Olamide Isreal
88627edc25
- Add main.nf as WES entry point with PVC-based paths - Update nextflow.config with k8s/k8s_gpu profiles (eureka-pvc) - Update params.json defaults to /omic/eureka/digital-patients/ paths - Remove stageInMode 'copy' from corto and vcf2prot for k8s compat - Add reassemble.nf for one-time chunk reassembly on PVC
48 lines
1.1 KiB
Plaintext
48 lines
1.1 KiB
Plaintext
manifest {
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name = 'digital-patients'
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author = 'omic'
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recurseSubmodules = true
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homePage = 'https://trs-gitea.cluster.omic.ai/omic/digital-patients'
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description = 'generative digital patients and multi-omics pipeline'
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mainScript = 'main.nf'
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nextflowVersion = '!>=21.04.3'
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defaultBranch = 'main'
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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_gpu {
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process {
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executor = 'k8s'
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pod = [[nodeSelector: 'nvidia.com/gpu.present=true']]
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accelerator = [request: 1, type: 'nvidia.com/gpu']
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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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k8s {
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process {
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executor = 'k8s'
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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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