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fhirclientr4e-4.0.8
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مشاهده بیشترتوضیحات
A flexible client for FHIR servers supporting the SMART on FHIR protocol
| ویژگی | مقدار |
|---|---|
| سیستم عامل | - |
| نام فایل | fhirclientr4e-4.0.8 |
| نام | fhirclientr4e |
| نسخه کتابخانه | 4.0.8 |
| نگهدارنده | [] |
| ایمیل نگهدارنده | [] |
| نویسنده | SMART Platforms Team |
| ایمیل نویسنده | support@smarthealthit.org |
| آدرس صفحه اصلی | https://github.com/bmeg/client-py |
| آدرس اینترنتی | https://pypi.org/project/fhirclientr4e/ |
| مجوز | APACHE2 |
Note: Forked changes:
-------------------
* Adds embedded schema elements: (attribute_docstrings, attribute_enums)
* Validates required enums
* Workaround for FHIR R4: https://github.com/smart-on-fhir/client-py/issues/70 from @gitpushdash (thanks!)
SMART FHIR Client
=================
This is _fhirclient_, a flexible Python client for [FHIR][] servers supporting the [SMART on FHIR][smart] protocol.
The client is compatible with Python 2.7.10 and Python 3.
Client versioning is not identical to FHIR versioning.
The `master` branch is usually on the latest version of the client as shown below, possibly on bugfix releases thereof.
The `develop` branch should be on recent freezes, and the `feature/latest-ci` branch is periodically updated to the latest FHIR continuous integration builds.
Version | FHIR |
-----------|---------------|---------
**4.0.0** | `4.0.0` | (R4)
**3.0.0** | `3.0.0` | (STU-3)
**x.x** | `1.8.0` | (STU-3 Ballot, Jan 2017)
**x.x** | `1.6.0` | (STU-3 Ballot, Sep 2016)
**1.0.3** | `1.0.2` | (DSTU 2)
**1.0** | `1.0.1` | (DSTU 2)
**0.5** | `0.5.0.5149` | (DSTU 2 Ballot, May 2015)
**0.0.4** | `0.0.82.2943` | (DSTU 1)
**0.0.3** | `0.0.82.2943` | (DSTU 1)
**0.0.2** | `0.0.82.2943` | (DSTU 1)
Installation
------------
pip install fhirclient
Documentation
-------------
Technical documentation is available at [docs.smarthealthit.org/client-py/][docs].
### Client Use
To connect to a SMART on FHIR server (or any open FHIR server), you can use the `FHIRClient` class.
It will initialize and handle a `FHIRServer` instance, your actual handle to the FHIR server you'd like to access.
##### Read Data from Server
To read a given patient from an open FHIR server, you can use:
```python
from fhirclient import client
settings = {
'app_id': 'my_web_app',
'api_base': 'https://fhir-open-api-dstu2.smarthealthit.org'
}
smart = client.FHIRClient(settings=settings)
import fhirclient.models.patient as p
patient = p.Patient.read('hca-pat-1', smart.server)
patient.birthDate.isostring
# '1963-06-12'
smart.human_name(patient.name[0])
# 'Christy Ebert'
```
If this is a protected server, you will first have to send your user to the authorize endpoint to log in.
Just call `smart.authorize_url` to obtain the correct URL.
You can use `smart.prepare()`, which will return `False` if the server is protected and you need to authorize.
The `smart.ready` property has the same purpose, it will however not retrieve the server's _CapabilityStatement_ resource and hence is only useful as a quick check whether the server instance is ready.
```python
smart = client.FHIRClient(settings=settings)
smart.ready
# prints `False`
smart.prepare()
# prints `True` after fetching CapabilityStatement
smart.ready
# prints `True`
smart.prepare()
# prints `True` immediately
smart.authorize_url
# is `None`
```
You can work with the `FHIRServer` class directly, without using `FHIRClient`, but this is not recommended:
```python
smart = server.FHIRServer(None, 'https://fhir-open-api-dstu2.smarthealthit.org')
import fhirclient.models.patient as p
patient = p.Patient.read('hca-pat-1', smart)
patient.name[0].given
# ['Christy']
```
##### Search Records on Server
You can also search for resources matching a particular set of criteria:
```python
smart = client.FHIRClient(settings=settings)
import fhirclient.models.procedure as p
search = p.Procedure.where(struct={'subject': 'hca-pat-1', 'status': 'completed'})
procedures = search.perform_resources(smart.server)
for procedure in procedures:
procedure.as_json()
# {'status': u'completed', 'code': {'text': u'Lumpectomy w/ SN', ...
# to include the resources referred to by the procedure via `subject` in the results
search = search.include('subject')
# to include the MedicationAdministration resources which refer to the procedure via `partOf`
import fhirclient.models.medicationadministration as m
search = search.include('partOf', m.MedicationAdministration, reverse=True)
# to get the raw Bundle instead of resources only, you can use:
bundle = search.perform(smart.server)
```
### Data Model Use
The client contains data model classes, built using [fhir-parser][], that handle (de)serialization and allow to work with FHIR data in a Pythonic way.
Starting with version 1.0.5, data model validity are enforced to a certain degree.
#### Initialize Data Model
```python
import fhirclient.models.patient as p
import fhirclient.models.humanname as hn
patient = p.Patient({'id': 'patient-1'})
patient.id
# prints `patient-1`
name = hn.HumanName()
name.given = ['Peter']
name.family = 'Parker'
patient.name = [name]
patient.as_json()
# prints patient's JSON representation, now with id and name
name.given = 'Peter'
patient.as_json()
# throws FHIRValidationError:
# {root}:
# name:
# given:
# Expecting property "given" on <class 'fhirclient.models.humanname.HumanName'> to be list, but is <class 'str'>
```
##### Validation
```python
def testDictWithBadValue(self):
"""Should not be able to create ResearchStudy dict with unknown value."""
with self.assertRaises(FHIRValidationError) as err:
ResearchStudy({'status': 'foo-bar'})
expected_msg = 'Expecting property with required binding_strength "status" to be member of http://hl7.org/fhir/research-study-status is "foo-bar"'
assert expected_msg in str(err.exception), self.testDictWithBadValue.__doc__
```
##### Simplified Projection
`as_simplified_json()` is available on all classes that inherit from FHIRAbstractBase. It will remove much of the FHIR scaffolding. Simplifies:
- extensions
- single_item_lists
- codings
Returns -> tuple. A dict object with much of the FHIR scaffolding removed; A corresponding lite schema dict.
```python
```
#### Initialize from JSON file
```python
import json
import fhirclient.models.patient as p
with open('path/to/patient.json', 'r') as h:
pjs = json.load(h)
patient = p.Patient(pjs)
patient.name[0].given
# prints patient's given name array in the first `name` property
```
### Flask App
Take a look at [`flask_app.py`][flask_app] to see how you can use the client in a simple (Flask) app.
This app starts a webserver, listening on [_localhost:8000_](http://localhost:8000), and prompts you to login to our sandbox server and select a patient.
It then goes on to retrieve the selected patient's demographics and med prescriptions and lists them in a simple HTML page.
The Flask demo app has separate requirements.
Clone the _client-py_ repository, then best create a virtual environment and install the needed packages like so:
git clone https://github.com/smart-on-fhir/client-py.git
cd client-py
virtualenv -p python3 env
. env/bin/activate
pip install -r requirements_flask_app.txt
python flask_app.py
Building Distribution
---------------------
rm -r dist/ ; python3 setup.py sdist bdist_wheel
twine upload dist/*
### Incrementing the lib version
bumpversion patch
bumpversion minor
bumpversion major
Note: if unable to use bumpversion , manually set fhirclient/client.py
Docs Generation
---------------
Docs are generated with [Doxygen][] and [doxypypy][].
You can install doxypypy via pip: `pip install doxypypy`.
Then you can just run Doxygen, configuration is stored in the `Doxyfile`.
Running Doxygen will put the generated documentation into `docs`, the HTML files into `docs/html`.
Those files make up the content of the `gh-pages` branch.
I usually perform a second checkout of the _gh-pages_ branch and copy the html files over, with:
doxygen
rsync -a docs/html/ ../client-py-web/
PyPi Publishing (notes for SMART team)
--------------------------------------
Using setuptools (*Note*: Alternatively, you can use twine https://pypi.python.org/pypi/twine/):
### Make sure that you have the PyPi account credentials in your account
copy server.smarthealthit.org:/home/fhir/.pypirc to ~/.pypirc
### Test the build
python setup.py sdist
python setup.py bdist_wheel
### Upload the packages to PyPi
python setup.py sdist upload -r pypi
python setup.py bdist_wheel upload -r pypi
[fhir]: http://www.hl7.org/implement/standards/fhir/
[smart]: http://docs.smarthealthit.org
[fhir-parser]: https://github.com/smart-on-fhir/fhir-parser
[docs]: https://smart-on-fhir.github.io/client-py
[flask_app]: https://github.com/smart-on-fhir/client-py/blob/master/flask_app.py
[doxygen]: http://www.stack.nl/~dimitri/doxygen
[doxypypy]: https://github.com/Feneric/doxypypy
Credits
=======
“fhirclient” is written and maintained by the SMART Platforms Team / Boston Children's Hospital.
Contributors
------------
The following wonderful people contributed directly or indirectly to this project:
- Andrew Bjonnes <https://github.com/abjonnes>
- Erik Wiffin <https://github.com/erikwiffin>
- Josh Mandel <https://github.com/jmandel>
- Nikolai Schwertner <https://github.com/nschwertner>
- Pascal Pfiffner <https://github.com/p2>
- Raheel Sayeed <https://github.com/raheelsayeed>
- Trinadh Baranika <https://github.com/bktrinadh>
Please add yourself here alphabetically when you submit your first pull request.
نیازمندی
| مقدار | نام |
|---|---|
| - | requests |
| - | isodate |
نحوه نصب
نصب پکیج whl fhirclientr4e-4.0.8:
pip install fhirclientr4e-4.0.8.whl
نصب پکیج tar.gz fhirclientr4e-4.0.8:
pip install fhirclientr4e-4.0.8.tar.gz