README.Rmd

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```{r include=FALSE}
knitr::opts_chunk$set(
  comment = "#>",
  collapse = TRUE,
  warning = FALSE,
  fig.path = "man/figures/README-",
  out.width = "100%"
)
```

# rcromwell

<!-- badges: start -->
[![Project Status: Experimental – Useable, some support, not open to feedback, unstable API.](https://getwilds.github.io/badges/badges/experimental.svg)](https://getwilds.github.io/badges/#experimental)
[![R-CMD-check](https://github.com/getwilds/rcromwell/actions/workflows/R-CMD-check.yaml/badge.svg?branch=dev)](https://github.com/getwilds/rcromwell/actions/workflows/R-CMD-check.yaml)
[![codecov](https://codecov.io/gh/getwilds/rcromwell/graph/badge.svg?token=AVQ6J31XZ3)](https://codecov.io/gh/getwilds/rcromwell)
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Convenience Tools for Managing WDL Workflows via Cromwell

Cromwell is a scientific workflow engine designed for simplicity and scalability. It's maintained by the [Broad Institute](https://www.broadinstitute.org/). ([docs](https://cromwell.readthedocs.io/en/latest/), [code source](https://github.com/broadinstitute/cromwell)).

`rcromwell` is maintained by the [Fred Hutch Cancer Center Data Science Lab](https://hutchdatascience.org/).

## Installation

You can install the development version of `rcromwell` from [GitHub](https://github.com/) with:

```r
# install.packages("pak")
pak::pak("getwilds/rcromwell")
```

## Documentation

Go to <http://getwilds.org/rcromwell/> for `rcromwell` package documentation. Go to the [Get Started vignette](https://getwilds.org/rcromwell/articles/rcromwell.html) to get started, or [reference page](https://getwilds.org/rcromwell/reference/index.html) for the function documentation.

## Bugs? Features?

Open an issue on our [issue tracker](https://github.com/getwilds/rcromwell/issues/).

## Code of Conduct

Please note that the rcromwell project is released with a [Contributor Code of Conduct](http://getwilds.org/rcromwell/CODE_OF_CONDUCT.html). By contributing to this project, you agree to abide by its terms.

## License

[MIT](LICENSE.md)

## Prior art

- [wdlRunR](https://github.com/seandavi/wdlRunR) - archived package/repo