beast_gpu - WDL Atlas

WORKFLOW beast_gpu

File Path	`pipes/WDL/workflows/beast_gpu.wdl`
WDL Version	1.0
Type	workflow

Imports

Namespace	Path
`interhost`	`../tasks/tasks_interhost.wdl`

Workflow: beast_gpu

Runs BEAST (v1) on a GPU instance. Use with care--this can be expensive if run incorrectly.

Author: Broad Viral Genomics

viral-ngs@broadinstitute.org

Inputs

Name	Type	Description	Default
`beauti_xml`	`File`	-	-
`beagle_order`	`String?`	-	-
`accelerator_type`	`String?`	-	-
`accelerator_count`	`Int?`	-	-
`gpu_type`	`String?`	-	-
`gpu_count`	`Int?`	-	-
`vm_size`	`String?`	-	-
2 optional inputs with default values
`beagle_double_precision`	`Boolean`	-	true
`docker`	`String`	-	"quay.io/broadinstitute/beast-beagle-cuda:1.10.5pre"

Outputs

Name	Type	Expression
`beast_log`	`File`	`beast.beast_log`
`trees`	`Array[File]`	`beast.trees`
`ops`	`Array[File]`	`beast.ops`
`rates`	`Array[File]`	`beast.rates`
`root`	`Array[File]`	`beast.root`
`beast_stdout`	`String`	`beast.beast_stdout`

Calls

This workflow calls the following tasks or subworkflows:

CALL TASKS `beast` ↗

No explicit input mappings

Images

Container images used by tasks in this workflow:

🐳 Parameterized Image

⚙️ Parameterized

Configured via input:
docker

Used by 1 task:

beast

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flowchart TD
    Start([beast_gpu])
    N1["beast"]
    Start --> N1
    N1 --> End([End])
    classDef taskNode fill:#a371f7,stroke:#8b5cf6,stroke-width:2px,color:#fff
    classDef workflowNode fill:#58a6ff,stroke:#1f6feb,stroke-width:2px,color:#fff

version 1.0

import "../tasks/tasks_interhost.wdl" as interhost

workflow beast_gpu {
    meta {
        description: "Runs BEAST (v1) on a GPU instance. Use with care--this can be expensive if run incorrectly."
        author: "Broad Viral Genomics"
        email:  "viral-ngs@broadinstitute.org"
    }

    call interhost.beast
    output {
        File        beast_log    = beast.beast_log
        Array[File] trees        = beast.trees
        Array[File] ops          = beast.ops
        Array[File] rates        = beast.rates
        Array[File] root         = beast.root
        String      beast_stdout = beast.beast_stdout
    }
}