Arvados exposes a REST API using standard HTTP requests.
Use GET to request individual resources or lists of resources.
Use POST to create new resources.
Use PUT to update an existing resource.
Use DELETE to remove an existing resource.
As a special case, a POST with the query parameter _method=GET will be treated as a GET request. This makes it possible to issue GET requests where the query string exceeds the maximum request URI length, by putting the query string in the body of the request.
The URI portion of the request identifies the specific resource to operate on. For example, operations on collections use the https://pirca.arvadosapi.com/arvados/v1/collections request URI prefix.
Every request must include an API token. This identifies the user making the request for the purposes of access control. In addition, tokens may be further restricted in scope to only access certain API endpoints.
API requests must provide the API token using the Authorization header in the following format:
$ curl -v -H "Authorization: Bearer xxxxapitokenxxxx" https://192.168.5.2:8000/arvados/v1/collections > GET /arvados/v1/collections HTTP/1.1 > ... > Authorization: Bearer xxxxapitokenxxxx > ...
On a cluster configured to use an OpenID Connect provider (other than Google) as a login backend, Arvados can be configured to accept an OpenID Connect access token in place of an Arvados API token. OIDC access tokens are also accepted by a cluster that delegates login to another cluster (LoginCluster) which in turn has this feature configured. See Login.OpenIDConnect.AcceptAccessTokenScope in the default config.yml file for details.
$ curl -v -H "Authorization: Bearer xxxx-openid-connect-access-token-xxxx" https://192.168.5.2:8000/arvados/v1/collections
Request parameters may be provided in one of two ways. They may be provided in the “query” section of request URI, or they may be provided in the body of the request with application/x-www-form-urlencoded encoding. If parameters are provided in both places, their values will be merged. Parameter names must be unique. If a parameter appears multiple times, the behavior is undefined.
Structured and nested parameter values must be provided as urlencoded JSON.
Results are returned JSON-encoded in the response body.
If a request cannot be fulfilled, the API will return 4xx or 5xx HTTP status code. Be aware that the API server may return a 404 (Not Found) status for resources that exist but for which the client does not have read access. The API will also return an error record:
| Parameter name | Value | Description |
| errors | array | An array of one or more error messages |
| error_token | string | a unique identifier used to correlate the error in the API server logs |
$ curl -v -X POST --data-urlencode 'collection={"name":"empty collection"}' -H "Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr" https://192.168.5.2:8000/arvados/v1/collections | jq .
> POST /arvados/v1/collections HTTP/1.1
> User-Agent: curl/7.38.0
> Host: 192.168.5.2:8000
> Accept: */*
> Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr
> Content-Length: 54
> Content-Type: application/x-www-form-urlencoded
>
} [data not shown]
< HTTP/1.1 200 OK
< Content-Type: application/json; charset=utf-8
< Transfer-Encoding: chunked
< Connection: keep-alive
< Status: 200 OK
< Access-Control-Allow-Origin: *
< Access-Control-Allow-Methods: GET, HEAD, PUT, POST, DELETE
< Access-Control-Allow-Headers: Authorization
< Access-Control-Max-Age: 86486400
< X-UA-Compatible: IE=Edge,chrome=1
< ETag: "2ec9ef5151c1f7a1486ad169c33ae462"
< Cache-Control: max-age=0, private, must-revalidate
< Set-Cookie: _server_session=BAh7BkkiD3Nlc3Npb25faWQGOgZFVEkiJTIwMjQ1NTE5YmEwMzU1MGZkMTBmYmY1YzllY2ZiMjFlBjsAVA%3D%3D--653bc9c20899d48ee8523e18d9a4c1cde0702577; path=/; HttpOnly
< X-Request-Id: 56aa10bc49097f3b44d3ed946bf0e61e
< X-Runtime: 0.049951
< X-Powered-By: Phusion Passenger 4.0.41
< Date: Fri, 28 Oct 2016 19:20:09 GMT
< Server: nginx/1.4.7 + Phusion Passenger 4.0.41
<
{
"href": "/collections/962eh-4zz18-m1ma0mxxfg3mbcc",
"kind": "arvados#collection",
"etag": "c5ifrv1ox2tu6alb559ymtkb7",
"uuid": "962eh-4zz18-m1ma0mxxfg3mbcc",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-10-28T19:20:09.320771531Z",
"modified_by_client_uuid": "962eh-ozdt8-lm5x8emraox8epg",
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-10-28T19:20:09.319661000Z",
"name": "empty collection",
"description": null,
"properties": {},
"portable_data_hash": "d41d8cd98f00b204e9800998ecf8427e+0",
"manifest_text": "",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
}
$ curl -X DELETE -v -H "Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr" https://192.168.5.2:8000/arvados/v1/collections/962eh-4zz18-m1ma0mxxfg3mbcc | jq .
> DELETE /arvados/v1/collections/962eh-4zz18-m1ma0mxxfg3mbcc HTTP/1.1
> User-Agent: curl/7.38.0
> Host: 192.168.5.2:8000
> Accept: */*
> Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr
>
< HTTP/1.1 200 OK
< Content-Type: application/json; charset=utf-8
< Transfer-Encoding: chunked
< Connection: keep-alive
< Status: 200 OK
< Access-Control-Allow-Origin: *
< Access-Control-Allow-Methods: GET, HEAD, PUT, POST, DELETE
< Access-Control-Allow-Headers: Authorization
< Access-Control-Max-Age: 86486400
< X-UA-Compatible: IE=Edge,chrome=1
< ETag: "1e8f72802cf1a6d0a5c4a1ebbfcc46a9"
< Cache-Control: max-age=0, private, must-revalidate
< Set-Cookie: _server_session=BAh7BkkiD3Nlc3Npb25faWQGOgZFVEkiJTc2NDYyY2M0NTNlNmU3M2Y2M2E3YmFiMWQ1MTEyZGZkBjsAVA%3D%3D--d28c7dd640bd24e2b12f01e77088072138dcf145; path=/; HttpOnly
< X-Request-Id: e66fd3ab825bdb87301f5456161fb641
< X-Runtime: 0.028788
< X-Powered-By: Phusion Passenger 4.0.41
< Date: Fri, 28 Oct 2016 19:33:31 GMT
< Server: nginx/1.4.7 + Phusion Passenger 4.0.41
<
{
"href": "/collections/962eh-4zz18-m1ma0mxxfg3mbcc",
"kind": "arvados#collection",
"etag": "c5ifrv1ox2tu6alb559ymtkb7",
"uuid": "962eh-4zz18-m1ma0mxxfg3mbcc",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-10-28T19:20:09.320771000Z",
"modified_by_client_uuid": "962eh-ozdt8-lm5x8emraox8epg",
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-10-28T19:20:09.319661000Z",
"name": "empty collection",
"description": null,
"properties": {},
"portable_data_hash": "d41d8cd98f00b204e9800998ecf8427e+0",
"manifest_text": "",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
}
$ curl -v -H "Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr" https://192.168.5.2:8000/arvados/v1/collections/962eh-4zz18-xi32mpz2621o8km | jq .
> GET /arvados/v1/collections/962eh-4zz18-xi32mpz2621o8km HTTP/1.1
> User-Agent: curl/7.38.0
> Host: 192.168.5.2:8000
> Accept: */*
> Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr
>
< HTTP/1.1 200 OK
< Content-Type: application/json; charset=utf-8
< Transfer-Encoding: chunked
< Connection: keep-alive
< Status: 200 OK
< Access-Control-Allow-Origin: *
< Access-Control-Allow-Methods: GET, HEAD, PUT, POST, DELETE
< Access-Control-Allow-Headers: Authorization
< Access-Control-Max-Age: 86486400
< X-UA-Compatible: IE=Edge,chrome=1
< ETag: "fec2ddf433a352e5a2b5d356abd6d3d4"
< Cache-Control: max-age=0, private, must-revalidate
< X-Request-Id: 40b447507ff202ae9a0b0b3e0ebe98da
< X-Runtime: 0.011404
< X-Powered-By: Phusion Passenger 4.0.41
< Date: Fri, 28 Oct 2016 18:59:09 GMT
< Server: nginx/1.4.7 + Phusion Passenger 4.0.41
<
{
"href": "/collections/962eh-4zz18-xi32mpz2621o8km",
"kind": "arvados#collection",
"etag": "3mmn0s9e1z5s5opfofmtb9k8p",
"uuid": "962eh-4zz18-xi32mpz2621o8km",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-10-27T14:47:43.792587000Z",
"modified_by_client_uuid": "962eh-ozdt8-lm5x8emraox8epg",
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-10-27T14:47:43.792166000Z",
"name": "Saved at 2016-10-27 14:47:43 UTC by peter@debian",
"description": null,
"properties": {},
"portable_data_hash": "93a45073511646a5c3e2f4953fcf6f61+116",
"manifest_text": ". eff999f3b5158331eb44a9a93e3b36e1+67108864+Aad3839bea88bce22cbfe71cf4943de7dab3ea52a@5826180f db141bfd11f7da60dce9e5ee85a988b8+34038725+Ae8f48913fed782cbe463e0499ab37697ee06a2f8@5826180f 0:101147589:rna.SRR948778.bam\n",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
}
(Note, return result is truncated).
$ curl -v -G --data-urlencode 'filters=[["created_at",">","2016-11-08T21:38:24.124834000Z"]]' -H "Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr" https://192.168.5.2:8000/arvados/v1/collections | jq .
> GET /arvados/v1/collections?filters=%5B%5B%22uuid%22%2C%20%22%3D%22%2C%20%22962eh-4zz18-xi32mpz2621o8km%22%5D%5D HTTP/1.1
> User-Agent: curl/7.38.0
> Host: 192.168.5.2:8000
> Accept: */*
> Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr
>
< HTTP/1.1 200 OK
< Content-Type: application/json; charset=utf-8
< Transfer-Encoding: chunked
< Connection: keep-alive
< Status: 200 OK
< Access-Control-Allow-Origin: *
< Access-Control-Allow-Methods: GET, HEAD, PUT, POST, DELETE
< Access-Control-Allow-Headers: Authorization
< Access-Control-Max-Age: 86486400
< X-UA-Compatible: IE=Edge,chrome=1
< ETag: "76345ef24952f073acc3a0c550241d4e"
< Cache-Control: max-age=0, private, must-revalidate
< X-Request-Id: d34b8ede4ffc707d8ed172dc2f47ff5e
< X-Runtime: 0.012727
< X-Powered-By: Phusion Passenger 4.0.41
< Date: Fri, 28 Oct 2016 19:08:52 GMT
< Server: nginx/1.4.7 + Phusion Passenger 4.0.41
<
{
"kind": "arvados#collectionList",
"etag": "",
"self_link": "",
"offset": 0,
"limit": 100,
"items": [
{
"href": "/collections/962eh-4zz18-ybggo9im899vv60",
"kind": "arvados#collection",
"etag": "bvgrrsg63zsenb9wnpnp0nsgl",
"uuid": "962eh-4zz18-ybggo9im899vv60",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-11-08T21:47:36.937106000Z",
"modified_by_client_uuid": null,
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-11-08T21:47:36.936625000Z",
"name": "Log from cwl-runner job 962eh-8i9sb-45jww0k15fi5ldd",
"description": null,
"properties": {},
"portable_data_hash": "a7820b94717eff86229927565fedbd72+85",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
},
...
{
"href": "/collections/962eh-4zz18-37i1tfl5de5ild9",
"kind": "arvados#collection",
"etag": "2fa07dx52lux8wa1loehwyrc5",
"uuid": "962eh-4zz18-37i1tfl5de5ild9",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-11-08T21:38:46.717798000Z",
"modified_by_client_uuid": null,
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-11-08T21:38:46.717409000Z",
"name": null,
"description": null,
"properties": {},
"portable_data_hash": "9d43d4c8328640446f6e252cda584e7e+54",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
}
],
"items_available": 99
}
$ curl -v -X PUT --data-urlencode 'collection={"name":"rna.SRR948778.bam"}' -H "Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr" https://192.168.5.2:8000/arvados/v1/collections/962eh-4zz18-xi32mpz2621o8km | jq .
> PUT /arvados/v1/collections/962eh-4zz18-xi32mpz2621o8km HTTP/1.1
> User-Agent: curl/7.38.0
> Host: 192.168.5.2:8000
> Accept: */*
> Authorization: Bearer oz0os4nyudswvglxhdlnrgnuelxptmj7qu7dpwvyz3g9ocqtr
> Content-Length: 53
> Content-Type: application/x-www-form-urlencoded
>
} [data not shown]
< HTTP/1.1 200 OK
< Content-Type: application/json; charset=utf-8
< Transfer-Encoding: chunked
< Connection: keep-alive
< Status: 200 OK
< Access-Control-Allow-Origin: *
< Access-Control-Allow-Methods: GET, HEAD, PUT, POST, DELETE
< Access-Control-Allow-Headers: Authorization
< Access-Control-Max-Age: 86486400
< X-UA-Compatible: IE=Edge,chrome=1
< ETag: "fbb50d2847426eab793e3fcf346ca9eb"
< Cache-Control: max-age=0, private, must-revalidate
< Set-Cookie: _server_session=BAh7BkkiD3Nlc3Npb25faWQGOgZFVEkiJWI3NjFjMzVjMGI5OGExYmNjZDg0ZTg5MjZhMzcwMDE1BjsAVA%3D%3D--0e005d71fad15cb366e47361c38474b7447ba155; path=/; HttpOnly
< X-Request-Id: 76d3cb3c0995af6133b0a73a64f57354
< X-Runtime: 0.030756
< X-Powered-By: Phusion Passenger 4.0.41
< Date: Fri, 28 Oct 2016 19:15:16 GMT
< Server: nginx/1.4.7 + Phusion Passenger 4.0.41
<
{
"href": "/collections/962eh-4zz18-xi32mpz2621o8km",
"kind": "arvados#collection",
"etag": "51509hhxo9qqjxqewnoz1b7og",
"uuid": "962eh-4zz18-xi32mpz2621o8km",
"owner_uuid": "962eh-tpzed-000000000000000",
"created_at": "2016-10-27T14:47:43.792587000Z",
"modified_by_client_uuid": "962eh-ozdt8-lm5x8emraox8epg",
"modified_by_user_uuid": "962eh-tpzed-000000000000000",
"modified_at": "2016-10-28T19:15:16.137814000Z",
"name": "rna.SRR948778.bam",
"description": null,
"properties": {},
"portable_data_hash": "93a45073511646a5c3e2f4953fcf6f61+116",
"manifest_text": ". eff999f3b5158331eb44a9a93e3b36e1+67108864+Acca57af82cc18c5dfa47bdfd16e335fccd09dfa5@582618c4 db141bfd11f7da60dce9e5ee85a988b8+34038725+A7764f122f41f92c2d5bde1852fcdd1bea5f8bd78@582618c4 0:101147589:rna.SRR948778.bam\n",
"replication_desired": null,
"replication_confirmed": null,
"replication_confirmed_at": null,
"expires_at": null
}
The content of this documentation is licensed under the
Creative
Commons Attribution-Share Alike 3.0 United States licence.
Code samples in this documentation are licensed under the
Apache License, Version 2.0.