Camicroscope Docker Distribution
Architecture
- Application => Viewer
- Data => Data
- Backend => Loader
Installation
Build images
docker build -t camicroscope_data data/docker build -t camicroscope_loaders loaders/docker build -t camicroscope_viewer viewer/
These builds take about an hour so feel free to grab a coffee.
Running the containers
Data
Set environment variables on host machine for Images and Data directories export CAMIC_IMAGES_DIR=<path to images directory> export CAMIC_DATA_DIR=<path to data directory>
Set Bindaas port $CAMIC_BINDAAS_PORT=9099
docker run -itd -p $CAMIC_BINDAAS_PORT:9099 -v $CAMIC_IMAGES_DIR:/data/images -v $CAMIC_DATA_DIR:/data/db camicroscope_data
Run docker inspect to find the IP address for Data container.
we'll use <CAMIC_DATA_IP> as a placeholder
Loaders
Setup environment variables:
$CAMIC_KUE_PORT=5000
$CAMIC_MARKUPLOADER_PORT=6000
$CAMIC_DATALOADER_PORT=6002
Run the container:
docker run -itd -p $CAMIC_KUE_PORT:3000 -p $CAMIC_MARKUPLOADER_PORT:3001 -p $CAMIC_DATALOADER_PORT:3002 -v $CAMIC_IMAGES_DIR:/data/images -e "dataloader_host=http://<CAMIC_DATA_IP>:9099" -e "annotations_host=http://<CAMIC_DATA_IP>:9099" camicroscope_loaders
Note that -p $CAMIC_KUE_PORT:3000 -p $CAMIC_MARKUPLOADER_PORT:3001 -p $CAMIC_DATALOADER_PORT:3002 is optional
Viewer
Setup environment variables:
$CAMIC_VIEWER_PORT=1337
<HTML_DIRECTORY> is /viewer/html. Provide the absolute path
Run:
docker run -itd -p $CAMIC_VIEWER_PORT:80 -v <HTML_DIRECTORY>/html:/var/www/html -v $CAMIC_IMAGES_DIR:/data/images camicroscope_viewer
You should now be able to load the images and see them http://localhost:$CAMIC_VIEWER_PORT/camicroscope2/osdCamicroscope.php?tissueId=<Case_ID>
