90 lines
1.9 KiB
Plaintext
90 lines
1.9 KiB
Plaintext
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params {
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gene = "nat2"
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}
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process {
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// ALL PROCESSES
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cache = true
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stageInMode = 'symlink'
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stageOutMode = 'rsync'
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// scratch = "$HOME/tmp" // clean this regularly
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// Containers
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// Singularity
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// withLabel: phase {
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// singularity.enabled = false
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//container = "$PWD/containers/whatshap.sif" // this can be generated from docker://pacificbiosciences/whatshap
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// }
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withName: call_snvs1 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: call_snvs2 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: call_sv_del {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: call_sv_dup {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: get_depth {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: format_snvs {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: get_core_var {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: analyse_1 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: analyse_2 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: analyse_3 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: analyse_4 {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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withName: call_stars {
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singularity.enabled = true
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container = "$PWD/containers/stellarpgx-dev.sif"
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}
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// Docker
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// container = "twesigomwedavid/stellarpgx-dev:latest" // Note that this Docker build needs to be pulled from Do
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} |