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https://github.com/pydicom/pynetdicom
A Python implementation of the DICOM networking protocol
https://github.com/pydicom/pynetdicom
dicom networking pydicom python
Last synced: 12 days ago
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A Python implementation of the DICOM networking protocol
- Host: GitHub
- URL: https://github.com/pydicom/pynetdicom
- Owner: pydicom
- License: mit
- Created: 2016-09-28T07:18:02.000Z (almost 8 years ago)
- Default Branch: main
- Last Pushed: 2024-05-22T22:23:43.000Z (about 1 month ago)
- Last Synced: 2024-05-22T23:29:30.161Z (about 1 month ago)
- Topics: dicom, networking, pydicom, python
- Language: Python
- Homepage: https://pydicom.github.io/pynetdicom
- Size: 56.8 MB
- Stars: 481
- Watchers: 34
- Forks: 171
- Open Issues: 14
-
Metadata Files:
- Readme: README.rst
- Contributing: CONTRIBUTING.md
Lists
- awesome-HealthIT - PyNetDICOM - A Python implementation of the DICOM networking protocol (Uncategorized / Uncategorized)
- awesome-medphys - pynetdicom -  A Python implementation of the DICOM networking protocol, originally based on (legacy) pynetdicom. (Libraries)
- awesome-dicom - pynetdicom - A pure Python 3.7+ package that implements the DICOM networking protocol. Working with _pydicom_, it allows the easy creation of DICOM Service Class Users (SCUs) and Service Class Providers (SCPs). (Libraries / Python)
README
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pynetdicom
==========
A Python implementation of the `DICOM `_
networking protocol, originally based on (legacy)
`pynetdicom `_.
Description
-----------
`DICOM `_ is the international standard for
medical images and related information. It defines the formats and communication
protocols for media exchange in radiology, cardiology, radiotherapy and other
medical domains.
*pynetdicom* is a pure Python 3.7+ package that implements the DICOM
networking protocol. Working with
`pydicom `_, it allows the easy creation
of DICOM *Service Class Users* (SCUs) and *Service Class Providers* (SCPs).
*pynetdicom's* main user class is
`AE `_
and is used to represent a DICOM Application Entity. With it you can:
- Start the application as an SCP by specifying the supported presentation
contexts then calling
`AE.start_server() `_
and waiting for incoming association requests
- Use the application as an SCU by specifying the presentation contexts you
want the peer SCP to support, then requesting an association
via the
`AE.associate() `_
method, which returns an
`Association `_
thread.
Once associated, the services available to the association can
be used by sending
`DIMSE-C `_
and
`DIMSE-N `_
messages.
Documentation
-------------
The *pynetdicom*
`tutorials `_,
`user guide `_,
`code examples `_,
`application `_ and
`API reference `_
documentation is available for the
`current release `_ as well as the
`development version `_.
Installation
------------
Dependencies
~~~~~~~~~~~~
`pydicom `_
Installing current release
~~~~~~~~~~~~~~~~~~~~~~~~~~
Using pip:
.. code-block:: sh
pip install -U pynetdicom
Using conda:
.. code-block:: sh
conda install -c conda-forge pynetdicom
For more detailed instructions, including how to install the
current development version, please see the `installation guide
`_.
Supported DIMSE Services
------------------------
SCU Services
~~~~~~~~~~~~
When the AE is acting as an SCU and an association has been established with a
peer SCP, the following DIMSE-C and -N services are available:
.. _assoc: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html
.. _echo: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_c_echo
.. _find: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_c_find
.. _c_get: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_c_get
.. _move: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_c_move
.. _store: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_c_store
.. _action: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_action
.. _create: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_create
.. _delete: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_delete
.. _er: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_event_report
.. _n_get: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_get
.. _set: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom.association.Association.html#pynetdicom.association.Association.send_n_set
+----------------+----------------------------------------------------------------------------------------+
| DIMSE service | `Association `_ method |
+================+========================================================================================+
| C-ECHO | `Association.send_c_echo() `_ |
+----------------+----------------------------------------------------------------------------------------+
| C-FIND | `Association.send_c_find(dataset, query_model) `_ |
+----------------+----------------------------------------------------------------------------------------+
| C-GET | `Association.send_c_get(dataset, query_model) `_ |
+----------------+----------------------------------------------------------------------------------------+
| C-MOVE | `Association.send_c_move(dataset, move_aet, query_model) `_ |
+----------------+----------------------------------------------------------------------------------------+
| C-STORE | `Association.send_c_store(dataset) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-ACTION | `Association.send_n_action(dataset, action_type, class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-CREATE | `Association.send_n_create(dataset, class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-DELETE | `Association.send_n_delete(class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-EVENT-REPORT | `Association.send_n_event_report(dataset, event_type, class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-GET | `Association.send_n_get(identifier_list, class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
| N-SET | `Association.send_n_set(dataset, class_uid, instance_uid) `_ |
+----------------+----------------------------------------------------------------------------------------+
Where *dataset* is a pydicom
`Dataset `_
object, *query_model* is a UID string, *identifier_list* is a list of pydicom
`Tag `_
objects, *event_type* and *action_type* are ints and *class_uid* and
*instance_uid* are UID strings. See the
`Association documentation `_
for more information.
SCP Services
~~~~~~~~~~~~
When the AE is acting as an SCP the following DIMSE-C and -N services are
available to the peer once an association has been established:
.. _hecho: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_echo.html
.. _hfind: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_find.html
.. _hc_get: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_c_get.html
.. _hmove: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_move.html
.. _hstore: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_store.html
.. _haction: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_action.html
.. _hcreate: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_create.html
.. _hdelete: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_delete.html
.. _her: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_event_report.html
.. _hn_get: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_n_get.html
.. _hset: https://pydicom.github.io/pynetdicom/stable/reference/generated/pynetdicom._handlers.doc_handle_set.html
+----------------+----------------------------+---------------------------------+
| DIMSE service | Intervention Event | Handler documentation |
+================+============================+=================================+
| C-ECHO | ``evt.EVT_C_ECHO`` | `Handle C-ECHO `_ |
+----------------+----------------------------+---------------------------------+
| C-FIND | ``evt.EVT_C_FIND`` | `Handle C-FIND `_ |
+----------------+----------------------------+---------------------------------+
| C-GET | ``evt.EVT_C_GET`` | `Handle C-GET `_ |
+----------------+----------------------------+---------------------------------+
| C-MOVE | ``evt.EVT_C_MOVE`` | `Handle C-MOVE `_ |
+----------------+----------------------------+---------------------------------+
| C-STORE | ``evt.EVT_C_STORE`` | `Handle C-STORE `_ |
+----------------+----------------------------+---------------------------------+
| N-ACTION | ``evt.EVT_N_ACTION`` | `Handle N-ACTION `_ |
+----------------+----------------------------+---------------------------------+
| N-CREATE | ``evt.EVT_N_CREATE`` | `Handle N-CREATE `_ |
+----------------+----------------------------+---------------------------------+
| N-DELETE | ``evt.EVT_N_DELETE`` | `Handle N-DELETE `_ |
+----------------+----------------------------+---------------------------------+
| N-EVENT-REPORT | ``evt.EVT_N_EVENT_REPORT`` | `Handle N-EVENT-REPORT `_ |
+----------------+----------------------------+---------------------------------+
| N-GET | ``evt.EVT_N_GET`` | `Handle N-GET `_ |
+----------------+----------------------------+---------------------------------+
| N-SET | ``evt.EVT_N_SET`` | `Handle N-SET `_ |
+----------------+----------------------------+---------------------------------+
With the exception of the C-ECHO service, a user-defined callable function,
*handler*, must be bound to the corresponding
`intervention event `_
in order to complete a DIMSE service request. Events
can be imported with ``from pynetdicom import evt`` and a handler can be
bound to an event prior to starting an association through the *evt_handlers*
keyword arguments in
`AE.start_server() `_
and
`AE.associate() `_.
When an event occurs the *handler* function is called and passed a single
parameter, *event*, which is an
`Event `_
object whose specific attributes
are dependent on the type of event that occurred. Handlers bound to
intervention events must return or yield certain values. See the
`handler documentation `_
for information on what attributes and properties are available in ``Event``
for each event type and the expected returns/yields for the
corresponding handlers.
Applications
------------
Some basic DICOM applications are included with *pynetdicom*:
* `echoscp `_
* `echoscu `_
* `findscu `_
* `getscu `_
* `qrscp `_
(requires `sqlalchemy `_)
* `movescu `_
* `storescp `_
* `storescu `_
Code Examples
-------------
More
`code examples `_
are available in the documentation.
Echo SCU
~~~~~~~~
Send a C-ECHO request to a Verification SCP (at TCP/IP address
*addr*, listen port number *port*):
.. code-block:: python
from pynetdicom import AE
ae = AE(ae_title='MY_ECHO_SCU')
# Verification SOP Class has a UID of 1.2.840.10008.1.1
# we can use the UID str directly when adding the requested
# presentation context
ae.add_requested_context('1.2.840.10008.1.1')
# Associate with a peer AE
assoc = ae.associate(addr, port)
if assoc.is_established:
# Send a DIMSE C-ECHO request to the peer
status = assoc.send_c_echo()
# Print the response from the peer
if status:
print('C-ECHO Response: 0x{0:04x}'.format(status.Status))
# Release the association
assoc.release()
Echo SCP
~~~~~~~~
Create a blocking Echo SCP on port ``11112`` (you may optionally
bind a handler to the ``evt.EVT_C_ECHO`` event if you want to return something
other than an ``0x0000`` *Success* status):
.. code-block:: python
from pynetdicom import AE, VerificationPresentationContexts
ae = AE(ae_title='MY_ECHO_SCP')
# Or we can use the inbuilt VerificationPresentationContexts list,
# there's one for each of the supported Service Classes
# In this case, we are supporting any requests to use Verification SOP
# Class in the association
ae.supported_contexts = VerificationPresentationContexts
# Start the SCP on (host, port) in blocking mode
ae.start_server(("localhost", 11112), block=True)
Alternatively, you can start the SCP in non-blocking mode, which returns the
running server instance. This can be useful when you want to run a Storage SCP
and make C-MOVE requests within the same AE.
In the next example we'll create a non-blocking Verification SCP and bind a
handler for the C-ECHO service request event ``evt.EVT_C_ECHO`` that logs the
requestor's address and port number and the timestamp for the event.
.. code-block:: python
import logging
from pynetdicom import AE, evt, debug_logger
from pynetdicom.sop_class import Verification
# Setup logging to use the StreamHandler at the debug level
debug_logger()
ae = AE(ae_title='MY_ECHO_SCP')
ae.add_supported_context(Verification)
# Implement the EVT_C_ECHO handler
def handle_echo(event, logger):
"""Handle a C-ECHO service request.
Parameters
----------
event : evt.Event
The C-ECHO service request event, this parameter is always
present.
logger : logging.Logger
The logger to use, this parameter is only present because we
bound ``evt.EVT_C_ECHO`` using a 3-tuple.
Returns
-------
int or pydicom.dataset.Dataset
The status returned to the peer AE in the C-ECHO response.
Must be a valid C-ECHO status value as either an ``int`` or a
``Dataset`` object containing an (0000,0900) *Status* element.
"""
# Every *Event* includes `assoc` and `timestamp` attributes
# which are the *Association* instance the event occurred in
# and the *datetime.datetime* the event occurred at
requestor = event.assoc.requestor
timestamp = event.timestamp.strftime("%Y-%m-%d %H:%M:%S")
msg = (
"Received C-ECHO service request from ({}, {}) at {}"
.format(requestor.address, requestor.port, timestamp)
)
logger.info(msg)
# Return a *Success* status
return 0x0000
# By binding using a 3-tuple we can pass extra arguments to
# the handler
handlers = [(evt.EVT_C_ECHO, handle_echo, [logging.getLogger('pynetdicom')])]
# Start the SCP in non-blocking mode
scp = ae.start_server(("localhost", 11112), block=False, evt_handlers=handlers)
# Associate and send a C-ECHO request to our own Verification SCP
ae.add_requested_context(Verification)
assoc = ae.associate('localhost', 11112)
if assoc.is_established:
status = assoc.send_c_echo()
assoc.release()
# Shutdown the SCP
scp.shutdown()
Storage SCU
~~~~~~~~~~~
Send the DICOM *CT Image Storage* dataset in *file-in.dcm* to a peer Storage
SCP (at TCP/IP address *addr*, listen port number *port*):
.. code-block:: python
from pydicom import dcmread
from pydicom.uid import ImplicitVRLittleEndian
from pynetdicom import AE, VerificationPresentationContexts
from pynetdicom.sop_class import CTImageStorage, MRImageStorage
ae = AE(ae_title='MY_STORAGE_SCU')
# We can also do the same thing with the requested contexts
ae.requested_contexts = VerificationPresentationContexts
# Or we can use inbuilt objects like CTImageStorage.
# The requested presentation context's transfer syntaxes can also
# be specified using a str/UID or list of str/UIDs
ae.add_requested_context(CTImageStorage,
transfer_syntax=ImplicitVRLittleEndian)
# Adding a presentation context with multiple transfer syntaxes
ae.add_requested_context(MRImageStorage,
transfer_syntax=[ImplicitVRLittleEndian,
'1.2.840.10008.1.2.1'])
assoc = ae.associate(addr, port)
if assoc.is_established:
dataset = dcmread('file-in.dcm')
# `status` is the response from the peer to the store request
# but may be an empty pydicom Dataset if the peer timed out or
# sent an invalid dataset.
status = assoc.send_c_store(dataset)
assoc.release()