Get protocol mappings defined within a pipeline interface

Get protocol mappings defined within a pipeline interface

getProtocolMappings(.Object)

# S4 method for Config
getProtocolMappings(.Object)

Arguments

.Object

a pipeline interface, an object of Config-class

Value

a named list, where the names of the elements are the protocols and the elements names of the pipelines

Methods (by class)

  • Config: extracts protocol mappings from a pipeline interface

Examples

projectConfig = system.file("extdata",
"example_peps-master",
"example_piface",
"project_config.yaml",
package = "BiocProject")
p = Project(file = projectConfig)
#> Loaded config file: /Users/mstolarczyk/Uczelnia/UVA/code/BiocProject/inst/extdata/example_peps-master/example_piface/project_config.yaml
pifaces = getPipelineInterfaces(p)
getProtocolMappings(pifaces[[1]])
#> $PROTO1
#> [1] "pipeline1.py"
#> 
#> $PROTO2
#> [1] "pipeline2.py"
#>