X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/51c1daf863f3e1920f758f73b4e5d70ff2c706d6..13f6d45704efc68ca8419e8917376aa44fdee1be:/README.md?ds=sidebyside diff --git a/README.md b/README.md index 5843bb84da..fced2eb5b7 100644 --- a/README.md +++ b/README.md @@ -2,24 +2,47 @@ [comment]: # () [comment]: # (SPDX-License-Identifier: CC-BY-SA-3.0) -[Arvados](https://arvados.org) is a free software distributed computing platform -for bioinformatics, data science, and high throughput analysis of massive data -sets. Arvados supports a variety of cloud, cluster and HPC environments. +[![Join the chat at https://gitter.im/arvados/community](https://badges.gitter.im/arvados/community.svg)](https://gitter.im/arvados/community?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) | [Installing Arvados](https://doc.arvados.org/install/index.html) | [Installing Client SDKs](https://doc.arvados.org/sdk/index.html) | [Report a bug](https://dev.arvados.org/projects/arvados/issues/new) | [Development and Contributing](CONTRIBUTING.md) -Arvados consists of: + -* *Keep*: a petabyte-scale content-addressed distributed storage system for managing and - storing collections of files, accessible via HTTP and FUSE mount. +[Arvados](https://arvados.org) is an open source platform for +managing, processing, and sharing genomic and other large scientific +and biomedical data. With Arvados, bioinformaticians run and scale +compute-intensive workflows, developers create biomedical +applications, and IT administrators manage large compute and storage +resources. -* *Crunch*: a Docker-based cluster and HPC workflow engine designed providing - strong versioning, reproducibilty, and provenance of computations. +The key components of Arvados are: -* Related services and components including a web workbench for managing files - and compute jobs, REST APIs, SDKs, and other tools. +* *Keep*: Keep is the Arvados storage system for managing and storing large +collections of files. Keep combines content addressing and a +distributed storage architecture resulting in both high reliability +and high throughput. Every file stored in Keep can be accurately +verified every time it is retrieved. Keep supports the creation of +collections as a flexible way to define data sets without having to +re-organize or needlessly copy data. Keep works on a wide range of +underlying filesystems and object stores. -## Quick start +* *Crunch*: Crunch is the orchestration system for running [Common Workflow Language](https://www.commonwl.org) workflows. It is +designed to maintain data provenance and workflow +reproducibility. Crunch automatically tracks data inputs and outputs +through Keep and executes workflow processes in Docker containers. In +a cloud environment, Crunch optimizes costs by scaling compute on demand. -Veritas Genetics maintains a public installation of Arvados for evaluation and trial use, the [Arvados Playground](https://playground.arvados.org). A Google account is required to log in. +* *Workbench*: The Workbench web application allows users to interactively access +Arvados functionality. It is especially helpful for querying and +browsing data, visualizing provenance, and tracking the progress of +workflows. + +* *Command Line tools*: The command line interface (CLI) provides convenient access to Arvados +functionality in the Arvados platform from the command line. + +* *API and SDKs*: Arvados is designed to be integrated with existing infrastructure. All +the services in Arvados are accessed through a RESTful API. SDKs are +available for Python, Go, R, Perl, Ruby, and Java. + +# Quick start To try out Arvados on your local workstation, you can use Arvbox, which provides Arvados components pre-installed in a Docker container (requires @@ -34,48 +57,40 @@ In this mode you will only be able to connect to Arvbox from the same host. To configure Arvbox to be accessible over a network and for other options see http://doc.arvados.org/install/arvbox.html for details. -## Documentation +# Documentation -Complete documentation, including a User Guide, Installation documentation and -API documentation is available at http://doc.arvados.org/ +Complete documentation, including the [User Guide](https://doc.arvados.org/user/index.html), [Installation documentation](https://doc.arvados.org/install/index.html), [Administrator documentation](https://doc.arvados.org/admin/index.html) and +[API documentation](https://doc.arvados.org/api/index.html) is available at http://doc.arvados.org/ If you wish to build the Arvados documentation from a local git clone, see -doc/README.textile for instructions. +[doc/README.textile](doc/README.textile) for instructions. -## Community +# Community -[![Join the chat at https://gitter.im/curoverse/arvados](https://badges.gitter.im/curoverse/arvados.svg)](https://gitter.im/curoverse/arvados?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) +[![Join the chat at https://gitter.im/arvados/community](https://badges.gitter.im/arvados/community.svg)](https://gitter.im/arvados/community?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) -The [curoverse/arvados channel](https://gitter.im/curoverse/arvados) +The [Arvados community channel](https://gitter.im/arvados/community) channel at [gitter.im](https://gitter.im) is available for live discussion and support. -The -[Arvados user mailing list](http://lists.arvados.org/mailman/listinfo/arvados) -is a forum for general discussion, questions, and news about Arvados -development. The -[Arvados developer mailing list](http://lists.arvados.org/mailman/listinfo/arvados-dev) -is a forum for more technical discussion, intended for developers and -contributors to Arvados. +The [Arvados developement channel](https://gitter.im/arvados/development) +channel at [gitter.im](https://gitter.im) is used to coordinate development. -## Development +The [Arvados user mailing list](http://lists.arvados.org/mailman/listinfo/arvados) +is used to announce new versions and other news. -[![Build Status](https://ci.curoverse.com/buildStatus/icon?job=run-tests)](https://ci.curoverse.com/job/run-tests/) -[![Go Report Card](https://goreportcard.com/badge/github.com/curoverse/arvados)](https://goreportcard.com/report/github.com/curoverse/arvados) +All participants are expected to abide by the [Arvados Code of Conduct](CODE_OF_CONDUCT.md). -The Arvados public bug tracker is located at https://dev.arvados.org/projects/arvados/issues +# Reporting bugs -Continuous integration is hosted at https://ci.curoverse.com/ +[Report a bug](https://dev.arvados.org/projects/arvados/issues/new) on [dev.arvados.org](https://dev.arvados.org). -Instructions for setting up a development environment and working on specific -components can be found on the -["Hacking Arvados" page of the Arvados wiki](https://dev.arvados.org/projects/arvados/wiki/Hacking). +# Development and Contributing -## Contributing +See [CONTRIBUTING](CONTRIBUTING.md) for information about Arvados development and how to contribute to the Arvados project. -When making a pull request, please ensure *every git commit message* includes a one-line [Developer Certificate of Origin](https://dev.arvados.org/projects/arvados/wiki/Developer_Certificate_Of_Origin). If you have already made commits without it, fix them with `git commit --amend` or `git rebase`. +The [development road map](https://dev.arvados.org/issues/gantt?utf8=%E2%9C%93&set_filter=1&gantt=1&f%5B%5D=project_id&op%5Bproject_id%5D=%3D&v%5Bproject_id%5D%5B%5D=49&f%5B%5D=&zoom=1) outlines some of the project priorities over the next twelve months. -## Licensing +# Licensing -Arvados is Free Software. See COPYING for information about Arvados Free -Software licenses. +Arvados is Free Software. See [COPYING](COPYING) for information about the open source licenses used in Arvados.