Olamide Isreal
d468509ec3
- Rewrite params.json to match WES tool registry format - Update main.nf to use Harbor container image - Add k8s profile to nextflow.config for WES/Kubernetes execution - Use s3://omic/eureka paths for output
45 lines
784 B
Plaintext
45 lines
784 B
Plaintext
manifest {
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name = 'synthea-alldiseases'
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description = 'Synthea synthetic patient generator pipeline'
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mainScript = 'main.nf'
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version = '1.0.0'
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}
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params {
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disease_name = null
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outdir = null
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population = 10
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gender = 0.5
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min_age = 0
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max_age = 90
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seed = null
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}
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profiles {
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standard {
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docker {
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enabled = true
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temp = 'auto'
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}
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}
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k8s {
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process {
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executor = 'k8s'
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container = 'harbor.cluster.omic.ai/omic/synthea-alldiseases:latest'
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}
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docker {
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enabled = true
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}
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k8s {
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storageClaimName = 'eureka-pvc'
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storageMountPath = '/omic/eureka'
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}
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}
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}
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process {
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cpus = 2
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memory = '4 GB'
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}
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