75 lines
2.4 KiB
Bash
75 lines
2.4 KiB
Bash
#!/bin/bash
|
|
set -eux
|
|
|
|
env
|
|
|
|
VNC_APPLICATION_DIR=$CONDA_DIR/vnc
|
|
mkdir $VNC_APPLICATION_DIR
|
|
pushd $VNC_APPLICATION_DIR
|
|
|
|
# Novnc: just want web files
|
|
curl -sSfL https://github.com/novnc/noVNC/archive/v1.1.0.tar.gz | tar -zxf -
|
|
|
|
# Patch novnc to use correct path to websockify (defaults to /)
|
|
# Note if you use vnc.html you will need to patch ui.js to use the correct path
|
|
# and also to override localstorage which may store an incorrect path from a
|
|
# different session
|
|
# Also resize server instead of scaling client
|
|
sed -i.bak \
|
|
-e "s%\('path', 'websockify'\)%'path', window.location.pathname.replace(/[^/]*$/, '').substring(1) + 'websockify'); console.log('websockify path:' + path%" \
|
|
-re "s%rfb.scaleViewport = .+%rfb.resizeSession = readQueryVariable('resize', true);%" \
|
|
noVNC-1.1.0/vnc_lite.html
|
|
|
|
# Install tigervnc
|
|
curl -sSfL 'https://bintray.com/tigervnc/stable/download_file?file_path=tigervnc-1.9.0.x86_64.tar.gz' | tar -zxf - --strip=2
|
|
|
|
|
|
cp $REPO_DIR/jupyter_desktop/share/xstartup .
|
|
chmod +x xstartup
|
|
|
|
|
|
# Desktop applications
|
|
# Fiji and OMERO insight
|
|
|
|
#OMERO_INSIGHT_VERSION=5.5.6
|
|
#OMERO_INSIGHT_URL_BASE=https://github.com/ome/omero-insight/releases/download/v$OMERO_INSIGHT_VERSION/
|
|
OMERO_INSIGHT_VERSION=5.5.7-SNAPSHOT
|
|
OMERO_INSIGHT_URL_BASE=https://users.openmicroscopy.org.uk/~spli/insight
|
|
|
|
wget -q https://downloads.imagej.net/fiji/latest/fiji-nojre.zip
|
|
unzip -q fiji-nojre.zip
|
|
rm fiji-nojre.zip
|
|
|
|
pushd Fiji.app/plugins
|
|
wget -q $OMERO_INSIGHT_URL_BASE/OMERO.imagej-$OMERO_INSIGHT_VERSION.zip
|
|
unzip -q OMERO.imagej-$OMERO_INSIGHT_VERSION.zip
|
|
rm OMERO.imagej-$OMERO_INSIGHT_VERSION.zip
|
|
popd
|
|
|
|
wget -q $OMERO_INSIGHT_URL_BASE/OMERO.insight-$OMERO_INSIGHT_VERSION.zip
|
|
unzip -q OMERO.insight-$OMERO_INSIGHT_VERSION.zip
|
|
rm OMERO.insight-$OMERO_INSIGHT_VERSION.zip
|
|
pushd OMERO.insight-$OMERO_INSIGHT_VERSION && \
|
|
wget -q https://www.openmicroscopy.org/img/logos/omero-logomark.svg
|
|
popd
|
|
|
|
ln -s OMERO.insight-$OMERO_INSIGHT_VERSION OMERO.insight
|
|
mkdir Desktop
|
|
cp $REPO_DIR/jupyter_desktop/share/*.desktop Desktop
|
|
chmod +x Desktop/*.desktop
|
|
|
|
popd
|
|
|
|
|
|
pushd $REPO_DIR/jupyter_desktop
|
|
|
|
# Configure jupyter-server-proxy VNC
|
|
# https://jupyter-server-proxy.readthedocs.io/en/latest/server-process.html#specifying-config-from-python-packages
|
|
pip install .
|
|
python -c "from pkg_resources import iter_entry_points; print(list(iter_entry_points(group='jupyter_serverproxy_servers')))"
|
|
|
|
popd
|
|
|
|
# Napari (dependencies already installed using conda)
|
|
pip install --no-dependencies napari==0.2.2
|