractive
+
+if [ -x $(which lsb_release) ] ; then
+  codename=`lsb_release -sc`
+else # default fallback to bionic
+  codename="bionic"
+fi
+apt-get update 
+apt-get install -y curl
+curl http://xmi-apt.tomschoonjans.eu/xmi.packages.key | sudo apt-key add -
+distributor=`lsb_release  -is| awk '{print tolower($0)}'`
+apt-get install -y fontconfig-config \
+		   fonts-dejavu-core \
+		   libasound2 \
+		   libasound2 \
+		   libegl1 \
+		   libegl1 \
+		   libevdev2 \
+		   libfontconfig1 \
+		   libfontenc1 \
+		   libfreetype6 \
+		   libgl1-mesa-glx \
+		   libinput-bin \
+		   libinput10 \
+		   libmtdev1 \
+		   libnss-sss \
+		   libpam-sss \
+		   libpng16-16 \
+		   libutempter0 \
+		   libwacom-bin \
+		   libwacom-common \
+		   libwacom2 \
+		   libxaw7 \
+		   libxcb-icccm4 \
+		   libxcb-image0 \
+		   libxcb-keysyms1 \
+		   libxcb-randr0 \
+		   libxcb-render-util0 \
+		   libxcb-shape0 \
+		   libxcb-util1 \
+		   libxcb-xinerama0 \
+		   libxcb-xkb1 \
+		   libxcomposite1 \
+		   libxcursor1 \
+		   libxcursor1 \
+		   libxft2 \
+		   libxi6 \
+		   libxinerama1 \
+		   libxkbcommon-x11-0 \
+		   libxmu6 \
+		   libxpm4 \
+		   libxrandr2 \
+		   libxss1 \
+		   libxt6 \
+		   libxtst6 \
+		   libxv1 \
+		   libxxf86dga1 \
+		   locales \
+		   locales-all \
+		   python-sip \
+		   sssd \
+		   strace \
+		   unzip \
+		   vim \
+		   wget \
+		   x11-utils \
+		   xbitmaps \
+		   xdg-utils \
+		   xkb-data \
+		   xterm \
+		   vim \
+		   gtk3-nocsd 
+
+
+### from prepare script
+# SCIPY
+apt-get -y install libblas-dev liblapack-dev libatlas-base-dev build-essential
+# MATPLOTLIB
+apt-get -y install libfreetype6 libfreetype6-dev
+apt-get install --reinstall libxcb-xinerama0
+# XRAYLIB
+apt-get -y install swig
+apt-get -y install htop
+source /opt/conda/bin/activate
+conda create --name oasys python=3.7
+conda activate oasys
+conda install -c conda-forge -y xraylib
+conda install -c anaconda -y numba six qt
+conda env list
+python -m pip install --no-cache-dir resources --upgrade
+python -m pip install --no-cache-dir numpy --upgrade
+python -m pip install --no-cache-dir scipy --upgrade
+python -m pip install --no-cache-dir matplotlib --upgrade
+python -m pip install oasys1
+
+cat > /tmp/reqs.txt <<EOF
+LibWiser
+WofryWiser
+OASYS1-ShadowOui
+OASYS1-SRW
+OASYS1-XOPPY
+OASYS1-Syned
+OASYS1-WOFRY
+OASYS1-ELETTRA-Extensions
+OASYS1-OasysWiser
+OASYS1-Panosc
+EOF
+
+# ho tolto
+#OASYS1-XRayServer
+# 21/09 - remove obsolete OASYS1-WISEr package
+#OASYS1-WISEr
+
+
+python -m pip install --no-cache-dir -r /tmp/reqs.txt
+
+#echo ". /etc/profile.d/oasysenv.sh" >> ~/.bashrc && \
+#echo ". /etc/profile.d/oasysenv.sh" >> /etc/bash.bashrc
+
+
+apt-get remove --purge -y g++-7 gcc-7 manpages manpages*dev build-essential\
+      && apt-get purge -y  lib*-dev \
+      && apt-get -y clean 
+
+find /opt/conda/ -follow -type f -name '*.a' -delete && \
+find /opt/conda/ -follow -type f -name '*.js.map' -delete && \
+find /opt/conda/ -follow -type f -name '*.pyc' -delete && \
+find /opt/conda/ -follow -type f -name '*.js.map' -delete &&\
+#find /opt/conda/lib/python*/site-packages/bokeh/server/static -follow -type f -name '*.js' ! -name '*.min.js' -delete
+
+
+rm -rf /root/.cache/pip
+

oasys/oasys.desktop

+[Desktop Entry]
+Version=1.0
+Type=Application
+Name=Oasys
+GenericName=Oasys
+Comment=Oasys - OrAnge SYnchrotron Suite
+Exec=/usr/local/bin/oasys.sh
+Icon=/usr/share/pixmaps/oasys-icon.xpm
+Terminal=false
+Categories=Education;Science;Physics;
+MimeType=text/python
+

oasys/oasys.sh

+#!/bin/bash
+export QT_X11_NO_MITSHM=1
+export QT_XCB_GL_INTEGRATION=xcb_egl
+source /opt/conda/bin/activate
+conda activate oasys
+python -m oasys.canvas -l4 --force-discovery