From 2fd475c3398305e3377cc2e8af18cc5cb2c68180 Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Thu, 21 Jan 2021 06:30:43 +0100 Subject: [PATCH] Fix some linting errors --- docs/ceh.md | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/docs/ceh.md b/docs/ceh.md index fff2921..11fe720 100644 --- a/docs/ceh.md +++ b/docs/ceh.md @@ -1,6 +1,8 @@ # nf-core/configs: Center for Evolutionary Hologenomics & Section for Evolutionary Genomics (hologenomics partition on HPC) Configuration -The profile is configured to run with Singularity version 3.6.3-1.el7 which is part of the OS installtion and does not need to be loaded as a module. +> **NB:** You will need an account to use the HPC cluster to run the pipeline. If in doubt contact IT. + +The profile is configured to run with Singularity version 3.6.3-1.el7 which is part of the OS installtion and does not need to be loaded as a module. Before running the pipeline you will need to load Java, Miniconda and Nextflow. You can do this by including the commands below in your SLURM/sbatch script: @@ -16,6 +18,4 @@ The config contains a `cleanup` command that removes the `work/` directory autom This configuration will automatically choose the correct SLURM queue (short,medium,long) depending on the time and memory required by each process. ->NB: You will need an account to use the HPC cluster to run the pipeline. If in doubt contact IT. - ->NB: Nextflow will need to submit the jobs via SLURM to the HPC cluster and as such the commands above will have to be submitted from one of the login nodes. +> **NB:** Nextflow will need to submit the jobs via SLURM to the HPC cluster and as such the commands above will have to be submitted from one of the login nodes.