SNOMED CT Languages Project Group

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Date & Time

20:00 UTC Wednesday 17 August 2016 

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Goals

  • Discuss potential URI pattern for computable languages
  • Discuss publication of ECL v1.1 with decomposition syntax
  • Discuss proposed scope and syntax for v1.0 Template Syntax

Attendees 

Apologies

Observers

Agenda and Meeting Notes

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Description
Owner
Notes

Welcome, introductions and apologies

Linda Bird
 
Agenda review
Linda Bird
Review agenda for today's meeting
URI Pattern for Languages

Harold Solbrig

Expression Constraint Language v1.1
Linda Bird
  • Discuss publication of ECL v1.1 to Confluence
  • Consider adding decomposition syntax in this version
    • 57617002 |Urine specimen collection (procedure)| . 363701004 |Direct substance| . 1234 |Other attribute|
    • The above is meant to refer to the direct substance of this procedure (i.e. 78014005 |Urine|) - that is the 'targetConcept' of the |Direct substance| relationship, where the sourceConcept is |Urine specimen collection|. This can also be represented as: 
      • < *: { R 363701004 |Direct substance| = 57617002 |Urine specimen collection (procedure)| }
    • Add example where direct substance is one thing and action is another.
Template Syntax v1.0

Linda Bird

  • Discuss proposed scope and syntax for v1.0 Template Syntax

Proposed use cases for v1.0

  • Urgent:
    • MRCM general domain templates
    • International SNOMED CT concept authoring tooling
  • Priority:
    • Mapping from HL7 FHIR resource to a SNOMED CT expression

Proposal is to keep the scope of v1.0 as tight as possible (to deliver this year), and look at possible extended functionality in future versions

OPTION 1

  • All template information is contained inside a slot (i.e. in square brackets - '[[ ... ]]')
  • Slots to be removed are indicated using a '~' as the first non-space character in the slot
  • Slots to be replaced are indicated using a '+cpt', '+exp', '+ecl' (depending on whether it may be replaced by a concept, expression or constraint), followed by an expression constraint in round brackets. Default is 'exp' (least restrictive) - e.g. '+(< 1234 |concept|)'
Scg expression
[[~ @expressionName]] 
[[+cpt(<< 413350009|Finding with explicit context|) @findingWithExplicitContext $fwecRef 1..1]]:
	[[~ @groupA 1..2]] {[[~ @associatedFindingAVP 0..1]] 246090004 |Associated finding| = 
		([[+cpt(<< 404684003|Clinical finding|) @associatedFindingValue $afRef 1..1]]:
			[[~ @groupB 0..1]] 
				{ [[~ @severityAVP 0..1]] 246112005 |Severity| = [[+cpt(<272141005|Severities|) @severityValue $sevRef]],
					[[~ @findingSiteAVP 0..1]] 363698007 |Finding site| = [[+cpt(< 91723000 |Anatomical structure|) @findingSiteValue $fsRef]] }),
	[[~ @subjectRelAVP 1..1]] 408732007 |Subject relationship context| = [[+cpt(<444148008|Person in family of subject|) @subjectRelValue $srRef]],
	[[~ @temporalContextAVP 1..1]] 408731000 |Temporal context| = [[+cpt(< 410510008 |Temporal context value|) @temporalContextValue $tcRef]],
	[[~ @findingContextAVP 1..1]] 408729009 |Finding context| = [[+cpt(< 410514004 |Finding context value|) @findingContextValue $fcRef]] }

OPTION 2

  • The '[[ ... ]]' slot syntax is only used where a 'slot' exists (in the 'traditional' sense of being a placeholder for a value that needs to be filled in later)
  • Slots are removed and replaced with a concept, expression or expression constraint during processing (+cpt,+exp,+ecl)
  • Cardinalities preceded by '~' are removed from the template during processing
  • Names preceded by '@' are removed from the template during processing
Scg expression
@expressionName [[+cpt(<<413350009|Finding with explicit context|) @findingWithExplicitContext $fwecRef 1..1]]:
	~[1..2] @groupA {~[0..1] @associatedFindingAVP 246090004 |Associated finding| = 
		([[+cpt(<< 404684003|Clinical finding|) @associatedFindingValue $afRef 1..1]]:
				~[0..1] @groupB { ~[0..1] @severityAVP 246112005 |Severity| = [[+cpt(<272141005|Severities|) @severityValue $sevRef]],
				~[0..1] @findingSiteAVP 363698007 |Finding site| = [[+cpt(< 91723000 |Anatomical structure|) @findingSiteValue $fsRef]] }),
	~[1..1] @subjectRelationshipAVP 408732007 |Subject relationship context| = [[+cpt(<444148008|Person in family of subject|) @subjectRelValue $srRef]],
	~[1..1] @temporalContextAVP 408731000 |Temporal context| = [[+cpt(< 410510008 |Temporal context value|) @temporalContextValue $tcRef]],
	~[1..1] @findingContextAVP 408729009 |Finding context| = [[+cpt(< 410514004 |Finding context value|) @findingContextValue $fcRef]] }

OTHER POSSIBLE SYNTAX RULES

  • Constraints and names appearing before a brace apply to the whole relationship group
  • Constraints and names appearing before an attribute apply to the whole Attribute Value pair
  • A cardinality constraint:
    • Preceding a brace indicates the number of times the following relationship group is allowed in the final expression (default separator between repetitions is ",")
    • Preceding an attribute within a relationship group indicates the number of times the following attribute may appear with a distinct (non-redundant) value in each instance of the given relationship group (default separator between repetitions is ",")
    • Preceding an attribute that is not in a relationship group indicates the number of times the following attribute may appear with a distinct (non-redundant) value in the relevant expression (or subexpression) (default separator between repetitions is ",")
    • Within a slot that is a focus concept of an expression (or subexpression) indicates the number of times the slot can be filled in the focus (default separator between repetitions is "+")
    • Within a slot that is the attribute in an Attribute-Value pair indicates the number of distinct attribute concepts that can be used in this position in the expression (default separator between repetitions is ",")
    • Within a slot that is the value of an Attribute-Value pair (but which is NOT the focus concept of a subexpression) is not allowed ???
  • Question 1 - How do we represent the cardinality of how many non-redundant values may appear in a given Attribute-Value pair across any relationship group. While this is currently always [0..*] in the MRCM, this may be more relevant in specialized authoring templates.
  • Question 2 - Do we need to provide support to vary the default connector between repetitions. Note, I think this is probably more important for Expression Constraint Templates, as there are more options (e.g. ANDs and ORs)
  • Question 3 - Do we introduce the ability for expression constraints in a slot to be replaced by a variable name (assigned using a SET-IN construct)? For example:
    • SET (severity_range = < |Severities|) IN [[ @finding ]]: |Severity| = [[+ecl ([[$severity_range]]) ]]
Confirm next meeting date/time

Linda Bird

Next meeting to be held at 20:00 UTC on Wednesday 12 October (due to travel commitments and vacation)

Meeting Files

Attachments