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Added SHH specific EAGER configuration

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jfy133 2019-12-05 17:01:10 +01:00
parent 0a3821ce78
commit 731372dac2
3 changed files with 47 additions and 0 deletions

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// Profile config names for nf-core/configs
params {
// Specific nf-core/configs params
config_profile_contact = 'James Fellows Yates (@jfy133)'
config_profile_description = 'nf-core/eager SHH profile provided by nf-core/configs'
}
// Specific nf-core/eager process configuration
process {
withName: malt {
memory = { check_max( 756.GB * task.attempt, 'memory' ) }
cpus = { check_max(64 * task.attempt, 'cpus') }
time = 1440.h
queue = { task.memory > 756.GB ? 'supercruncher': 'long' }
}
}

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# nf-core/configs: shh eager specific configuration
Extra specific configuration for eager pipeline
## Usage
To use, run the pipeline with `-profile shh`.
This will download and launch the eager specific [`shh.config`](../conf/pipeline/eager/shh.config) which has been pre-configured with a setup suitable for the shh cluster.
Example: `nextflow run nf-core/eager -profile shh`
## eager specific configurations for shh
Specific configurations for shh has been made for eager.
* Running with the MALT module turned on, will by default be sent either to long or supercruncher queues with a minimum of 756GB and 64 cores.

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pipeline/eager.config Normal file
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/*
* -------------------------------------------------
* nfcore/eager custom profile Nextflow config file
* -------------------------------------------------
* Config options for custom environments.
* Cluster-specific config options should be saved
* in the conf/pipeline/eager folder and imported
* under a profile name here.
*/
profiles {
shh { includeConfig "${params.custom_config_base}/conf/pipeline/eager/shh.config" }
}