cytometry-experiments
Shiny app for RGLab tools
Docker
# Build container
cd $REPO/docker
docker build -t cytoui .
# Run this and then run the shinyCyto server using shinyCyto/R/start.R (at localhost:8787)
export DATA_DIR=$HOME/data/research/hammer
export ANALYSIS_REPO_DIR=$HOME/repos/cytometry-experiments
export BOOK_REPO_DIR=$HOME/repos/hammer/learning-about-t-cells-through-data
export UI_REPO_DIR=$HOME/repos/hammer/rglab/forks/shinyCyto
export PASSWORD=cytoui
docker run --rm -p 8787:8787 -p 3838:3838 \
-e USERID=$UID -e USER=$USER -e PASSWORD=$PASSWORD \
-v $UI_REPO_DIR:/home/$USER/shinyCyto \
-v $ANALYSIS_REPO_DIR:/home/$USER/analysis \
-v $BOOK_REPO_DIR:/home/$USER/book \
-v $DATA_DIR:/lab/data \
cytoui
export DATA_DIR=/Volumes/disk1
export ANALYSIS_REPO_DIR=$HOME/repos/hammer/cell-image-analysis
export CYTOKIT_REPO_DIR=$HOME/repos/hammer/cytokit
export PASSWORD=cytoui
docker run --rm -p 8787:8787 -p 3838:3838 \
-e USERID=$UID -e USER=$USER -e PASSWORD=$PASSWORD \
-v $ANALYSIS_REPO_DIR:/home/$USER/cell-image-analysis \
-v $CYTOKIT_REPO_DIR:/home/$USER/cytokit \
-v $DATA_DIR:/lab/data \
cytoui