monai.deploy.operators.DICOMSeriesSelectorOperator

class monai.deploy.operators.DICOMSeriesSelectorOperator(fragment, *args, rules='', all_matched=False, sort_by_sop_instance_count=False, **kwargs)

Bases: holoscan.core.Operator

This operator selects a list of DICOM Series in a DICOM Study for a given set of selection rules.

Named input:

dicom_study_list: A list of DICOMStudy objects.

Named output:

study_selected_series_list: A list of StudySelectedSeries objects. Downstream receiver optional.

This class can be considered a base class, and a derived class can override the ‘filter’ function to with custom logics.

In its default implementation, this class

1. selects a series or all matched series within the scope of a study in a list of studies

2. uses rules defined in JSON string, see below for details

3. supports DICOM Study and Series module attribute matching

4. supports multiple named selections, in the scope of each DICOM study

5. outputs a list of SutdySelectedSeries objects, as well as a flat list of SelectedSeries (to be deprecated)

The selection rules are defined in JSON,

1. attribute “selections” value is a list of selections

2. each selection has a “name”, and its “conditions” value is a list of matching criteria

3. each condition uses the implicit equal operator; in addition, the following are supported:

   • regex and range matching for float and int types

   • regex matching for str type

   • union matching for set type

4. DICOM attribute keywords are used, and only for those defined as DICOMStudy and DICOMSeries properties

An example selection rules: {

“selections”: [

{

“name”: “CT Series 1”, “conditions”: {

“StudyDescription”: “(?i)^Spleen”, “Modality”: “(?i)CT”, “SeriesDescription”: “(?i)^No series description|(.*?)”

}

}, {

“name”: “CT Series 2”, “conditions”: {

“Modality”: “CT”, “BodyPartExamined”: “Abdomen”, “SeriesDescription” : “Not to be matched. For illustration only.”

}

}, {

“name”: “CT Series 3”, “conditions”: {

“StudyDescription”: “(.*?)”, “Modality”: “(?i)CT”, “ImageType”: [“PRIMARY”, “ORIGINAL”, “AXIAL”], “SliceThickness”: [3, 5]

}

}

]

}

Instantiate an instance.

Parameters

• fragment (Fragment) – An instance of the Application class which is derived from Fragment.

• rules (Text) – Selection rules in JSON string.

• all_matched (bool) – Gets all matched series in a study. Defaults to False for first match only.

• sort_by_sop_instance_count (bool) – If all_matched = True and multiple series are matched, sorts the matched series in

• # (descending SOP instance count (i.e. the first Series in the returned List[StudySelectedSeries] will have the highest) –

• sorting. (of DICOM images); Defaults to False for no) –

Methods

__init__(fragment, *args[, rules, …])	Instantiate an instance.
add_arg(*args, **kwargs)	Overloaded function.
add_dynamic_flow(*args, **kwargs)	Overloaded function.
compute(op_input, op_output, context)	Performs computation for this operator.
enable_metadata(self, enable)	Configure whether or not the metadata feature is enabled for this operator.
filter(selection_rules, dicom_study_list[, …])	Selects the series with the given matching rules.
find_all_flow_info(self, predicate, bool])	Find all flow info objects in the operator’s next flows that match a given condition.
find_flow_info(self, predicate, bool])	Find a flow info in the operator’s next flows based on a given predicate.
initialize()	Default implementation of initialize
queue_policy(self, port_name, port_type, policy)	Set the queue policy to be used by an input (or output) port’s receiver (or transmitter).
receiver(self, port_name)	Get the receiver used by an input port.
resource(self, name)	Resources associated with the operator.
setup(spec)	Default implementation of setup method.
start()	Default implementation of start
stop()	Default implementation of stop
stop_execution(self)	Stop the execution of the operator.
transmitter(self, port_name)	Get the transmitter used by an output port.

Attributes

INPUT_EXEC_PORT_NAME
OUTPUT_EXEC_PORT_NAME
args	The list of arguments associated with the component.
async_condition	The internal asynchronous condition for the operator.
conditions	Conditions associated with the operator.
description	YAML formatted string describing the operator.
execution_context	The execution context for the operator.
fragment	The fragment (holoscan.core.Fragment) that the operator belongs to.
id	The identifier of the component.
is_metadata_enabled	Boolean indicating whether the fragment this operator belongs to has metadata transmission enabled.
metadata	The metadata dictionary (holoscan.core.MetadataDictionary) associated with the operator.
metadata_policy	The metadata policy (holoscan.core.MetadataPolicy) associated with the operator.
name	The name of the operator.
next_flows	Get the list of flow information for connections to downstream operators.
operator_type	The operator type.
resources	Resources associated with the operator.
spec	The operator spec (holoscan.core.OperatorSpec) associated with the operator.

class OperatorType(self: holoscan.core._core.Operator.OperatorType, value: int) → None

Bases: pybind11_builtins.pybind11_object

Enum class for operator types used by the executor.

• NATIVE: Native operator.

• GXF: GXF operator.

• VIRTUAL: Virtual operator. (for internal use, not intended for use by application authors)

Members:

NATIVE

GXF

VIRTUAL

property name

__init__(fragment, *args, rules='', all_matched=False, sort_by_sop_instance_count=False, **kwargs)

Instantiate an instance.

Parameters

• fragment (Fragment) – An instance of the Application class which is derived from Fragment.

• rules (Text) – Selection rules in JSON string.

• all_matched (bool) – Gets all matched series in a study. Defaults to False for first match only.

• sort_by_sop_instance_count (bool) – If all_matched = True and multiple series are matched, sorts the matched series in

• # (descending SOP instance count (i.e. the first Series in the returned List[StudySelectedSeries] will have the highest) –

• sorting. (of DICOM images); Defaults to False for no) –

add_arg(*args, **kwargs)

Overloaded function.

1. add_arg(self: holoscan.core._core.Operator, arg: holoscan.core._core.Arg) -> None

Add an argument to the component.

2. add_arg(self: holoscan.core._core.Operator, arg: holoscan.core._core.ArgList) -> None

Add a list of arguments to the component.

3. add_arg(self: holoscan.core._core.Operator, **kwargs) -> None

Add arguments to the component via Python kwargs.

4. add_arg(self: holoscan.core._core.Operator, arg: holoscan.core._core.Condition) -> None

5. add_arg(self: holoscan.core._core.Operator, arg: holoscan.core._core.Resource) -> None

Add a condition or resource to the Operator.

This can be used to add a condition or resource to an operator after it has already been constructed.

argholoscan.core.Condition or holoscan.core.Resource

The condition or resource to add.

add_dynamic_flow(*args, **kwargs)

Overloaded function.

1. add_dynamic_flow(self: holoscan.core._core.Operator, flow: holoscan.core._core.FlowInfo) -> None

2. add_dynamic_flow(self: holoscan.core._core.Operator, flows: list[holoscan.core._core.FlowInfo]) -> None

3. add_dynamic_flow(self: holoscan.core._core.Operator, next_op: holoscan.core._core.Operator, next_input_port_name: str = ‘’) -> None

Add a dynamic flow from this operator to another operator.

next_opholoscan.core.Operator

The downstream operator to connect to.

next_input_port_namestr, optional

The name of the input port on the downstream operator to connect to. If not specified, the first available input port will be used.

This method has several overloads to support different ways of creating dynamic flows:

1. add_dynamic_flow(next_op: Operator, next_input_port_name: str = ‘’) - Basic connection using default output port. This is the simplest form for connecting

   two operators when you only need to specify the destination.

2. add_dynamic_flow(curr_output_port_name: str, next_op: Operator, next_input_port_name: str = ‘’) - Connection with explicit output port specification. Use this when the source operator has

   multiple output ports and you need to specify which one to use.

3. add_dynamic_flow(flow: FlowInfo) - Connection using a FlowInfo object, which encapsulates all connection details including:

   • Source operator and its output port specification

   • Destination operator and its input port specification

   • Port names and associated IOSpecs

   • This is useful for complex connections or when reusing connection patterns.

4. add_dynamic_flow(flows: List[FlowInfo]) - Batch connection using multiple FlowInfo objects. Use this to set up multiple

   connections in a single call, which is more efficient than making multiple individual connections.

The FlowInfo class provides a complete description of a flow connection between operators, including all port specifications and naming. It’s particularly useful when you need to:

• Store and reuse connection patterns

• Create complex routing configurations

• Handle dynamic port specifications

• Manage multiple connections systematically

4. add_dynamic_flow(self: holoscan.core._core.Operator, curr_output_port_name: str, next_op: holoscan.core._core.Operator, next_input_port_name: str = ‘’) -> None

property args

The list of arguments associated with the component.

arglist : holoscan.core.ArgList

property async_condition

The internal asynchronous condition for the operator.

This property provides access to the internal asynchronous condition for the operator, which controls the scheduling of the operator’s compute method.

conditionholoscan.conditions.AsynchronousCondition

An instance of holoscan.conditions.AsynchronousCondition that is the internal asynchronous condition for the operator.

compute(op_input, op_output, context)

Performs computation for this operator.

property conditions

Conditions associated with the operator.

property description

YAML formatted string describing the operator.

enable_metadata(self: holoscan.core._core.Operator, enable: bool) → None

Configure whether or not the metadata feature is enabled for this operator. If it is not set, the default value will be determined by the enable_metadata setting from the Fragment that this operator belongs to.

property execution_context

The execution context for the operator.

This property provides access to the execution context of the operator, which contains information about the current execution environment including scheduling details.

holoscan.core.ExecutionContext

The execution context object for this operator.

filter(selection_rules, dicom_study_list, all_matched=False, sort_by_sop_instance_count=False)

Selects the series with the given matching rules.

If rules object is None, all series will be returned with series instance UID as the selection name.

Supported matching logic:

Float + Int: exact matching, range matching (if a list with two numerical elements is provided), and regex matching String: matches case insensitive, if fails then tries RegEx search String array (set): matches as subset, case insensitive

Parameters

• selection_rules (object) – JSON object containing the matching rules.

• dicom_study_list (list) – A list of DICOMStudy objects.

• all_matched (bool) – Gets all matched series in a study. Defaults to False for first match only.

• sort_by_sop_instance_count (bool) – If all_matched = True and multiple series are matched, sorts the matched series in

• # (descending SOP instance count (i.e. the first Series in the returned List[StudySelectedSeries] will have the highest) –

• sorting. (of DICOM images); Defaults to False for no) –

Returns

A list of objects of type StudySelectedSeries.

Return type

list

Raises

ValueError – If the selection_rules object does not contain “selections” attribute.

find_all_flow_info(self: holoscan.core._core.Operator, predicate: Callable[[holoscan.core._core.FlowInfo], bool]) → list[holoscan.core._core.FlowInfo]

Find all flow info objects in the operator’s next flows that match a given condition.

predicatecallable

A function that takes a FlowInfo object and returns a boolean.

list[holoscan.core.FlowInfo]

List of matching FlowInfo objects.

find_flow_info(self: holoscan.core._core.Operator, predicate: Callable[[holoscan.core._core.FlowInfo], bool]) → holoscan.core._core.FlowInfo

Find a flow info in the operator’s next flows based on a given predicate.

predicatecallable

A function that takes a FlowInfo object and returns a boolean.

holoscan.core.FlowInfo or None

The first matching FlowInfo object, or None if not found.

property fragment

The fragment (holoscan.core.Fragment) that the operator belongs to.

property id

The identifier of the component.

The identifier is initially set to -1, and will become a valid value when the component is initialized.

With the default executor (holoscan.gxf.GXFExecutor), the identifier is set to the GXF component ID.

id : int

initialize()

Default implementation of initialize

property is_metadata_enabled

Boolean indicating whether the fragment this operator belongs to has metadata transmission enabled.

property metadata

The metadata dictionary (holoscan.core.MetadataDictionary) associated with the operator.

property metadata_policy

The metadata policy (holoscan.core.MetadataPolicy) associated with the operator.

The supported policies are:

• MetadataPolicy.REJECT: Reject the new value if the key already exists

• MetadataPolicy.UPDATE: Replace existing value with the new one if the key already exists

• MetadataPolicy.INPLACE_UPDATE: Update the value stored within an existing MetadataObject in-place if the key already exists (in contrast to UPDATE which always replaces the existing MetadataObject with a new one).

• MetadataPolicy.RAISE: Raise an exception if the key already exists

property name

The name of the operator.

property next_flows

Get the list of flow information for connections to downstream operators.

list[holoscan.core.FlowInfo]

List of flow information objects describing connections to downstream operators.

property operator_type

The operator type.

holoscan.core.Operator.OperatorType enum representing the type of the operator. The two types currently implemented are native and GXF.

queue_policy(self: holoscan.core._core.Operator, port_name: str, port_type: holoscan.core._core.IOSpec.IOType = <IOType.INPUT: 0>, policy: holoscan.core._core.IOSpec.QueuePolicy = <QueuePolicy.FAULT: 2>) → None

Set the queue policy to be used by an input (or output) port’s receiver (or transmitter).

port_namestr

The name of the port.

port_typeIOSpec.IOType, optional

Enum indicating whether port_name corresponds to an input port or output port.

policyIOSpec.QueuePolicy, optional

The queue policy to set. Valid values are:

• QueuePolicy.POP : If the queue is full, pop the oldest item, then add the new one.

• QueuePolicy.REJECT : If the queue is full, reject (discard) the new item.

• QueuePolicy.FAULT : If the queue is full, log a warning and reject the new item.

transmitterholoscan.resources.Transmitter or None

The transmitter used by this output port. Will be None if the port does not exist.

receiver(self: holoscan.core._core.Operator, port_name: str) → Optional[holoscan::Receiver]

Get the receiver used by an input port.

port_namestr

The name of the input port.

receiverholoscan.resources.Receiver

The receiver used by this input port. Will be None if the port does not exist.

resource(self: holoscan.core._core.Operator, name: str) → Optional[object]

Resources associated with the operator.

namestr

The name of the resource to retrieve

holoscan.core.Resource or None

The resource with the given name. If no resource with the given name is found, None is returned.

property resources

Resources associated with the operator.

setup(spec)

Default implementation of setup method.

property spec

The operator spec (holoscan.core.OperatorSpec) associated with the operator.

start()

Default implementation of start

stop()

Default implementation of stop

stop_execution(self: holoscan.core._core.Operator) → None

Stop the execution of the operator.

This method is used to stop the execution of the operator by setting the internal async condition to EVENT_NEVER state, which sets the scheduling condition to NEVER. Once stopped, the operator will not be scheduled for execution (the compute() method will not be called).

Note that executing this method does not trigger the operator’s stop() method. The stop() method is called only when the scheduler deactivates all operators together.

transmitter(self: holoscan.core._core.Operator, port_name: str) → Optional[holoscan::Transmitter]

Get the transmitter used by an output port.

port_namestr

The name of the output port.

transmitterholoscan.resources.Transmitter or None

The transmitter used by this output port. Will be None if the port does not exist.

monai.deploy.operators.DICOMSegmentationWriterOperator monai.deploy.operators.DICOMSeriesToVolumeOperator