Merge branch 'main' of https://github.com/bioinfodlsu/metagenomics-wo…

…rkshop

README.md

@@ -32,9 +32,9 @@ This guide outlines the steps to **pull** a Docker image, mount necessary direct
 Note: Make sure you are running Docker Desktop or started your docker engine before performing any of the commands below.
 ### Step 1: Pull the Docker Image
 
-First, you need to pull the Docker image from the registry (e.g., Docker Hub). Use the following command to pull the `daphnejanelyn123/metagenomics-workshop` image:
+First, you need to pull the Docker image from the registry (e.g., Docker Hub). Use the following command to pull the image:
 
-docker pull daphnejanelyn123/metagenomics-workshop
+`docker pull ghcr.io/bioinfodlsu/metagenomics-workshop/deploy:latest`
 
 This command fetches the image and prepares it for running in a container.
 
@@ -43,16 +43,16 @@ This command fetches the image and prepares it for running in a container.
 You’ll want to mount your local directories to the Docker container to ensure that your notebooks, data, and results are accessible inside the container.
 
 Here’s a breakdown of the directories being mounted:
-- **Data**: Your local path `path_to_your_data_directory (e.g., C:/Users/Daphne Go/.docker/bioinformatics/data)` containing the data will be mounted to  `/home/jovyan/data` in the container. The data should be downloaded from the data folder located in this Drive Link (https://drive.google.com/drive/folders/1pfcwepIvSYmJ_wBp668jbVYR8nekrSF3?usp=sharing). Ensure that the required data files are placed in this directory before running the container.
-- **Notebooks**: Your local path `path_to_your_notebooks_directory (e.g., C:/Users/Daphne Go/.docker/bioinformatics/notebooks)` will be mounted to `/home/jovyan/notebooks` in the container. The notebooks should be downloaded from the **notebooks folder in the Github repository provided**. Place your Jupyter notebooks into this local directory before running the container.
+- **Data**: Your local path `path_to_your_data_directory` containing the data will be mounted to  `/home/jovyan/data` in the container. The data should be downloaded from the data folder located in this Drive Link (https://drive.google.com/drive/folders/1pfcwepIvSYmJ_wBp668jbVYR8nekrSF3?usp=sharing). Ensure that the required data files are placed in this directory before running the container.
+- **Notebooks**: Your local path `path_to_your_notebooks_directory` will be mounted to `/home/jovyan/notebooks` in the container. The notebooks should be downloaded from the **notebooks folder in the Github repository provided**. Place your Jupyter notebooks into this local directory before running the container.
 
 Make sure your data and notebooks are placed in your specified local directories before running the container.
 
 ### Step 3: Run the Docker Container
 
 Once the image is pulled and your directories are set up, run the Docker container with the following command:
 ```
-docker run -u root -e NB_USER="root" -e NB_UID=0 -e NB_GID=0 -e NOTEBOOK_ARGS="--allow-root" -p 8888:8888 -v "path_to_your_data_directory:/home/jovyan/data" -v "path_to_your_notebooks_directory:/home/jovyan/notebooks" daphnejanelyn123/metagenomics-workshop: metagenomics-workshop
+docker run -u root -e NB_USER="root" -e NB_UID=0 -e NB_GID=0 -e NOTEBOOK_ARGS="--allow-root" -p 8888:8888 -v "path_to_your_data_directory:/home/jovyan/data" -v "path_to_your_notebooks_directory:/home/jovyan/notebooks" ghcr.io/bioinfodlsu/metagenomics-workshop/deploy:latest
 ```
 
 Note: Please remember to replace the paths with your corresponding data and notebook directories.