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api.py
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# !/usr/bin/env python
# -*- coding: utf-8 -*-
"""Dataverse API wrapper for all it's API's."""
from __future__ import absolute_import
import subprocess as sp
from requests import ConnectionError, delete, get, post, put
from pyDataverse.exceptions import (
ApiAuthorizationError,
ApiUrlError,
DatasetNotFoundError,
DataverseNotEmptyError,
DataverseNotFoundError,
OperationFailedError,
)
class Api:
"""Base class.
Parameters
----------
base_url : str
Base URL of Dataverse instance. Without trailing `/` at the end.
e.g. `http://demo.dataverse.org`
api_token : str
Authenication token for the api.
Attributes
----------
base_url
api_token
dataverse_version
"""
def __init__(self, base_url, api_token=None, api_version="latest"):
"""Init an Api() class.
Scheme, host and path combined create the base-url for the api.
See more about URL at `Wikipedia <https://en.wikipedia.org/wiki/URL>`_.
Parameters
----------
base_url : str
Base url for Dataverse api.
api_token : str
Api token for Dataverse api.
Examples
-------
Create an Api connection::
>>> from pyDataverse.api import Api
>>> base_url = 'http://demo.dataverse.org'
>>> api = Api(base_url)
>>> api.status
'OK'
"""
if not isinstance(base_url, ("".__class__, "".__class__)):
raise ApiUrlError("base_url {0} is not a string.".format(base_url))
self.base_url = base_url
if not isinstance(api_version, ("".__class__, "".__class__)):
raise ApiUrlError("api_version {0} is not a string.".format(api_version))
self.api_version = api_version
if api_token:
if not isinstance(api_token, ("".__class__, "".__class__)):
raise ApiAuthorizationError("Api token passed is not a string.")
self.api_token = api_token
if self.base_url:
if self.api_version == "latest":
self.base_url_api = "{0}/api".format(self.base_url)
else:
self.base_url_api = "{0}/api/{1}".format(
self.base_url, self.api_version
)
else:
self.base_url_api = None
self.timeout = 500
def __str__(self):
"""Return name of Api() class for users.
Returns
-------
str
Naming of the API class.
"""
return "API: {0}".format(self.base_url_api)
def get_request(self, url, params=None, auth=False):
"""Make a GET request.
Parameters
----------
url : str
Full URL.
params : dict
Dictionary of parameters to be passed with the request.
Defaults to `None`.
auth : bool
Should an api token be sent in the request. Defaults to `False`.
Returns
-------
class:`requests.Response`
Response object of requests library.
"""
if auth:
if self.api_token:
if not params:
params = {}
params["key"] = str(self.api_token)
else:
raise ApiAuthorizationError(
"ERROR: GET - Api token not passed to `get_request` {0}.".format(
url
)
)
try:
resp = get(url, params=params)
if resp.status_code == 401:
error_msg = resp.json()["message"]
raise ApiAuthorizationError(
"ERROR: GET - Authorization invalid {0}. MSG: {1}.".format(
url, error_msg
)
)
elif resp.status_code >= 300:
if resp.text:
error_msg = resp.text
raise OperationFailedError(
"ERROR: GET HTTP {0} - {1}. MSG: {2}".format(
resp.status_code, url, error_msg
)
)
return resp
except ConnectionError:
raise ConnectionError(
"ERROR: GET - Could not establish connection to api {0}.".format(url)
)
def post_request(self, url, data=None, auth=False, params=None, files=None):
"""Make a POST request.
params will be added as key-value pairs to the URL.
Parameters
----------
url : str
Full URL.
data : str
Metadata as a json-formatted string. Defaults to `None`.
auth : bool
Should an api token be sent in the request. Defaults to `False`.
files: dict
e. g. files = {'file': open('sample_file.txt','rb')}
params : dict
Dictionary of parameters to be passed with the request.
Defaults to `None`.
Returns
-------
requests.Response
Response object of requests library.
"""
if auth:
if self.api_token:
if not params:
params = {}
params["key"] = self.api_token
else:
raise ApiAuthorizationError("ERROR: POST - Api token not available.")
try:
resp = post(url, data=data, params=params, files=files)
if resp.status_code == 401:
error_msg = resp.json()["message"]
raise ApiAuthorizationError(
"ERROR: POST HTTP 401 - Authorization error {0}. MSG: {1}".format(
url, error_msg
)
)
return resp
except ConnectionError:
raise ConnectionError(
"ERROR: POST - Could not establish connection to API: {0}".format(url)
)
def put_request(self, url, data=None, auth=False, params=None):
"""Make a PUT request.
Parameters
----------
url : str
Full URL.
data : str
Metadata as a json-formatted string. Defaults to `None`.
auth : bool
Should an api token be sent in the request. Defaults to `False`.
params : dict
Dictionary of parameters to be passed with the request.
Defaults to `None`.
Returns
-------
requests.Response
Response object of requests library.
"""
if auth:
if self.api_token:
if not params:
params = {}
params["key"] = self.api_token
else:
raise ApiAuthorizationError(
"ERROR: PUT - Api token not passed to `put_request` {0}.".format(
url
)
)
try:
resp = put(url, data=data, params=params)
if resp.status_code == 401:
error_msg = resp.json()["message"]
raise ApiAuthorizationError(
"ERROR: PUT HTTP 401 - Authorization error {0}. MSG: {1}".format(
url, error_msg
)
)
return resp
except ConnectionError:
raise ConnectionError(
"ERROR: PUT - Could not establish connection to api '{0}'.".format(url)
)
def delete_request(self, url, auth=False, params=None):
"""Make a Delete request.
Parameters
----------
url : str
Full URL.
auth : bool
Should an api token be sent in the request. Defaults to `False`.
params : dict
Dictionary of parameters to be passed with the request.
Defaults to `None`.
Returns
-------
requests.Response
Response object of requests library.
"""
if auth:
if self.api_token:
if not params:
params = {}
params["key"] = self.api_token
else:
raise ApiAuthorizationError(
"ERROR: DELETE - Api token not passed to `delete_request` {0}.".format(
url
)
)
try:
return delete(url, params=params)
except ConnectionError:
raise ConnectionError(
"ERROR: DELETE could not establish connection to api {}.".format(url)
)
class DataAccessApi(Api):
"""Class to access Dataverse's Data Access API.
Examples
-------
Examples should be written in doctest format, and
should illustrate how to use the function/class.
>>>
Attributes
----------
base_url_api_data_access : type
Description of attribute `base_url_api_data_access`.
base_url : type
Description of attribute `base_url`.
"""
def __init__(self, base_url, api_token=None):
"""Init an DataAccessApi() class."""
super().__init__(base_url, api_token)
if base_url:
self.base_url_api_data_access = "{0}/access".format(self.base_url_api)
else:
self.base_url_api_data_access = self.base_url_api
def __str__(self):
"""Return name of DataAccessApi() class for users.
Returns
-------
str
Naming of the DataAccess API class.
"""
return "Data Access API: {0}".format(self.base_url_api_data_access)
def get_datafile(
self,
identifier,
data_format=None,
no_var_header=None,
image_thumb=None,
is_pid=True,
auth=False,
):
"""Download a datafile via the Dataverse Data Access API.
Get by file id (HTTP Request).
.. code-block:: bash
GET /api/access/datafile/$id
Get by persistent identifier (HTTP Request).
.. code-block:: bash
GET http://$SERVER/api/access/datafile/:persistentId/?persistentId=doi:10.5072/FK2/J8SJZB
Parameters
----------
identifier : str
Identifier of the datafile. Can be datafile id or persistent
identifier of the datafile (e. g. doi).
is_pid : bool
``True`` to use persistent identifier. ``False``, if not.
Returns
-------
requests.Response
Response object of requests library.
"""
is_first_param = True
if is_pid:
url = "{0}/datafile/{1}".format(self.base_url_api_data_access, identifier)
if data_format or no_var_header or image_thumb:
url += "?"
else:
url = "{0}/datafile/:persistentId/?persistentId={1}".format(
self.base_url_api_data_access, identifier
)
if data_format:
url += "format={0}".format(data_format)
is_first_param = False
if no_var_header:
if not is_first_param:
url += "&"
url += "noVarHeader={0}".format(no_var_header)
is_first_param = False
if image_thumb:
if not is_first_param:
url += "&"
url += "imageThumb={0}".format(image_thumb)
return self.get_request(url, auth=auth)
def get_datafiles(self, identifier, data_format=None, auth=False):
"""Download a datafile via the Dataverse Data Access API.
Get by file id (HTTP Request).
.. code-block:: bash
GET /api/access/datafiles/$id1,$id2,...$idN
Get by persistent identifier (HTTP Request).
Parameters
----------
identifier : str
Identifier of the dataset. Can be datafile id or persistent
identifier of the datafile (e. g. doi).
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/datafiles/{1}".format(self.base_url_api_data_access, identifier)
if data_format:
url += "?format={0}".format(data_format)
return self.get_request(url, auth=auth)
def get_datafile_bundle(self, identifier, file_metadata_id=None, auth=False):
"""Download a datafile in all its formats.
HTTP Request:
.. code-block:: bash
GET /api/access/datafile/bundle/$id
Data Access API calls can now be made using persistent identifiers (in
addition to database ids). This is done by passing the constant
:persistentId where the numeric id of the file is expected, and then
passing the actual persistent id as a query parameter with the name
persistentId.
This is a convenience packaging method available for tabular data
files. It returns a zipped bundle that contains the data in the
following formats:
- Tab-delimited;
- “Saved Original”, the proprietary (SPSS, Stata, R, etc.) file
from which the tabular data was ingested;
- Generated R Data frame (unless the “original” above was in R);
- Data (Variable) metadata record, in DDI XML;
- File citation, in Endnote and RIS formats.
Parameters
----------
identifier : str
Identifier of the dataset.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/datafile/bundle/{1}".format(
self.base_url_api_data_access, identifier
)
if file_metadata_id:
url += "?fileMetadataId={0}".format(file_metadata_id)
return self.get_request(url, auth=auth)
def request_access(self, identifier, auth=True, is_filepid=False):
"""
This method requests access to the datafile whose id is passed on the behalf of an authenticated user whose key is passed. Note that not all datasets allow access requests to restricted files.
/api/access/datafile/$id/requestAccess
curl -H "X-Dataverse-key:$API_TOKEN" -X PUT http://$SERVER/api/access/datafile/{id}/requestAccess
"""
if is_filepid:
url = "{0}/datafile/:persistentId/requestAccess?persistentId={1}".format(
self.base_url_api_data_access, identifier
)
else:
url = "{0}/datafile/{1}/requestAccess".format(
self.base_url_api_data_access, identifier
)
return self.put_request(url, auth=auth)
def allow_access_request(self, identifier, do_allow=True, auth=True, is_pid=True):
"""
curl -H "X-Dataverse-key:$API_TOKEN" -X PUT -d true http://$SERVER/api/access/{id}/allowAccessRequest
curl -H "X-Dataverse-key:$API_TOKEN" -X PUT -d true http://$SERVER/api/access/:persistentId/allowAccessRequest?persistentId={pid}
"""
if is_pid:
url = "{0}/:persistentId/allowAccessRequest?persistentId={1}".format(
self.base_url_api_data_access, identifier
)
else:
url = "{0}/{1}/allowAccessRequest".format(
self.base_url_api_data_access, identifier
)
if do_allow:
data = "true"
else:
data = "false"
return self.put_request(url, data=data, auth=auth)
def grant_file_access(self, identifier, user, auth=False):
"""
curl -H "X-Dataverse-key:$API_TOKEN" -X PUT http://$SERVER/api/access/datafile/{id}/grantAccess/{@userIdentifier}
"""
url = "{0}/datafile/{1}/grantAccess/{2}".format(
self.base_url_api_data_access, identifier, user
)
return self.put_request(url, auth=auth)
def list_file_access_requests(self, identifier, auth=False):
"""
curl -H "X-Dataverse-key:$API_TOKEN" -X GET http://$SERVER/api/access/datafile/{id}/listRequests
"""
url = "{0}/datafile/{1}/listRequests".format(
self.base_url_api_data_access, identifier
)
return self.get_request(url, auth=auth)
class MetricsApi(Api):
"""Class to access Dataverse's Metrics API.
Attributes
----------
base_url_api_metrics : type
Description of attribute `base_url_api_metrics`.
base_url : type
Description of attribute `base_url`.
"""
def __init__(self, base_url, api_token=None, api_version="latest"):
"""Init an MetricsApi() class."""
super().__init__(base_url, api_token, api_version)
if base_url:
self.base_url_api_metrics = "{0}/api/info/metrics".format(self.base_url)
else:
self.base_url_api_metrics = None
def __str__(self):
"""Return name of MetricsApi() class for users.
Returns
-------
str
Naming of the MetricsApi() class.
"""
return "Metrics API: {0}".format(self.base_url_api_metrics)
def total(self, data_type, date_str=None, auth=False):
"""
GET https://$SERVER/api/info/metrics/$type
GET https://$SERVER/api/info/metrics/$type/toMonth/$YYYY-DD
$type can be set to dataverses, datasets, files or downloads.
"""
url = "{0}/{1}".format(self.base_url_api_metrics, data_type)
if date_str:
url += "/toMonth/{0}".format(date_str)
return self.get_request(url, auth=auth)
def past_days(self, data_type, days_str, auth=False):
"""
http://guides.dataverse.org/en/4.18.1/api/metrics.html
GET https://$SERVER/api/info/metrics/$type/pastDays/$days
$type can be set to dataverses, datasets, files or downloads.
"""
# TODO: check if date-string has proper format
url = "{0}/{1}/pastDays/{2}".format(
self.base_url_api_metrics, data_type, days_str
)
return self.get_request(url, auth=auth)
def get_dataverses_by_subject(self, auth=False):
"""
GET https://$SERVER/api/info/metrics/dataverses/bySubject
$type can be set to dataverses, datasets, files or downloads.
"""
# TODO: check if date-string has proper format
url = "{0}/dataverses/bySubject".format(self.base_url_api_metrics)
return self.get_request(url, auth=auth)
def get_dataverses_by_category(self, auth=False):
"""
GET https://$SERVER/api/info/metrics/dataverses/byCategory
$type can be set to dataverses, datasets, files or downloads.
"""
# TODO: check if date-string has proper format
url = "{0}/dataverses/byCategory".format(self.base_url_api_metrics)
return self.get_request(url, auth=auth)
def get_datasets_by_subject(self, date_str=None, auth=False):
"""
GET https://$SERVER/api/info/metrics/datasets/bySubject
$type can be set to dataverses, datasets, files or downloads.
"""
# TODO: check if date-string has proper format
url = "{0}/datasets/bySubject".format(self.base_url_api_metrics)
if date_str:
url += "/toMonth/{0}".format(date_str)
return self.get_request(url, auth=auth)
def get_datasets_by_data_location(self, data_location, auth=False):
"""
GET https://$SERVER/api/info/metrics/datasets/bySubject
$type can be set to dataverses, datasets, files or downloads.
"""
# TODO: check if date-string has proper format
url = "{0}/datasets/?dataLocation={1}".format(
self.base_url_api_metrics, data_location
)
return self.get_request(url, auth=auth)
class NativeApi(Api):
"""Class to access Dataverse's Native API.
Parameters
----------
base_url : type
Description of parameter `base_url`.
api_token : type
Description of parameter `api_token`.
api_version : type
Description of parameter `api_version`.
Attributes
----------
base_url_api_native : type
Description of attribute `base_url_api_native`.
base_url_api : type
Description of attribute `base_url_api`.
"""
def __init__(self, base_url, api_token=None, api_version="v1"):
"""Init an Api() class.
Scheme, host and path combined create the base-url for the api.
See more about URL at `Wikipedia <https://en.wikipedia.org/wiki/URL>`_.
Parameters
----------
native_api_version : str
Api version of Dataverse native api. Default is `v1`.
"""
super().__init__(base_url, api_token, api_version)
self.base_url_api_native = self.base_url_api
def __str__(self):
"""Return name of NativeApi() class for users.
Returns
-------
str
Naming of the NativeApi() class.
"""
return "Native API: {0}".format(self.base_url_api_native)
def get_dataverse(self, identifier, auth=False):
"""Get dataverse metadata by alias or id.
View metadata about a dataverse.
.. code-block:: bash
GET http://$SERVER/api/dataverses/$id
Parameters
----------
identifier : str
Can either be a dataverse id (long), a dataverse alias (more
robust), or the special value ``:root``.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}".format(self.base_url_api_native, identifier)
return self.get_request(url, auth=auth)
def create_dataverse(self, identifier, metadata, auth=True, parent=":root"):
"""Create a dataverse.
Generates a new dataverse under identifier. Expects a JSON content
describing the dataverse.
HTTP Request:
.. code-block:: bash
POST http://$SERVER/api/dataverses/$id
Download the `dataverse.json <http://guides.dataverse.org/en/latest/
_downloads/dataverse-complete.json>`_ example file and modify to create
dataverses to suit your needs. The fields name, alias, and
dataverseContacts are required.
Status Codes:
200: dataverse created
201: dataverse created
Parameters
----------
identifier : str
Can either be a dataverse id (long) or a dataverse alias (more
robust). If identifier is omitted, a root dataverse is created.
metadata : str
Metadata of the Dataverse as a json-formatted string.
auth : bool
True if api authorization is necessary. Defaults to ``True``.
parent : str
Parent dataverse, if existing, to which the Dataverse gets attached
to. Defaults to ``:root``.
Returns
-------
requests.Response
Response object of requests library.
"""
if not parent:
raise DataverseNotFoundError(
"Dataverse '{0}' not found. No parent dataverse passed to"
" `create_dataverse()`.".format(identifier)
)
url = "{0}/dataverses/{1}".format(self.base_url_api_native, parent)
resp = self.post_request(url, metadata, auth)
if resp.status_code == 404:
error_msg = resp.json()["message"]
raise DataverseNotFoundError(
"ERROR: HTTP 404 - Dataverse {0} was not found. MSG: {1}".format(
parent, error_msg
)
)
elif resp.status_code != 200 and resp.status_code != 201:
error_msg = resp.json()["message"]
raise OperationFailedError(
"ERROR: HTTP {0} - Dataverse {1} could not be created. MSG: {2}".format(
resp.status_code, identifier, error_msg
)
)
else:
print("Dataverse {0} created.".format(identifier))
return resp
def publish_dataverse(self, identifier, auth=True):
"""Publish a dataverse.
Publish the Dataverse pointed by identifier, which can either by the
dataverse alias or its numerical id.
HTTP Request:
.. code-block:: bash
POST http://$SERVER/api/dataverses/$identifier/actions/:publish
Status Code:
200: Dataverse published
Parameters
----------
identifier : str
Can either be a dataverse id (long) or a dataverse alias (more
robust).
auth : bool
True if api authorization is necessary. Defaults to ``False``.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}/actions/:publish".format(
self.base_url_api_native, identifier
)
resp = self.post_request(url, auth=auth)
if resp.status_code == 401:
error_msg = resp.json()["message"]
raise ApiAuthorizationError(
"ERROR: HTTP 401 - Publish Dataverse {0} unauthorized. MSG: {1}".format(
identifier, error_msg
)
)
elif resp.status_code == 404:
error_msg = resp.json()["message"]
raise DataverseNotFoundError(
"ERROR: HTTP 404 - Dataverse {0} was not found. MSG: {1}".format(
identifier, error_msg
)
)
elif resp.status_code != 200:
error_msg = resp.json()["message"]
raise OperationFailedError(
"ERROR: HTTP {0} - Dataverse {1} could not be published. MSG: {2}".format(
resp.status_code, identifier, error_msg
)
)
elif resp.status_code == 200:
print("Dataverse {0} published.".format(identifier))
return resp
def delete_dataverse(self, identifier, auth=True):
"""Delete dataverse by alias or id.
Status Code:
200: Dataverse deleted
Parameters
----------
identifier : str
Can either be a dataverse id (long) or a dataverse alias (more
robust).
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}".format(self.base_url_api_native, identifier)
resp = self.delete_request(url, auth)
if resp.status_code == 401:
error_msg = resp.json()["message"]
raise ApiAuthorizationError(
"ERROR: HTTP 401 - Delete Dataverse {0} unauthorized. MSG: {1}".format(
identifier, error_msg
)
)
elif resp.status_code == 404:
error_msg = resp.json()["message"]
raise DataverseNotFoundError(
"ERROR: HTTP 404 - Dataverse {0} was not found. MSG: {1}".format(
identifier, error_msg
)
)
elif resp.status_code == 403:
error_msg = resp.json()["message"]
raise DataverseNotEmptyError(
"ERROR: HTTP 403 - Dataverse {0} not empty. MSG: {1}".format(
identifier, error_msg
)
)
elif resp.status_code != 200:
error_msg = resp.json()["message"]
raise OperationFailedError(
"ERROR: HTTP {0} - Dataverse {1} could not be deleted. MSG: {2}".format(
resp.status_code, identifier, error_msg
)
)
elif resp.status_code == 200:
print("Dataverse {0} deleted.".format(identifier))
return resp
def get_dataverse_roles(self, identifier, auth=False):
"""Get dataverse roles by alias or id.
View roles of a dataverse.
.. code-block:: bash
GET http://$SERVER/api/dataverses/$id/roles
Parameters
----------
identifier : str
Can either be a dataverse id (long), a dataverse alias (more
robust), or the special value ``:root``.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}/roles".format(self.base_url_api_native, identifier)
return self.get_request(url, auth=auth)
def get_dataverse_contents(self, identifier, auth=False):
"""Gets contents of Dataverse.
Parameters
----------
identifier : str
Can either be a dataverse id (long), a dataverse alias (more
robust), or the special value ``:root``.
auth : bool
Description of parameter `auth` (the default is False).
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}/contents".format(self.base_url_api_native, identifier)
return self.get_request(url, auth=auth)
def get_dataverse_assignments(self, identifier, auth=False):
"""Get dataverse assignments by alias or id.
View assignments of a dataverse.
.. code-block:: bash
GET http://$SERVER/api/dataverses/$id/assignments
Parameters
----------
identifier : str
Can either be a dataverse id (long), a dataverse alias (more
robust), or the special value ``:root``.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}/assignments".format(
self.base_url_api_native, identifier
)
return self.get_request(url, auth=auth)
def get_dataverse_facets(self, identifier, auth=False):
"""Get dataverse facets by alias or id.
View facets of a dataverse.
.. code-block:: bash
GET http://$SERVER/api/dataverses/$id/facets
Parameters
----------
identifier : str
Can either be a dataverse id (long), a dataverse alias (more
robust), or the special value ``:root``.
Returns
-------
requests.Response
Response object of requests library.
"""
url = "{0}/dataverses/{1}/facets".format(self.base_url_api_native, identifier)
return self.get_request(url, auth=auth)
def dataverse_id2alias(self, dataverse_id):
"""Converts a Dataverse ID to an alias.
Parameters
----------
dataverse_id : str
Dataverse ID.
Returns
-------
str
Dataverse alias
"""
resp = self.get_dataverse(dataverse_id)
if "data" in resp.json():
if "alias" in resp.json()["data"]:
return resp.json()["data"]["alias"]
print("ERROR: Can not resolve Dataverse ID to alias.")
return False
def get_dataset(self, identifier, version=":latest", auth=True, is_pid=True):
"""Get metadata of a Dataset.
With Dataverse identifier:
.. code-block:: bash
GET http://$SERVER/api/datasets/$identifier
With persistent identifier:
.. code-block:: bash
GET http://$SERVER/api/datasets/:persistentId/?persistentId=$id
GET http://$SERVER/api/datasets/:persistentId/
?persistentId=$pid
Parameters
----------
identifier : str
Identifier of the dataset. Can be a Dataverse identifier or a