Welcome and apologies | |
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| Actions from last week | | - Actions from last week:
- Update ABNF with additional UTF characters - please refer to:
- SLPG members to bring back a use case for historical associations in queries
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| ECL - Executing maps | | Proposed extension to ECL to support the execution of maps (focusing on the resolution of historical refsets) - The specific use-case here comes initially from Jeremy and relates to being able to work with inactive concepts via the historical association maps. For example, given an ECL expression that identifies a set of concepts 'c' to be used for retrieving patient records, you probably also want to retrieve records for sameAs (c) and replacedWith (c)
- Example:
(< 72704001 |Fracture| AND ^ 900000000000527005 |SAME AS association reference set|) . 900000000000533001 |Association target component| - (900000000000527005 |SAME AS association reference set| . 900000000000533001 |Association target component| ): |Referenced component| = < |Fracture|
- Michael's existing approach: mapsTo(|SAME AS|, < |Fracture|)
Or mappedTo(…)
mappedFrom(|SAME AS|, |inactive concept|)
mappedFrom(|REPLACED BY|, |inactive concept|)
- Alternative suggestion: Use the substrate to include historical snapshots.
- E.g. Historical and current concepts that are fractures and have an associated morphology, but not historical morphologies
- ( < |Fracture of bone| {{ substrate >= http://snomed.info/sct/900000000000207008/version/20140131 ) AND (* : |Associated morphology| = *)
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| ECL - Returning attributes | Michael Lawley | Proposal from Michael: - Currently ECL expressions can match (return) concepts that are either the source or the target of a relationship triple (target is accessed via the 'reverse' notation or 'dot notation', but not the relationship type (ie attribute name) itself.
For example, I can write: << 404684003|Clinical finding| : 363698007|Finding site| = <<66019005|Limb structure| << 404684003|Clinical finding| . 363698007|Finding site| But I can't get all the attribute names that are used by << 404684003|Clinical finding| - Perhaps something like:
- ?? R.type ?? (<< 404684003 |Clinical finding|)
- This could be extended to, for example, return different values - e.g.
- ?? |Simple map refset|.|maptarget| ?? (^|Simple map refset| AND < |Fracture|)
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| Template Syntax | Linda Bird | New requirements - 2 slots must have the same/different or subsumed/not-subsumed values - for example, same morphology, finding sites not subsume each other:
[[ +id ]]: { 116676008 |Associated morphology| = [[ +id @morphology ]], 363698007 |finding site| = [[ +id @findingSite1 != << $findingSite2]] },
{ 116676008 |Associated morphology| = [[ +id @morphology ]], 363698007 |finding site| = [[ +id @findingSite2 != << $findingSite1]] } - [[+id]]: [[1..*]] { |Associated morphology| = [[ +id @morphology ]], |Finding site| = [[ +id @site[n] != <<$site[!n] ]] }
- Example - 208510002 |Multiple fracture of clavicle, scapula and humerus (disorder)|
- Default value for slots - for example:
- [[ + id ]] : { |Finding site| = [[ +id @site default = 272673000 |Bone structure (body structure)| ]]
- Specifying the definition status of a slot - for example (proximal primitive modelling):
- [[ + << 64572001 |Disease| {{ c.definitionStatus = primitive }} ]]
- Specifying the definition status of an expression - for example
- [[ +tok ]] [[ +id ]] : { |Finding site| = [[+id]] }
- [[ +tok ("===" "<<<") ]] [[ +id ]] : { |Finding site| = [[+id]] }
- [[ +tok (< |Definition status|) ]] [[ +id ]] : { |Finding site| = [[+id]] }
- Repeating role groups must have the same set of attributes (with respect to optional attributes) - for example:
[[+id]]: [[1..* @rolegroup]] { [[1..1]] |Associated morphology| = [[ +id @morphology ]],
[[0..1 @morph]] |Finding site| = [[ +id @site]],
[[0..1]] |Occurrence| = [[ +id @occurrence ]] } Instance 1: Injury of head, neck and chest [[ |Disease| ]]:
[ @rolegroup[1] ] { |Associated morphology| = |Injury|, |Finding site| = |Head structure| }
[ @rolegroup[2] ] { |Associated morphology| = |Injury|, |Finding site| = |Neck structure| }
[ @rolegroup[3] ]{ |Associated morphology| = |Injury|, |Finding site| = |Chest structure| }
Instance 2: Congenital malformation of head and neck
[[ |Disease| ]]:
[ @rolegroup[1] ] { |Associated morphology| = |malformation|, |Finding site| = |Head structure|, |Occurrence| = |Gongenital| }
[ @rolegroup[2] ] { |Associated morphology| = |malformation|, |Finding site| = |Neck structure|, |Occurrence| = |Gongenital| } [[ +id ]]: [[1..* @rolegroup]]
{ [[0..1 #allOrNone in @rolegroup)]] |finding site| = [[ +id ]],
[[0..1 #allOrNone in @rolegroup]] |associated morphology| = [[ +id ]],
[[0..1 #allOrNone in @rolegroup]] |pathological process| = [[ +id ]] }
- [[ +id ]]: [[1..1 @rolegroup1]]
{ [[0..1 @fs1 #allOrNone fs1+fs2]] |finding site| = [[ +id ]],
[[0..1 @am1 #allOrNone am1+am2]] |associated morphology| = [[ +id ]],
[[0..1 @pp1 #allOrNone pp1+pp2 ]] |pathological process| = [[ +id ]] }
[[1..1 @rolegroup2]] { [[0..1 @fs2 #allOrNone fs1+fs2]] |finding site| = [[ +id ]],
[[0..1 @am2 #allOrNone am1+am2]] |associated morphology| = [[ +id ]],
[[0..1 @pp2 #allOrNone pp1+pp2]] |pathological process| = [[ +id ]] }
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| URI Standard | | - Finalize and publish language and language instance URIs
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Query Language
- Summary from previous meetings
| | Examples: version and language Notes
- Allow nested where, version, language
- Scope of variables is inner query
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| Examples: where Notes - Allow nested variable definitions, but recommend that people don't due to readability
- Scope of variables is the inner query
- No recursion e.g X WHERE X = 1234 MINUS X
- ie can't use a variable in its own definition
- ie X is only known on the left of the corresponding WHERE, and not on the right of the WHERE
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Keywords for Term-based searching: - D.term
- D.term = "*heart*"
- D.term = wild:"*heart*"
- D.term = regex:".*heart.*"
- D.term = match:"hear att"
- D.term = (sv) wild: "*heart*"
- D.languageCode
- D.languageCode = "en"
- D.languageCode = "es"
- D.caseSignificanceId
- D.caseSignificanceId = 900000000000448009 |entire term case insensitive|
- D.caseSignificanceId = 900000000000017005 |entire term case sensitive|
- D.caseSignificanceId = 900000000000020002 |only initial character case insensitive|
- D.caseSignificance
- D.caseSignificance = "insensitive"
- D.caseSignificance = "sensitive"
- D.caseSignificance = "initialCharInsensitive"
- D.typeId
- D.typeId = 900000000000003001 |fully specified name|
- D.typeId = 900000000000013009 |synonym|
- D.typeId = 900000000000550004 |definition|
- D.type
- D.type = "FSN"
- D.type = "fullySpecifiedName"
- D.type = "synonym"
- D.type = "textDefinition"
- D.acceptabilityId
- D.acceptabilityId = 900000000000549004 |acceptable|
- D.acceptabilityId = 900000000000548007 |preferred|
- D.acceptability
- D.acceptability = "acceptable"
- D.acceptability = "preferred"
Additional Syntactic Sugar - FSN
- FSN = "*heart"
- D.term = "*heart", D.type = "FSN"
- D.term = "*heart", D.typeId = 900000000000003001 |fully specified name|
- FSN = "*heart" LANGUAGE X
- D.term = "*heart", D.type = "FSN", D.acceptability = * LANGUAGE X
- D.term = "*heart", D.typeId = 900000000000003001 |fully specified name|, acceptabilityId = * LANGUAGE X
- synonym
- synonym = "*heart"
- D.term = "*heart", D.type = "synonym"
- D.term = "*heart", D.typeId = 900000000000013009 |synonym|
- synonym = "*heart" LANGUAGE X
- D.term = "*heart", D.type = "synonym", D.acceptability = * LANGUAGE X
- D.term = "*heart", D.typeId = 900000000000013009 |synonym|, (D.acceptabilityId = 900000000000549004 |acceptable| OR D.acceptabilityId = 900000000000548007 |preferred|) LANGUAGE X
- synonymOrFSN
- synonymOrFSN = "*heart"
- synonym = "*heart" OR FSN = "*heart"
- D.term = "*heart", (D.type = "synonym" OR D.type = "fullySpecifiedName")
- synonymOrFSN = "*heart" LANGUAGE X
- synonym = "*heart" OR FSN = "*heart" LANGUAGE X
- D.term = "*heart", (D.type = "synonym" OR D.type = "fullySpecifiedName"), D.acceptability = * LANGUAGE X
- textDefinition
- textDefinition = "*heart"
- D.term = "*heart", D.type = "definition"
- D.term = "*heart", D.typeId = 900000000000550004 |definition|
- textDefinition = "*heart" LANGUAGE X
- D.term = "*heart", D.type = "definition", D.acceptability = * LANGUAGE X
- D.term = "*heart", D.typeId = 900000000000550004 |definition|, D.acceptabilityId = * LANGUAGE X
- Unacceptable Terms
- (D.term = "*heart") MINUS (D.term = "*heart", D.acceptability = * LANGUAGE X)
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Language preferences using multiple language reference sets LRSs that use the same Language tend to use 'Addition' - i.e. child LRS only includes additional acceptable terms, but can override the preferred term E.g. Regional LRS that adds local dialect to a National LRS E.g. Specialty-specific LRS E.g. Irish LRS that adds local preferences to the en-GB LRS
LRSs that define a translation to a different language tend to use 'Replacement' - i.e. child LRS replaces set of acceptable and preferred terms for any associated concept
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| Other topics | | |
| Confirm next meeting date/time | | The next SLPG meeting will be held in 2 weeks at 20:00 UTC on Wednesday 6th February. |