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| $-method | Input parameters InputParam |
| $<--method | Input parameters InputParam |
| +-method | Pipeline |
| arguments | cwlParam methods |
| arguments<- | cwlParam methods |
| baseCommand | cwlParam methods |
| baseCommand<- | cwlParam methods |
| cwlClass | cwlParam methods |
| cwlClass<- | cwlParam methods |
| cwlParam | Parameters for CWL |
| cwlParam-class | Parameters for CWL |
| cwlShiny | cwlShiny |
| cwlStepParam | cwlStepParam |
| cwlStepParam-class | cwlStepParam |
| cwlVersion | cwlParam methods |
| cwlVersion<- | cwlParam methods |
| Dirent | requireDocker |
| extensions | cwlParam methods |
| extensions<- | cwlParam methods |
| hints | cwlParam methods |
| hints<- | cwlParam methods |
| InputArrayParam | InputArrayParam |
| InputArrayParam-class | InputArrayParam |
| InputParam | Input parameters InputParam |
| InputParam-class | Input parameters InputParam |
| InputParamList | InputParamList |
| InputParamList-class | InputParamList |
| inputs | InputParamList |
| OutputArrayParam | Output array parameters |
| OutputArrayParam-class | Output array parameters |
| OutputParam | Output parameters |
| OutputParam-class | Output parameters |
| OutputParamList | OutputParamList |
| OutputParamList-class | OutputParamList |
| outputs | OutputParamList |
| plotCWL | plotCWL |
| Rcwl | Rcwl |
| readCWL | Read CWL Function to read CWL command or workflow files. |
| requireDocker | requireDocker |
| requireInitialWorkDir | requireDocker |
| requireJS | requireDocker |
| requireManifest | requireDocker |
| requirements | cwlParam methods |
| requirements<- | cwlParam methods |
| requireMultipleInput | requireDocker |
| requireScatter | requireDocker |
| requireSoftware | requireDocker |
| requireStepInputExpression | requireDocker |
| requireSubworkflow | requireDocker |
| runCWL | run cwlParam |
| runCWLBatch | run CWL with batchtools |
| runs | runs |
| short | short |
| stdOut | cwlParam methods |
| stdOut<- | cwlParam methods |
| Step | Step function |
| stepInParam | stepInParam |
| stepInParam-class | stepInParam |
| stepInParamList | stepInParamList |
| stepInParamList-class | stepInParamList |
| stepParam | stepParam |
| stepParam-class | stepParam |
| stepParamList | stepParamList |
| stepParamList-class | stepParamList |
| steps | Steps |
| steps<- | Steps |
| writeCWL | Write CWL |