From d2603a134ed9e1922ad18db8fe747140ae8d8391 Mon Sep 17 00:00:00 2001 From: Alexander Peltzer Date: Mon, 11 Nov 2019 12:26:19 +0100 Subject: [PATCH] Add in denbi cloud configs --- conf/denbi_qbic.config | 26 ++++++++++++++++++++++++++ docs/denbi_qbic.md | 8 ++++++++ 2 files changed, 34 insertions(+) create mode 100644 conf/denbi_qbic.config create mode 100644 docs/denbi_qbic.md diff --git a/conf/denbi_qbic.config b/conf/denbi_qbic.config new file mode 100644 index 0000000..d5f1882 --- /dev/null +++ b/conf/denbi_qbic.config @@ -0,0 +1,26 @@ +//Profile config names for nf-core/configs +params { + config_profile_description = 'de.NBI cluster profile provided by nf-core/configs.' + config_profile_contact = 'Alexander Peltzer (@apeltzer)' + config_profile_url = 'https://cloud.denbi.de/' +} + +singularity { + enabled = true +} + +process { + executor = 'pbs' + queue = 'batch' +} + +params { + max_memory = 512.GB + max_cpus = 28 + max_time = 960.h +} + +weblog{ + enabled = true + url = 'https://services.qbic.uni-tuebingen.de/flowstore/workflows' +} diff --git a/docs/denbi_qbic.md b/docs/denbi_qbic.md new file mode 100644 index 0000000..220aac2 --- /dev/null +++ b/docs/denbi_qbic.md @@ -0,0 +1,8 @@ +# nf-core/configs: de.NBI QBIC Configuration + +All nf-core pipelines have been successfully configured for use on the de.NBI Cloud cluster. This is a virtual cluster that has been set up using the [virtual cluster setup scripts](https://github.com/MaximilianHanussek/virtual_cluster_local_ips). + +To use, run the pipeline with `-profile denbi_qbic`. This will download and launch the [`denbi_qbic.config`](../conf/denbi_qbic.config) which has been pre-configured with a setup suitable for the automatically created 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. + +>NB: You will need an account to use de.NBI Cluster in order to run the pipeline. If in doubt contact IT. +>NB: Nextflow will need to submit the jobs via the job scheduler to the cluster and as such the commands above will have to be executed on one of the login nodes. If in doubt contact IT.