QC Benchmarker

Install instructions for a new dev environment

These instructions are to configure a new dev environment. To run the project you need to follow a few steps.

1. Install Docker
2. sudo docker pull chambm/pwiz-skyline-i-agree-to-the-vendor-licenses
3. sudo docker run -d -p 9999:9999 -p 7777:7777 -p 8787:8787 -v pwd/qc-benchmarker-data:/data/qc-benchmarker-data -v pwd/files:/data/files -it chambm/pwiz-skyline-i-agree-to-the-vendor-licenses bash
4. sudo docker ps # copy the container id
5. sudo docker exec -it CONTAINER_ID bash # After this you will be inside the container
6. apt update
7. apt install -y git
8. git clone https://github.com/IGARDS/qc-benchmarker
9. cd qc-benchmarker
10. ./install_dev.sh
11. ./install_app.sh
12. Start whatever you want :)

Install using a previous container

1. Install docker
2. sudo docker pull pauleanderson/qc-benchmarker
3. sudo docker run -d -p 9999:9999 -p 7777:7777 -p 8787:8787 -v pwd/qc-benchmarker-data:/data/qc-benchmarker-data -v pwd/files:/data/files -it pauleanderson/qc-benchmarker
4. Start whatever you want :)

Port notes

9999 is jupyter lab

7777 is the flask server

8787 is rstudio

People

Magnus

Ben

Paul