Table of Contents:
Data storage and project organization
Where is the data on the cluster?
On the platform, all datasets are typically stored and organized under a project with a particular name. This is a way to manage security and access rights for individual users. When connected to the cluster via ThinLinc or from a “DCC Machine”, the data of active projects is found at
The project folder has a large number of different projects, but a user will only have access to the projects that he/she is involved in.
|💡||Symbolic links: As the amount of projects grow, the main folder tends to become quite overwhelming for browsing and navigating. Consider using symbolic links to the folders that you typically access (see below).|
1. Project organization:
Each project is organized with the following structure:
The raw_data_3DIM folder should contain folders with the ‘raw’ data (reconstructed volumes and/or projection data or whatever type is relevant) that was obtained at the 3D Imaging Center.
NB: General project members have read and execute access (+rx) to this folder, to prevent accidental modifications of the ‘raw’ data.
The raw_data_extern folder will host datasets collected elsewhere, and can be managed by anyone in a particular project.
|❗||NB: All members of the project will as default have full access (+rwx) to this folder, so be mindful of what you do when accessing data in this folder!|
The analysis folder is where the data processing should take place. The folder can host project relevant software environments and functions, processed versions of the datasets, figures, reports and what-not.
2. Symbolic links to projects
The project naming might not always be very logical, and even hard to remember – in particular when not accessing a project regularly. In that case, it can be convenient to create symbolic links on the ThinLinc desktop.
- Open the File Manager
- Navigate to /dtu/3d-imaging-center/projects
- Right-click on desired project folder and choose “Send To Desktop (Create Link)“
- Launch a terminal on the ThinLinc desktop.
- e.g. right-click on the ThinLinc desktop background, and select “Open Terminal Here“.
- Create a folder named <FOLD_NAME> which links to a desired folder <FOLD_LINK> by calling
ln -s <FOLD_LINK> <FOLD_NAME>
ln -s /dtu/3d-imaging-center/ 3DIM