├── .BBSoptions ├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ └── check-standard.yaml ├── .gitignore ├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── NEWS ├── R ├── AllClasses.R ├── Rcwl-package.R ├── basilisk.R ├── cwl-requirements.R ├── cwlProcess.R ├── cwlProcessWorkflow-methods.R ├── cwlShiny.R ├── cwlStep.R ├── cwlWorkflow.R ├── install_cwltool.R ├── install_udocker.R ├── meta.R ├── plotCWL.R ├── readCWL.R ├── runCWL.R └── writeCWL.R ├── README.md ├── _pkgdown.yml ├── configure ├── configure.win ├── docs ├── 404.html ├── LICENSE-text.html ├── articles │ ├── Rcwl.html │ ├── Rcwl_files │ │ ├── DiagrammeR-styles-0.2 │ │ │ └── styles.css │ │ ├── accessible-code-block-0.0.1 │ │ │ └── empty-anchor.js │ │ ├── grViz-binding-1.0.6.1 │ │ │ └── grViz.js │ │ ├── header-attrs-2.6 │ │ │ └── header-attrs.js │ │ ├── header-attrs-2.7 │ │ │ └── header-attrs.js │ │ ├── htmlwidgets-1.5.3 │ │ │ └── htmlwidgets.js │ │ └── viz-1.8.2 │ │ │ └── viz.js │ ├── cwlShiny.png │ └── index.html ├── authors.html ├── bootstrap-toc.css ├── bootstrap-toc.js ├── docsearch.css ├── docsearch.js ├── index.html ├── link.svg ├── pkgdown.css ├── pkgdown.js ├── pkgdown.yml ├── reference │ ├── AllClasses.html │ ├── InputArrayParam.html │ ├── InputParam.html │ ├── InputParamList.html │ ├── OutputArrayParam.html │ ├── OutputParam.html │ ├── OutputParamList.html │ ├── Rcwl-package.html │ ├── Rcwl.html │ ├── Rplot001.png │ ├── Step.html │ ├── cwl-requirements.html │ ├── cwlProcess-methods.html │ ├── cwlProcess.html │ ├── cwlShiny.html │ ├── cwlStep.html │ ├── cwlWorkflow-methods.html │ ├── cwlWorkflow.html │ ├── index.html │ ├── install_udocker.html │ ├── plotCWL.html │ ├── plus-cwlWorkflow-stepParam-method.html │ ├── readCWL.html │ ├── requirements.html │ ├── runCWL.html │ ├── runCWLBatch.html │ ├── runs.html │ ├── short.html │ ├── stepInParam.html │ ├── stepInParamList.html │ ├── stepParam.html │ ├── stepParamList.html │ ├── steps.html │ └── writeCWL.html └── sitemap.xml ├── man ├── AllClasses.Rd ├── Rcwl-package.Rd ├── addMeta.Rd ├── cwl-requirements.Rd ├── cwlProcess-methods.Rd ├── cwlProcess.Rd ├── cwlShiny.Rd ├── cwlStep.Rd ├── cwlWorkflow-methods.Rd ├── cwlWorkflow.Rd ├── env_Rcwl.Rd ├── install_cwltool.Rd ├── install_udocker.Rd ├── plotCWL.Rd ├── readCWL.Rd ├── runCWL.Rd ├── runCWLBP.Rd ├── runCWLBatch.Rd ├── stepInputs.Rd ├── stepOutputs.Rd └── writeCWL.Rd ├── tests ├── testthat.R └── testthat │ └── test_all.R └── vignettes ├── Rcwl.Rmd └── cwlShiny.png /.BBSoptions: -------------------------------------------------------------------------------- 1 | UnsupportedPlatforms: win 2 | -------------------------------------------------------------------------------- /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/.Rbuildignore -------------------------------------------------------------------------------- /.github/.gitignore: -------------------------------------------------------------------------------- 1 | *.html 2 | -------------------------------------------------------------------------------- /.github/workflows/check-standard.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/.github/workflows/check-standard.yaml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- 1 | doc 2 | Meta 3 | -------------------------------------------------------------------------------- /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/DESCRIPTION -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/LICENSE -------------------------------------------------------------------------------- /NAMESPACE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/NAMESPACE -------------------------------------------------------------------------------- /NEWS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/NEWS -------------------------------------------------------------------------------- /R/AllClasses.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/AllClasses.R -------------------------------------------------------------------------------- /R/Rcwl-package.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/Rcwl-package.R -------------------------------------------------------------------------------- /R/basilisk.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/basilisk.R -------------------------------------------------------------------------------- /R/cwl-requirements.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwl-requirements.R -------------------------------------------------------------------------------- /R/cwlProcess.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwlProcess.R -------------------------------------------------------------------------------- /R/cwlProcessWorkflow-methods.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwlProcessWorkflow-methods.R -------------------------------------------------------------------------------- /R/cwlShiny.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwlShiny.R -------------------------------------------------------------------------------- /R/cwlStep.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwlStep.R -------------------------------------------------------------------------------- /R/cwlWorkflow.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/cwlWorkflow.R -------------------------------------------------------------------------------- /R/install_cwltool.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/install_cwltool.R -------------------------------------------------------------------------------- /R/install_udocker.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/install_udocker.R -------------------------------------------------------------------------------- /R/meta.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/meta.R -------------------------------------------------------------------------------- /R/plotCWL.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/plotCWL.R -------------------------------------------------------------------------------- /R/readCWL.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/readCWL.R -------------------------------------------------------------------------------- /R/runCWL.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/runCWL.R -------------------------------------------------------------------------------- /R/writeCWL.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/R/writeCWL.R -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/README.md -------------------------------------------------------------------------------- /_pkgdown.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/_pkgdown.yml -------------------------------------------------------------------------------- /configure: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/configure -------------------------------------------------------------------------------- /configure.win: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/configure.win -------------------------------------------------------------------------------- /docs/404.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/404.html -------------------------------------------------------------------------------- /docs/LICENSE-text.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/LICENSE-text.html -------------------------------------------------------------------------------- /docs/articles/Rcwl.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl.html -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/DiagrammeR-styles-0.2/styles.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/DiagrammeR-styles-0.2/styles.css -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/accessible-code-block-0.0.1/empty-anchor.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/accessible-code-block-0.0.1/empty-anchor.js -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/grViz-binding-1.0.6.1/grViz.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/grViz-binding-1.0.6.1/grViz.js -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/header-attrs-2.6/header-attrs.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/header-attrs-2.6/header-attrs.js -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/header-attrs-2.7/header-attrs.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/header-attrs-2.7/header-attrs.js -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/htmlwidgets-1.5.3/htmlwidgets.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/htmlwidgets-1.5.3/htmlwidgets.js -------------------------------------------------------------------------------- /docs/articles/Rcwl_files/viz-1.8.2/viz.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/Rcwl_files/viz-1.8.2/viz.js -------------------------------------------------------------------------------- /docs/articles/cwlShiny.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/cwlShiny.png -------------------------------------------------------------------------------- /docs/articles/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/articles/index.html -------------------------------------------------------------------------------- /docs/authors.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/authors.html -------------------------------------------------------------------------------- /docs/bootstrap-toc.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/bootstrap-toc.css -------------------------------------------------------------------------------- /docs/bootstrap-toc.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/bootstrap-toc.js -------------------------------------------------------------------------------- /docs/docsearch.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/docsearch.css -------------------------------------------------------------------------------- /docs/docsearch.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/docsearch.js -------------------------------------------------------------------------------- /docs/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/index.html -------------------------------------------------------------------------------- /docs/link.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/link.svg -------------------------------------------------------------------------------- /docs/pkgdown.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/pkgdown.css -------------------------------------------------------------------------------- /docs/pkgdown.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/pkgdown.js -------------------------------------------------------------------------------- /docs/pkgdown.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/pkgdown.yml -------------------------------------------------------------------------------- /docs/reference/AllClasses.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/AllClasses.html -------------------------------------------------------------------------------- /docs/reference/InputArrayParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/InputArrayParam.html -------------------------------------------------------------------------------- /docs/reference/InputParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/InputParam.html -------------------------------------------------------------------------------- /docs/reference/InputParamList.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/InputParamList.html -------------------------------------------------------------------------------- /docs/reference/OutputArrayParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/OutputArrayParam.html -------------------------------------------------------------------------------- /docs/reference/OutputParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/OutputParam.html -------------------------------------------------------------------------------- /docs/reference/OutputParamList.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/OutputParamList.html -------------------------------------------------------------------------------- /docs/reference/Rcwl-package.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/Rcwl-package.html -------------------------------------------------------------------------------- /docs/reference/Rcwl.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/Rcwl.html -------------------------------------------------------------------------------- /docs/reference/Rplot001.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/Rplot001.png -------------------------------------------------------------------------------- /docs/reference/Step.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/Step.html -------------------------------------------------------------------------------- /docs/reference/cwl-requirements.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwl-requirements.html -------------------------------------------------------------------------------- /docs/reference/cwlProcess-methods.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlProcess-methods.html -------------------------------------------------------------------------------- /docs/reference/cwlProcess.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlProcess.html -------------------------------------------------------------------------------- /docs/reference/cwlShiny.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlShiny.html -------------------------------------------------------------------------------- /docs/reference/cwlStep.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlStep.html -------------------------------------------------------------------------------- /docs/reference/cwlWorkflow-methods.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlWorkflow-methods.html -------------------------------------------------------------------------------- /docs/reference/cwlWorkflow.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/cwlWorkflow.html -------------------------------------------------------------------------------- /docs/reference/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/index.html -------------------------------------------------------------------------------- /docs/reference/install_udocker.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/install_udocker.html -------------------------------------------------------------------------------- /docs/reference/plotCWL.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/plotCWL.html -------------------------------------------------------------------------------- /docs/reference/plus-cwlWorkflow-stepParam-method.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/plus-cwlWorkflow-stepParam-method.html -------------------------------------------------------------------------------- /docs/reference/readCWL.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/readCWL.html -------------------------------------------------------------------------------- /docs/reference/requirements.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/requirements.html -------------------------------------------------------------------------------- /docs/reference/runCWL.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/runCWL.html -------------------------------------------------------------------------------- /docs/reference/runCWLBatch.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/runCWLBatch.html -------------------------------------------------------------------------------- /docs/reference/runs.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/runs.html -------------------------------------------------------------------------------- /docs/reference/short.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/short.html -------------------------------------------------------------------------------- /docs/reference/stepInParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/stepInParam.html -------------------------------------------------------------------------------- /docs/reference/stepInParamList.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/stepInParamList.html -------------------------------------------------------------------------------- /docs/reference/stepParam.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/stepParam.html -------------------------------------------------------------------------------- /docs/reference/stepParamList.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/stepParamList.html -------------------------------------------------------------------------------- /docs/reference/steps.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/steps.html -------------------------------------------------------------------------------- /docs/reference/writeCWL.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/reference/writeCWL.html -------------------------------------------------------------------------------- /docs/sitemap.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/docs/sitemap.xml -------------------------------------------------------------------------------- /man/AllClasses.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/AllClasses.Rd -------------------------------------------------------------------------------- /man/Rcwl-package.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/Rcwl-package.Rd -------------------------------------------------------------------------------- /man/addMeta.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/addMeta.Rd -------------------------------------------------------------------------------- /man/cwl-requirements.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwl-requirements.Rd -------------------------------------------------------------------------------- /man/cwlProcess-methods.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlProcess-methods.Rd -------------------------------------------------------------------------------- /man/cwlProcess.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlProcess.Rd -------------------------------------------------------------------------------- /man/cwlShiny.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlShiny.Rd -------------------------------------------------------------------------------- /man/cwlStep.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlStep.Rd -------------------------------------------------------------------------------- /man/cwlWorkflow-methods.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlWorkflow-methods.Rd -------------------------------------------------------------------------------- /man/cwlWorkflow.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/cwlWorkflow.Rd -------------------------------------------------------------------------------- /man/env_Rcwl.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/env_Rcwl.Rd -------------------------------------------------------------------------------- /man/install_cwltool.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/install_cwltool.Rd -------------------------------------------------------------------------------- /man/install_udocker.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/install_udocker.Rd -------------------------------------------------------------------------------- /man/plotCWL.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/plotCWL.Rd -------------------------------------------------------------------------------- /man/readCWL.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/readCWL.Rd -------------------------------------------------------------------------------- /man/runCWL.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/runCWL.Rd -------------------------------------------------------------------------------- /man/runCWLBP.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/runCWLBP.Rd -------------------------------------------------------------------------------- /man/runCWLBatch.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/runCWLBatch.Rd -------------------------------------------------------------------------------- /man/stepInputs.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/stepInputs.Rd -------------------------------------------------------------------------------- /man/stepOutputs.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/stepOutputs.Rd -------------------------------------------------------------------------------- /man/writeCWL.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/man/writeCWL.Rd -------------------------------------------------------------------------------- /tests/testthat.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/tests/testthat.R -------------------------------------------------------------------------------- /tests/testthat/test_all.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/tests/testthat/test_all.R -------------------------------------------------------------------------------- /vignettes/Rcwl.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/vignettes/Rcwl.Rmd -------------------------------------------------------------------------------- /vignettes/cwlShiny.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/rworkflow/Rcwl/HEAD/vignettes/cwlShiny.png --------------------------------------------------------------------------------