All nf-core pipelines have been successfully configured for use on UCL's myriad cluster [University College London](https://www.rc.ucl.ac.uk/docs/Clusters/Myriad/).
To use, run the pipeline with `-profile ucl_myriad`. This will download and launch the [`ucl_myriad.config`](../conf/ucl_myriad.config) which has been pre-configured with a setup suitable for the myriad cluster. Using this profile, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.
## Using Nextflow on Myriad
Before running the pipeline you will need to install and configure Nextflow and Singularity.
### Singularity
This can be done with the following commands:
```bash
## Load Singularity environment modules - these commands can be placed in your ~/.bashrc also
module add java/openjdk-11/11.0.1
module add singularity-env/1.0.0
```
Then set the correct configuration of the cache directories, where <YOUR_ID> is replaced with you credentials which you can find by entering `whoami` into the terminal once you are logged into myriad. Once you have added your credentials save these lines into your .bashrc file in the base directory (e.g. /home/<YOUR_ID>/.bashrc):
Download the latest release of nextflow. Warning: the self-update line should update to the latest version, but sometimes not, so please check which is the latest release (https://github.com/nextflow-io/nextflow/releases), you can then manually set this by entering (`NXF_VER=XX.XX.X`).
```bash
## Download Nextflow-all
curl -s https://get.nextflow.io | bash
NXF_VER=22.10.0
nextflow -self-update
chmod a+x nextflow
mv nextflow ~/bin/nextflow
```
Then make sure that your bin PATH is executable, by placing the following line in your .bashrc:
