NMFS Open Science Docker Stack
THE DOCKER STACK IS IN ACTIVE DESIGN and DEVELOPMENT
Beta release targeted for June 1, 2024.
These are a collection of container images to provide standardized environments for Python and R computing build off the Rocker, Pangeo and Jupyter base images. This repo holds the (mostly) stable docker stack for specific pipelines used in Fisheries. Our development and testing sandbox is here: nmfs-opensci/container-images which is our sandbox and development location. Why use a container? Watch this video from Yuvi Panda (Jupyter Project) video and read about the Rocker Project in the R Project Journal article by Carl Boettiger and Dirk Eddelbuettel.
Stable set of images
There are many other images in the images folder that are experimental in nature.
| Image | Description | Size | Link | Dockerfile |
|---|---|---|---|---|
| nmfs-opensci-python-base | Geospatial Python based on NASA Openscapes image | nmfs-opensci-python-base | Dockerfile | |
| py-rocket-base | Tidyverse based R image with Python | py-rocket-base | Dockerfile | |
| py-rocket-geospatial | Geospatial R and Python image | py-rocket-geospatial | Dockerfile | |
| arcgis | For using ArcGIS within Jupyter Lab | arcgis | Dockerfile | |
| coastwatch | CoastWatch Python + R | coastwatch | Dockerfile | |
| cmip6-cookbook | Tooling for working with CMIP6 climate simulations | cmip6-cookbook | Dockerfile | |
| echopype | Tooling for ocean sonar (acoustics) data processing | echopype | Dockerfile | |
| VAST | VAST with R 4.3.3 | vast | Dockerfile | |
| aomlomics-jh | NOAA AOML omics image for amplicon sequence processing workflow (adapted for JupyterHub deployment) | aomlomics-jh | Dockerfile |
Click on the image name in the table above for a current list of installed packages and versions