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sushi-config.yaml
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sushi-config.yaml
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# ╭─────────────────────────Commonly Used ImplementationGuide Properties───────────────────────────╮
# │ The properties below are used to create the ImplementationGuide resource. The most commonly │
# │ used properties are included. For a list of all supported properties and their functions, │
# │ see: https://fshschool.org/docs/sushi/configuration/. │
# ╰────────────────────────────────────────────────────────────────────────────────────────────────╯
id: ncpi-fhir-implementation-guide-v2
canonical: https://nih-ncpi.github.io/ncpi-fhir-ig-2
name: NCPI FHIR IG v2
title: NCPI FHIR Implementation Guide v2
description: "FHIR Implementation Guide for the NIH Cloud Platform Interoperability Effort (NCPI)."
status: draft # draft | active | retired | unknown
version: 0.1.0
fhirVersion: 4.3.0 # https://www.hl7.org/fhir/valueset-FHIR-version.html
copyrightYear: 2023+
releaseLabel: ci-build # ci-build | draft | qa-preview | ballot | trial-use | release | update | normative+trial-use
# license: CC0-1.0 # https://www.hl7.org/fhir/valueset-spdx-license.html
# jurisdiction: urn:iso:std:iso:3166#US "United States of America" # https://www.hl7.org/fhir/valueset-jurisdiction.html
publisher:
name: NCPI FHIR Working Group
url: http://example.org/example-publisher
email: [email protected]
# The dependencies property corresponds to IG.dependsOn. The key is the
# package id and the value is the version (or dev/current). For advanced
# use cases, the value can be an object with keys for id, uri, and version.
#
dependencies:
hl7.fhir.us.core: 3.1.1
# hl7.fhir.us.mcode:
# id: mcode
# uri: http://hl7.org/fhir/us/mcode/ImplementationGuide/hl7.fhir.us.mcode
# version: 1.0.0
#
#
# The pages property corresponds to IG.definition.page. SUSHI can
# auto-generate the page list, but if the author includes pages in
# this file, it is assumed that the author will fully manage the
# pages section and SUSHI will not generate any page entries.
# The page file name is used as the key. If title is not provided,
# then the title will be generated from the file name. If a
# generation value is not provided, it will be inferred from the
# file name extension. Any subproperties that are valid filenames
# with supported extensions (e.g., .md/.xml) will be treated as
# sub-pages.
#
# pages:
# index.md:
# title: Example Home
# implementation.xml:
# examples.xml:
# title: Examples Overview
# simpleExamples.xml:
# complexExamples.xml:
#
#
# The parameters property represents IG.definition.parameter. Rather
# than a list of code/value pairs (as in the ImplementationGuide
# resource), the code is the YAML key. If a parameter allows repeating
# values, the value in the YAML should be a sequence/array.
# For parameters defined by core FHIR see:
# http://build.fhir.org/codesystem-guide-parameter-code.html
# For parameters defined by the FHIR Tools IG see:
# http://build.fhir.org/ig/FHIR/fhir-tools-ig/branches/master/CodeSystem-ig-parameters.html
#
# parameters:
# excludettl: true
# validation: [allow-any-extensions, no-broken-links]
#
# ╭────────────────────────────────────────────menu.xml────────────────────────────────────────────╮
# │ The menu property will be used to generate the input/menu.xml file. The menu is represented │
# │ as a simple structure where the YAML key is the menu item name and the value is the URL. │
# │ The IG publisher currently only supports one level deep on sub-menus. To provide a │
# │ custom menu.xml file, do not include this property and include a `menu.xml` file in │
# │ input/includes. To use a provided input/includes/menu.xml file, delete the "menu" │
# │ property below. │
# ╰────────────────────────────────────────────────────────────────────────────────────────────────╯
menu:
Home: index.html
Table of Contents: toc.html
Background:
NCPI: ncpi.html
Profile Versioning: IG_Versioning.html
FHIR Basics: FHIR_Basics.html
Authors: authors.html
Contact: contact.html
Guidance:
Conformance Rules: conformance.html
Must Support: must_support.html
Contributor Guidelines: contributing.html
Modules:
Modular IG Overview: module_overview.html
Research Study: module_research_study.html
Participant-level Data: module_participant.html
Phenotype/Condition: module_phenotype_condition.html
Family: module_family.html
Specimen: module_specimen.html
Assays: module_assays.html
File Data: module_files.html
Use Case Guides:
TBD Use Cases: use_case_tbd.html
Examples:
CBTN Example: example_cbtn.html
GREGoR Example: example_gregor.html
Artifacts:
All Artifacts: artifacts.html
Profiles: artifacts.html#structures-resource-profiles
Code Systems: artifacts.html#terminology-code-systems
Value Sets: artifacts.html#terminology-value-sets
Extensions: artifacts.html#structures-extension-definitions
Support:
FHIR Versions: fhir_version.html
FHIR Spec: http://hl7.org/fhir/R4/index.html
Downloads: downloads.html
# ╭───────────────────────────Less Common Implementation Guide Properties──────────────────────────╮
# │ Uncomment the properties below to configure additional properties on the ImplementationGuide │
# │ resource. These properties are less commonly needed than those above. │
# ╰────────────────────────────────────────────────────────────────────────────────────────────────╯
#
# Those who need more control or want to add additional details to the contact values can use
# contact directly and follow the format outlined in the ImplementationGuide resource and
# ContactDetail.
#
# contact:
# - name: Bob Smith
# telecom:
# - system: email # phone | fax | email | pager | url | sms | other
# value: [email protected]
# use: work
#
#
# The global property corresponds to the IG.global property, but it
# uses the type as the YAML key and the profile as its value. Since
# FHIR does not explicitly disallow more than one profile per type,
# neither do we; the value can be a single profile URL or an array
# of profile URLs. If a value is an id or name, SUSHI will replace
# it with the correct canonical when generating the IG JSON.
#
# global:
# Patient: http://example.org/fhir/StructureDefinition/my-patient-profile
# Encounter: http://example.org/fhir/StructureDefinition/my-encounter-profile
#
#
# The resources property corresponds to IG.definition.resource.
# SUSHI can auto-generate all of the resource entries based on
# the FSH definitions and/or information in any user-provided
# JSON or XML resource files. If the generated entries are not
# sufficient or complete, however, the author can add entries
# here. If the reference matches a generated entry, it will
# replace the generated entry. If it doesn't match any generated
# entries, it will be added to the generated entries. The format
# follows IG.definition.resource with the following differences:
# * use IG.definition.resource.reference.reference as the YAML key.
# * if the key is an id or name, SUSHI will replace it with the
# correct URL when generating the IG JSON.
# * specify "omit" to omit a FSH-generated resource from the
# resource list.
# * if the exampleCanonical is an id or name, SUSHI will replace
# it with the correct canonical when generating the IG JSON.
# * groupingId can be used, but top-level groups syntax may be a
# better option (see below).
# The following are simple examples to demonstrate what this might
# look like:
#
# resources:
# Patient/my-example-patient:
# name: My Example Patient
# description: An example Patient
# exampleBoolean: true
# Patient/bad-example: omit
#
#
# Groups can control certain aspects of the IG generation. The IG
# documentation recommends that authors use the default groups that
# are provided by the templating framework, but if authors want to
# use their own instead, they can use the mechanism below. This will
# create IG.definition.grouping entries and associate the individual
# resource entries with the corresponding groupIds. If a resource
# is specified by id or name, SUSHI will replace it with the correct
# URL when generating the IG JSON.
#
# groups:
# GroupA:
# name: Group A
# description: The Alpha Group
# resources:
# - StructureDefinition/animal-patient
# - StructureDefinition/arm-procedure
# GroupB:
# name: Group B
# description: The Beta Group
# resources:
# - StructureDefinition/bark-control
# - StructureDefinition/bee-sting
#
#
# The ImplementationGuide resource defines several other properties
# not represented above. These properties can be used as-is and
# should follow the format defined in ImplementationGuide:
# * date
# * meta
# * implicitRules
# * language
# * text
# * contained
# * extension
# * modifierExtension
# * experimental
# * useContext
# * copyright
# * packageId
#
#
# ╭──────────────────────────────────────────SUSHI flags───────────────────────────────────────────╮
# │ The flags below configure aspects of how SUSHI processes FSH. │
# ╰────────────────────────────────────────────────────────────────────────────────────────────────╯
# The FSHOnly flag indicates if only FSH resources should be exported.
# If set to true, no IG related content will be generated.
# The default value for this property is false.
#
# FSHOnly: false
#
#
# When set to true, the "short" and "definition" field on the root element of an Extension will
# be set to the "Title" and "Description" of that Extension. Default is true.
#
# applyExtensionMetadataToRoot: true
#
#
# The instanceOptions property is used to configure certain aspects of how SUSHI processes instances.
# See the individual option definitions below for more detail.
#
instanceOptions:
# When set to true, slices must be referred to by name and not only by a numeric index in order to be used
# in an Instance's assignment rule. All slices appear in the order in which they are specified in FSH rules.
# While SUSHI defaults to false for legacy reasons, manualSliceOrding is recommended for new projects.
manualSliceOrdering: true # true | false
# Determines for which types of Instances SUSHI will automatically set meta.profile
# if InstanceOf references a profile:
#
# setMetaProfile: always # always | never | inline-only | standalone-only
#
#
# Determines for which types of Instances SUSHI will automatically set id
# if InstanceOf references a profile:
#
# setId: always # always | standalone-only