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Corrected study metadata codesystem in Alias file #9

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Corrected study metadata codesystem in Alias file #9

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2 changes: 1 addition & 1 deletion fsh-generated/resources/CodeSystem-dataset-page-codes.json
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Expand Up @@ -6,7 +6,7 @@
"id": "dataset-page-codes",
"title": "Dataset Page Codes",
"description": "Variables associated with table, dataset_meta, from INCLUDE datasets.",
"url": "https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta",
"url": "https://includedcc.org/fhir/code-systems/dataset_meta",
"concept": [
{
"code": "study-code",
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2 changes: 1 addition & 1 deletion fsh-generated/resources/CodeSystem-measurement-codes.json
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"name": "MeasurementCodes",
"id": "measurement-codes",
"title": "Measurement Codes",
"description": "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\n",
"description": "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\r\n",
"url": "http://includedcc.org/fhir/code-systems/measurement_codes",
"concept": [
{
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2 changes: 1 addition & 1 deletion fsh-generated/resources/ImplementationGuide-INCLUDE-Model-Forge.json
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Expand Up @@ -353,7 +353,7 @@
"reference": "CodeSystem/measurement-codes"
},
"name": "Measurement Codes",
"description": "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\n",
"description": "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\r\n",
"exampleBoolean": false
},
{
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35 changes: 35 additions & 0 deletions fsh-generated/resources/List-dsc-dataset.json
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@@ -0,0 +1,35 @@
{
"resourceType": "List",
"id": "dsc-dataset",
"meta": {
"profile": [
"https://include-dcc.github.io/include-model-forge/StructureDefinition/study-dataset"
]
},
"identifier": [
{
"system": "http://some.url.org/for/external_ids",
"value": "DS-Connect-UNHAR (subject to change)"
}
],
"status": "current",
"title": "DS-Connect Unharmonized Demographic/Clinical Data",
"mode": "working",
"entry": [
{
"item": {
"reference": "DocumentReference/dsc-example-demographic-file"
}
},
{
"item": {
"reference": "DocumentReference/dsc-example-condition-file"
}
},
{
"item": {
"reference": "DocumentReference/dsc-example-dd-file"
}
}
]
}
4 changes: 2 additions & 2 deletions fsh-generated/resources/Observation-dsc-dataset-details.json
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Expand Up @@ -21,7 +21,7 @@
"coding": [
{
"code": "study-code",
"system": "https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta"
"system": "https://includedcc.org/fhir/code-systems/dataset_meta"
}
]
},
Expand All @@ -32,7 +32,7 @@
"coding": [
{
"code": "dataset-name",
"system": "https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta"
"system": "https://includedcc.org/fhir/code-systems/dataset_meta"
}
]
},
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60 changes: 60 additions & 0 deletions fsh-generated/resources/StructureDefinition-study-dataset.json
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{
"resourceType": "StructureDefinition",
"id": "study-dataset",
"url": "https://include-dcc.github.io/include-model-forge/StructureDefinition/study-dataset",
"name": "StudyDataset",
"title": "Research Study Dataset",
"status": "draft",
"description": "Research Study Dataset",
"fhirVersion": "4.0.1",
"kind": "resource",
"abstract": false,
"type": "List",
"baseDefinition": "http://hl7.org/fhir/StructureDefinition/List",
"derivation": "constraint",
"differential": {
"element": [
{
"id": "List.identifier",
"path": "List.identifier",
"short": "Global ID, External ID",
"min": 1
},
{
"id": "List.title",
"path": "List.title",
"short": "Full name of the dataset, provided by contributor",
"min": 1
},
{
"id": "List.code",
"path": "List.code",
"patternCodeableConcept": {
"coding": [
{
"code": "dataset",
"system": "https://includedcc.org/fhir/code-systems/include_study_tables"
}
]
}
},
{
"id": "List.entry",
"path": "List.entry",
"min": 1
},
{
"id": "List.entry.item",
"path": "List.entry.item",
"type": [
{
"code": "Reference",
"targetProfile": [
"http://hl7.org/fhir/StructureDefinition/DocumentReference"
]
}
]
}
]
}
}
2 changes: 1 addition & 1 deletion fsh-generated/resources/ValueSet-dataset-page-codes-vs.json
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"compose": {
"include": [
{
"system": "https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta"
"system": "https://includedcc.org/fhir/code-systems/dataset_meta"
}
]
}
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2 changes: 1 addition & 1 deletion input/fsh/Alias.fsh
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Expand Up @@ -47,7 +47,7 @@ Alias: $preservation-method = https://includedcc.org/fhir/code-systems/preservat
Alias: $sample_types = https://includedcc.org/fhir/code-systems/sample_types
Alias: $study_programs = https://includedcc.org/fhir/code-systems/programs
Alias: $data_access_types = https://includedcc.org/fhir/code-systems/data_access_types
Alias: $dataset-meta = https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta
Alias: $dataset-meta = https://includedcc.org/fhir/code-systems/dataset_meta
// ValueSet
Alias: $v3-FamilyMember = http://terminology.hl7.org/ValueSet/v3-FamilyMember
Alias: $measurement_codes = http://includedcc.org/fhir/code-systems/measurement_codes
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2 changes: 1 addition & 1 deletion output/CodeSystem-clinical-data-source-types.json
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"title" : "Clinical Data Source Types",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-data-access-types.json
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"title" : "Data Access Types",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-data-categories.json
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"title" : "Data Categories",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-data-types.json
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"title" : "Data Types",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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6 changes: 3 additions & 3 deletions output/CodeSystem-dataset-page-codes.json
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"id" : "dataset-page-codes",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: CodeSystem dataset-page-codes</b></p><a name=\"dataset-page-codes\"> </a><a name=\"hcdataset-page-codes\"> </a><a name=\"dataset-page-codes-en-US\"> </a><p>This code system <code>https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta</code> defines the following codes:</p><table class=\"codes\"><tr><td style=\"white-space:nowrap\"><b>Code</b></td><td><b>Display</b></td></tr><tr><td style=\"white-space:nowrap\">study-code<a name=\"dataset-page-codes-study-code\"> </a></td><td>Study Code</td></tr><tr><td style=\"white-space:nowrap\">dataset-name<a name=\"dataset-page-codes-dataset-name\"> </a></td><td>Dataset Name</td></tr><tr><td style=\"white-space:nowrap\">dataset-description<a name=\"dataset-page-codes-dataset-description\"> </a></td><td>Dataset Description</td></tr><tr><td style=\"white-space:nowrap\">dataset-global-id<a name=\"dataset-page-codes-dataset-global-id\"> </a></td><td>Dataset Global ID</td></tr><tr><td style=\"white-space:nowrap\">dataset-external-id<a name=\"dataset-page-codes-dataset-external-id\"> </a></td><td>Dataset External ID</td></tr><tr><td style=\"white-space:nowrap\">dataset-expected-number-of-participants<a name=\"dataset-page-codes-dataset-expected-number-of-participants\"> </a></td><td>Dataset Expected Number of Participants</td></tr><tr><td style=\"white-space:nowrap\">expected-number-of-files<a name=\"dataset-page-codes-expected-number-of-files\"> </a></td><td>Expected Number of Files</td></tr><tr><td style=\"white-space:nowrap\">data-collection-start-year<a name=\"dataset-page-codes-data-collection-start-year\"> </a></td><td>Data Collection Start Year</td></tr><tr><td style=\"white-space:nowrap\">data-collection-end-year<a name=\"dataset-page-codes-data-collection-end-year\"> </a></td><td>Data Collection End Year</td></tr><tr><td style=\"white-space:nowrap\">data-category<a name=\"dataset-page-codes-data-category\"> </a></td><td>Dataset Data Category</td></tr><tr><td style=\"white-space:nowrap\">data-type<a name=\"dataset-page-codes-data-type\"> </a></td><td>Dataset Data Type</td></tr><tr><td style=\"white-space:nowrap\">experimental-strategy<a name=\"dataset-page-codes-experimental-strategy\"> </a></td><td>Dataset Experimental Strategy</td></tr><tr><td style=\"white-space:nowrap\">experimental-platform<a name=\"dataset-page-codes-experimental-platform\"> </a></td><td>Dataset Experimental Platform</td></tr><tr><td style=\"white-space:nowrap\">publication<a name=\"dataset-page-codes-publication\"> </a></td><td>Dataset Publication</td></tr><tr><td style=\"white-space:nowrap\">access-limitations<a name=\"dataset-page-codes-access-limitations\"> </a></td><td>Access Limitations</td></tr><tr><td style=\"white-space:nowrap\">access-requirements<a name=\"dataset-page-codes-access-requirements\"> </a></td><td>Access Requirements</td></tr><tr><td style=\"white-space:nowrap\">dbGaP<a name=\"dataset-page-codes-dbGaP\"> </a></td><td>Dataset dbGaP</td></tr><tr><td style=\"white-space:nowrap\">other-repository<a name=\"dataset-page-codes-other-repository\"> </a></td><td>Other Repository</td></tr><tr><td style=\"white-space:nowrap\">other-access-authority<a name=\"dataset-page-codes-other-access-authority\"> </a></td><td>Other Access Authority</td></tr><tr><td style=\"white-space:nowrap\">is-harmonized<a name=\"dataset-page-codes-is-harmonized\"> </a></td><td>Is Harmonized</td></tr></table></div>"
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: CodeSystem dataset-page-codes</b></p><a name=\"dataset-page-codes\"> </a><a name=\"hcdataset-page-codes\"> </a><a name=\"dataset-page-codes-en-US\"> </a><p>This code system <code>https://includedcc.org/fhir/code-systems/dataset_meta</code> defines the following codes:</p><table class=\"codes\"><tr><td style=\"white-space:nowrap\"><b>Code</b></td><td><b>Display</b></td></tr><tr><td style=\"white-space:nowrap\">study-code<a name=\"dataset-page-codes-study-code\"> </a></td><td>Study Code</td></tr><tr><td style=\"white-space:nowrap\">dataset-name<a name=\"dataset-page-codes-dataset-name\"> </a></td><td>Dataset Name</td></tr><tr><td style=\"white-space:nowrap\">dataset-description<a name=\"dataset-page-codes-dataset-description\"> </a></td><td>Dataset Description</td></tr><tr><td style=\"white-space:nowrap\">dataset-global-id<a name=\"dataset-page-codes-dataset-global-id\"> </a></td><td>Dataset Global ID</td></tr><tr><td style=\"white-space:nowrap\">dataset-external-id<a name=\"dataset-page-codes-dataset-external-id\"> </a></td><td>Dataset External ID</td></tr><tr><td style=\"white-space:nowrap\">dataset-expected-number-of-participants<a name=\"dataset-page-codes-dataset-expected-number-of-participants\"> </a></td><td>Dataset Expected Number of Participants</td></tr><tr><td style=\"white-space:nowrap\">expected-number-of-files<a name=\"dataset-page-codes-expected-number-of-files\"> </a></td><td>Expected Number of Files</td></tr><tr><td style=\"white-space:nowrap\">data-collection-start-year<a name=\"dataset-page-codes-data-collection-start-year\"> </a></td><td>Data Collection Start Year</td></tr><tr><td style=\"white-space:nowrap\">data-collection-end-year<a name=\"dataset-page-codes-data-collection-end-year\"> </a></td><td>Data Collection End Year</td></tr><tr><td style=\"white-space:nowrap\">data-category<a name=\"dataset-page-codes-data-category\"> </a></td><td>Dataset Data Category</td></tr><tr><td style=\"white-space:nowrap\">data-type<a name=\"dataset-page-codes-data-type\"> </a></td><td>Dataset Data Type</td></tr><tr><td style=\"white-space:nowrap\">experimental-strategy<a name=\"dataset-page-codes-experimental-strategy\"> </a></td><td>Dataset Experimental Strategy</td></tr><tr><td style=\"white-space:nowrap\">experimental-platform<a name=\"dataset-page-codes-experimental-platform\"> </a></td><td>Dataset Experimental Platform</td></tr><tr><td style=\"white-space:nowrap\">publication<a name=\"dataset-page-codes-publication\"> </a></td><td>Dataset Publication</td></tr><tr><td style=\"white-space:nowrap\">access-limitations<a name=\"dataset-page-codes-access-limitations\"> </a></td><td>Access Limitations</td></tr><tr><td style=\"white-space:nowrap\">access-requirements<a name=\"dataset-page-codes-access-requirements\"> </a></td><td>Access Requirements</td></tr><tr><td style=\"white-space:nowrap\">dbGaP<a name=\"dataset-page-codes-dbGaP\"> </a></td><td>Dataset dbGaP</td></tr><tr><td style=\"white-space:nowrap\">other-repository<a name=\"dataset-page-codes-other-repository\"> </a></td><td>Other Repository</td></tr><tr><td style=\"white-space:nowrap\">other-access-authority<a name=\"dataset-page-codes-other-access-authority\"> </a></td><td>Other Access Authority</td></tr><tr><td style=\"white-space:nowrap\">is-harmonized<a name=\"dataset-page-codes-is-harmonized\"> </a></td><td>Is Harmonized</td></tr></table></div>"
},
"url" : "https://includedcc.org/fhir/CodeSystem/data-dictionary/dataset_meta",
"url" : "https://includedcc.org/fhir/code-systems/dataset_meta",
"identifier" : [{
"use" : "official",
"system" : "https://includedcc.org/fhir/data-dictionary/CodeSystem",
Expand All @@ -16,7 +16,7 @@
"title" : "Dataset Page Codes",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-enum-dataCategory.json
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"title" : "Data Category",
"status" : "draft",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-expected-data-category.json
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"title" : "Expected Data Category",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-experimental-strategy.json
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"title" : "Experimental Strategy",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-family-types.json
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"title" : "Family Types",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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4 changes: 2 additions & 2 deletions output/CodeSystem-guid-type.json
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"title" : "GUID Type",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
Expand Down Expand Up @@ -42,4 +42,4 @@
"code" : "No-GUID",
"display" : "No GUID"
}]
}
}
2 changes: 1 addition & 1 deletion output/CodeSystem-include-study-tables.json
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"title" : "Include Study Tables",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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4 changes: 2 additions & 2 deletions output/CodeSystem-measurement-codes.json
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"title" : "Measurement Codes",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
Expand All @@ -28,7 +28,7 @@
"use" : "work"
}]
}],
"description" : "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\n",
"description" : "A complete set of codes used for the expected measurement types for INCLUDE/Kids First observations.\r\n",
"content" : "fragment",
"concept" : [{
"code" : "Hemoglobin-level-at-birth",
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2 changes: 1 addition & 1 deletion output/CodeSystem-participant-lifespan-age.json
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"title" : "Participant Lifespan Age",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-sample-types.json
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"title" : "Sample Types",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-study-page-codes.json
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"title" : "Study Page Codes",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/CodeSystem-study-program.json
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"title" : "Study Programs",
"status" : "active",
"experimental" : false,
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/ImplementationGuide-INCLUDE-Model-Forge.json
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"name" : "INCLUDEModelForgeIG",
"title" : "INCLUDE Model Forge Implementation Guide",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-IncludeLogicalDataset.json
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"name" : "IncludeDataset",
"title" : "Information about a specific grouping of data files",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-IncludeLogicalDatasetManifest.json
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"name" : "IncludeDatasetManifest",
"title" : "Include Logical Model for Dataset Manifest",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-biospecimen.json
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"name" : "Biospecimen",
"title" : "Biospecimen",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-contact-detail-institution.json
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"name" : "ContactDetailInstitution",
"title" : "Contact Detail Institution",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-dataset-external-id.json
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"name" : "DatasetExternalId",
"title" : "Dataset External Id",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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2 changes: 1 addition & 1 deletion output/StructureDefinition-dataset-global-id.json
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"name" : "DatasetGlobalId",
"title" : "Dataset Global Id",
"status" : "draft",
"date" : "2024-10-14T10:59:31-05:00",
"date" : "2024-10-23T13:59:29-04:00",
"publisher" : "NCPI FHIR Working Group",
"contact" : [{
"name" : "NCPI FHIR Working Group",
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