Add proteinfold-specific CRG config
parent
c40faeb95e
commit
7547fba92e
@ -0,0 +1,27 @@
|
|||||||
|
profiles {
|
||||||
|
crg {
|
||||||
|
params {
|
||||||
|
config_profile_contact = 'Athanasios Baltzis (@athbaltzis)'
|
||||||
|
config_profile_description = 'nf-core/proteinfold CRG profile provided by nf-core/configs'
|
||||||
|
}
|
||||||
|
executor.name = 'crg'
|
||||||
|
process {
|
||||||
|
queue = 'short-sl7,long-sl7'
|
||||||
|
withName: 'RUN_AF2|RUN_AF2_PRED|COLABFOLD_BATCH' {
|
||||||
|
cpus = 1
|
||||||
|
memory = "30 GB"
|
||||||
|
queue = params.use_gpu ? 'gpu' : 'long-sl7'
|
||||||
|
clusterOptions = { ( task.queue == 'gpu' ? '-l gpu=1' : '' ) }
|
||||||
|
}
|
||||||
|
withName: 'ARIA2' {
|
||||||
|
time = '12h'
|
||||||
|
}
|
||||||
|
withName: 'MMSEQS_COLABFOLDSEARCH' {
|
||||||
|
queue = 'mem_512'
|
||||||
|
memory = "100 GB"
|
||||||
|
cpus = 8
|
||||||
|
time = '12h'
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
@ -0,0 +1,23 @@
|
|||||||
|
# nf-core/configs: CRG proteinfold specific configuration
|
||||||
|
|
||||||
|
Extra specific configuration for proteinfold pipeline
|
||||||
|
|
||||||
|
## Usage
|
||||||
|
|
||||||
|
To use, run the pipeline with `-profile crg`.
|
||||||
|
|
||||||
|
This will download and launch the proteinfold specific [`crg.config`](../../../conf/pipeline/proteinfold/crg.config) which has been pre-configured with a setup suitable for the sge cluster.
|
||||||
|
|
||||||
|
Example: `nextflow run nf-core/proteinfold -profile crg`
|
||||||
|
|
||||||
|
## proteinfold specific configurations for CRG
|
||||||
|
|
||||||
|
Specific configurations for CRG has been made for proteinfold.
|
||||||
|
|
||||||
|
### General profiles
|
||||||
|
|
||||||
|
<!-- TODO -->
|
||||||
|
|
||||||
|
### Contextual profiles
|
||||||
|
|
||||||
|
<!-- TODO -->
|
@ -0,0 +1,13 @@
|
|||||||
|
/*
|
||||||
|
* -------------------------------------------------
|
||||||
|
* nfcore/proteinfold custom profile Nextflow config file
|
||||||
|
* -------------------------------------------------
|
||||||
|
* Config options for custom environments.
|
||||||
|
* Cluster-specific config options should be saved
|
||||||
|
* in the conf/pipeline/proteinfold folder and imported
|
||||||
|
* under a profile name here.
|
||||||
|
*/
|
||||||
|
|
||||||
|
profiles {
|
||||||
|
crg { includeConfig "${params.custom_config_base}/conf/pipeline/proteinfold/crg.config" }
|
||||||
|
}
|
Loading…
Reference in New Issue