diff --git a/README.md b/README.md index edab0b5..675a95e 100644 --- a/README.md +++ b/README.md @@ -85,6 +85,7 @@ Currently documentation is available for the following clusters: * [BINAC](docs/binac.md) * [BIGPURPLE](docs/bigpurple.md) * [CCGA](docs/ccga.md) +* [CCGA_DX](/docs/ccga_dx.md) * [CFC](docs/binac.md) * [CRICK](docs/crick.md) * [GIS](docs/gis.md) diff --git a/conf/ccga_dx.config b/conf/ccga_dx.config new file mode 100644 index 0000000..0af95e7 --- /dev/null +++ b/conf/ccga_dx.config @@ -0,0 +1,37 @@ +//Profile config names for nf-core/configs +params { + config_profile_description = 'CCGA DX cluster profile provided by nf-core/configs.' + config_profile_contact = 'Marc Hoeppner (@marchoeppner)' + config_profile_url = 'https://www.ccga.uni-kiel.de/' +} + +/* + * ------------------------------------------------- + * Nextflow config file for CCGA cluster in Kiel + * ------------------------------------------------- + */ + +singularity { + enabled = true +} + +executor { + queueSize=100 +} + +process { + + // Global process config + executor = 'slurm' + queue = 'htc' + +} + +params { + // illumina iGenomes reference file paths on DX Cluster + igenomes_base = '/mnt/ld_ng_out/sukmb352/references/iGenomes/references/' + saveReference = true + max_memory = 250.GB + max_cpus = 20 + max_time = 240.h +} diff --git a/docs/ccga_dx.md b/docs/ccga_dx.md new file mode 100644 index 0000000..0cea81e --- /dev/null +++ b/docs/ccga_dx.md @@ -0,0 +1,9 @@ +# nf-core/configs: CCGA DX Configuration + +Deployment and testing of nf-core pipelines at the CCGA DX cluster is on-going. + +To use, run the pipeline with `-profile ccga_dx`. This will download and launch the [`ccga_dx.config`](../conf/ccga_dx.config) which has been pre-configured with a setup suitable for the CCGA 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. + +Before running the pipeline you will need to have Nextflow installed. + +>NB: Access to the CCGA DX cluster is restricted to IKMB/CCGA employes. Please talk to Marc Hoeppner to get access (@marchoeppner). diff --git a/nfcore_custom.config b/nfcore_custom.config index a9c0729..5dd8ee2 100644 --- a/nfcore_custom.config +++ b/nfcore_custom.config @@ -14,6 +14,7 @@ params.custom_config_base = "https://raw.githubusercontent.com/nf-core/configs/$ profiles { binac { includeConfig "${params.custom_config_base}/conf/binac.config" } ccga { includeConfig "${params.custom_config_base}/conf/ccga.config" } + ccga_dx { includeConfig "${params.custom_config_base}/conf/ccga_dx.config" } cfc { includeConfig "${params.custom_config_base}/conf/cfc.config" } crick { includeConfig "${params.custom_config_base}/conf/crick.config" } czbiohub_aws { includeConfig "${params.custom_config_base}/conf/czbiohub_aws.config" }