-# Google API Client
+[comment]: # (Copyright © The Arvados Authors. All rights reserved.)
+[comment]: # ()
+[comment]: # (SPDX-License-Identifier: CC-BY-SA-3.0)
-<dl>
- <dt>Homepage</dt><dd><a href="http://www.github.com/google/google-api-ruby-client">http://www.github.com/google/google-api-ruby-client</a></dd>
- <dt>Authors</dt><dd>Bob Aman, <a href="mailto:sbazyl@google.com">Steven Bazyl</a></dd>
- <dt>Copyright</dt><dd>Copyright © 2011 Google, Inc.</dd>
- <dt>License</dt><dd>Apache 2.0</dd>
-</dl>
+[](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)
-[](http://travis-ci.org/google/google-api-ruby-client)
-[](https://gemnasium.com/google/google-api-ruby-client)
+<img align="right" src="doc/images/dax.png" height="240px">
-## Description
+[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.
-The Google API Ruby Client makes it trivial to discover and access supported
-APIs.
+The key components of Arvados are:
-## Install
+* *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.
-Be sure `http://rubygems.org/` is in your gem sources.
+* *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.
-For normal client usage, this is sufficient:
+* *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.
- $ gem install google-api-client
+* *Command Line tools*: The command line interface (CLI) provides convenient access to Arvados
+functionality in the Arvados platform from the command line.
-## Example Usage
+* *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.
- # Initialize the client & Google+ API
- require 'google/api_client'
- client = Google::APIClient.new
- plus = client.discovered_api('plus')
+# Quick start
- # Initialize OAuth 2.0 client
- client.authorization.client_id = '<CLIENT_ID_FROM_API_CONSOLE>'
- client.authorization.client_secret = '<CLIENT_SECRET>'
- client.authorization.redirect_uri = '<YOUR_REDIRECT_URI>'
-
- client.authorization.scope = 'https://www.googleapis.com/auth/plus.me'
+To try out Arvados on your local workstation, you can use Arvbox, which
+provides Arvados components pre-installed in a Docker container (requires
+Docker 1.9+). After cloning the Arvados git repository:
- # Request authorization
- redirect_uri = client.authorization.authorization_uri
+```
+$ cd arvados/tools/arvbox/bin
+$ ./arvbox start localdemo
+```
- # Wait for authorization code then exchange for token
- client.authorization.code = '....'
- client.authorization.fetch_access_token!
+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.
- # Make an API call
- result = client.execute(
- :api_method => plus.activities.list,
- :parameters => {'collection' => 'public', 'userId' => 'me'}
- )
+# Documentation
- puts result.data
+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/
-## API Features
+If you wish to build the Arvados documentation from a local git clone, see
+[doc/README.textile](doc/README.textile) for instructions.
-### API Discovery
+# Community
-To take full advantage of the client, load API definitions prior to use. To load an API:
+[](https://gitter.im/arvados/community?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)
- urlshortener = client.discovered_api('urlshortener')
+The [Arvados community channel](https://gitter.im/arvados/community)
+channel at [gitter.im](https://gitter.im) is available for live
+discussion and support.
-Specific versions of the API can be loaded as well:
+The [Arvados developement channel](https://gitter.im/arvados/development)
+channel at [gitter.im](https://gitter.im) is used to coordinate development.
- drive = client.discovered_api('drive', 'v2')
+The [Arvados user mailing list](http://lists.arvados.org/mailman/listinfo/arvados)
+is used to announce new versions and other news.
-Locally cached discovery documents may be used as well. To load an API from a local file:
+All participants are expected to abide by the [Arvados Code of Conduct](CODE_OF_CONDUCT.md).
- doc = File.read('my-api.json')
- my_api = client.register_discovery_document('myapi', 'v1', doc)
+# Reporting bugs
-### Authorization
+[Report a bug](https://dev.arvados.org/projects/arvados/issues/new) on [dev.arvados.org](https://dev.arvados.org).
-Most interactions with Google APIs require users to authorize applications via OAuth 2.0. The client library uses [Signet](https://github.com/google/signet) to handle most aspects of authorization. For additional details about Google's OAuth support, see [Google Developers](https://developers.google.com/accounts/docs/OAuth2).
+# Development and Contributing
-Credentials can be managed at the connection level, as shown, or supplied on a per-request basis when calling `execute`.
-
-For server-to-server interactions, like those between a web application and Google Cloud Storage, Prediction, or BigQuery APIs, use service accounts.
-
- key = Google::APIClient::KeyUtils.load_from_pkcs12('client.p12', 'notasecret')
- client.authorization = Signet::OAuth2::Client.new(
- :token_credential_uri => 'https://accounts.google.com/o/oauth2/token',
- :audience => 'https://accounts.google.com/o/oauth2/token',
- :scope => 'https://www.googleapis.com/auth/prediction',
- :issuer => '123456-abcdef@developer.gserviceaccount.com',
- :signing_key => key)
- client.authorization.fetch_access_token!
- client.execute(...)
-
-
-### Batching Requests
-
-Some Google APIs support batching requests into a single HTTP request. Use `Google::APIClient::BatchRequest`
-to bundle multiple requests together.
-
-Example:
-
- client = Google::APIClient.new
- urlshortener = client.discovered_api('urlshortner')
-
- batch = Google::APIClient::BatchRequest.new do |result|
- puts result.data
- end
-
- batch.add(:api_method => urlshortener.url.insert,
- :body_object => { 'longUrl' => 'http://example.com/foo' })
- batch.add(:api_method => urlshortener.url.insert,
- :body_object => { 'longUrl' => 'http://example.com/bar' })
- client.execute(batch)
-
-Blocks for handling responses can be specified either at the batch level or when adding an individual API call. For example:
-
- batch.add(:api_method=>urlshortener.url.insert, :body_object => { 'longUrl' => 'http://example.com/bar' }) do |result|
- puts result.data
- end
-
-### Media Upload
-
-For APIs that support file uploads, use `Google::APIClient::UploadIO` to load the stream. Both multipart and resumable
-uploads can be used. For example, to upload a file to Google Drive using multipart
-
- drive = client.discovered_api('drive', 'v2')
-
- media = Google::APIClient::UploadIO.new('mymovie.m4v', 'video/mp4')
- metadata = {
- 'title' => 'My movie',
- 'description' => 'The best home movie ever made'
- }
- client.execute(:api_method => drive.files.insert,
- :parameters => { 'uploadType' => 'multipart' },
- :body_object => metadata,
- :media => media )
-
-To use resumable uploads, change the `uploadType` parameter to `resumable`. To check the status of the upload
-and continue if necessary, check `result.resumable_upload`.
-
- client.execute(:api_method => drive.files.insert,
- :parameters => { 'uploadType' => 'resumable' },
- :body_object => metadata,
- :media => media )
- upload = result.resumable_upload
-
- # Resume if needed
- if upload.resumable?
- client.execute(upload)
- end
-
-## Command Line
-
-Included with the gem is a command line interface for working with Google APIs.
-
- # Log in
- google-api oauth-2-login --client-id='...' --client-secret='...' --scope="https://www.googleapis.com/auth/plus.me"
-
- # List the signed-in user's activities
- google-api execute plus.activities.list --api=plus -- userId="me" collection="public"
-
- # Start an interactive API session
- google-api irb
- >> plus = $client.discovered_api('plus')
- >> $client.execute(plus.activities.list, {'userId' => 'me', 'collection' => 'public'})
- => # returns a response from the API
-
-For more information, use `google-api --help`
-
-## Samples
-
-See the full list of [samples on Google Code](http://code.google.com/p/google-api-ruby-client/source/browse?repo=samples).
-
-
-## Support
-
-Please [report bugs at the project on Google Code](http://code.google.com/p/google-api-ruby-client/issues/entry). Don't hesitate to [ask questions](http://stackoverflow.com/questions/tagged/google-api-ruby-client) about the client or APIs on [StackOverflow](http://stackoverflow.com).
+See [CONTRIBUTING](CONTRIBUTING.md) for information about Arvados development and how to contribute to the Arvados project.
+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
+Arvados is Free Software. See [COPYING](COPYING) for information about the open source licenses used in Arvados.
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