Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Dfp docker readme #546

Merged
merged 2 commits into from
Jan 26, 2024
Merged

Dfp docker readme #546

Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
5fd7acd
INFO: Update README for docker
daniellepace Nov 28, 2023
731fe9f
Update DOCKER.md
daniellepace Nov 28, 2023
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
24 changes: 24 additions & 0 deletions docker/DOCKER.md
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,24 @@
# ML4H Docker

## Editing and pushing the docker

To edit the packages inside the ML4H docker container, first edit:
```
ml4h/ml4h/docker/vm_boot_images/config/tensorflow-requirements.txt
```
Add a line for each package, with optional version numbers.

Then, the docker container should be pushed to both the [Google Container Registry](https://console.cloud.google.com/gcr/images/broad-ml4cvd/GLOBAL/deeplearning) and the [Github GHCR Repository](https://github.com/broadinstitute/ml4h/pkgs/container/ml4h).

For GHCR, you will to generate a [personal access token](https://github.com/settings/tokens) on github, and grant docker access:
```
docker login ghcr.io -u GITHUB_USERNAME -p ghp_xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
```

Finally, use the ```jupyter.sh``` script to build, tag and push an ML4H image. Use ```-c``` for the CPU-only image:
```
cd ml4h
./docker/vm_boot_images/build.sh -P
./docker/vm_boot_images/build.sh -c -P
```
Note that each image will have two tags: a short unique SHA1 tag from ```HEAD```, and either ```tf2.9-latest-gpu``` or ```tf2.9-latest-cpu```.
Loading