SNOMED CT® Release Format 1 (RF1) Guide - ihtsdo

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302 | SNOMED CT Release Format 1 (RF1) Guide July 2012 4.2. Importing and updating from Release Files 4.2.1. Importing distribution files This section is concerned with the general requirements for importing an International Release of SNOMED CT so that it can be accessed by a terminology server. Separate sections address additional issues related to updates of an existing installation and importing Extensions Releases. 4.2.1.1. Requirements for importing distribution files Terminology servers should be able to import SNOMED CT distribution files into the internal form used for the SNOMED CT resource. The import process should be automated with user intervention limited to selection of Subsets and/or configuration options. The import process should import: • The core files (Concepts, Descriptions, and Relationships). • A selected set of Subsets: • This import may be either from: • A selected set of Subset Definition Files • Selected rows in the Subsets Table and Subset Members Table • Some Subsets may be used to filter the import of other distribution files 15 : • Descriptions may be filtered to limit coverage to a specified language or dialect; • Concepts may be filtered to limit coverage to Concepts relevant to human medicine by excluding those only relevant to veterinary medicine; • Relationships associated with any Concept that are excluded by Subset filtering should also be filtered out. • Language Subset may alter the DescriptionType and/or LanguageCode values in the distributed Descriptions Table. • Any other distribution files needed to support the required set of services. 4.2.1.2. Checking during the import process The import process should check the imported data to confirm that: • The distribution files imported all parts of the same release. • All SCTIDs have: • A partition identifier appropriate to the field; • A valid check-digit. Other consistency checks may also be applied to ensure the integrity of the data. 15 See also guidelines on implementation of Subsets. Language Subsets can be used in single language implementation by filtering and applying the DescriptionTypeand LanguageCodesduring the import process. However, multi-lingual installations may require dynamic application of the alternative values applicable to the supported languages and dialects. © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
4.2.1.3. Pre-processing of distribution files by terminology server suppliers The import process may be time -consuming due to the need to build indices or other data structures. It may also require substantial spare storage capacity for temporary files. Therefore a terminology server provider may choose to pre-import the distribution files and provide them to users in pre-prepared form. However, an import facility should also be available in a suitably secured form to end-user organizations, to enable installation and maintenance of Extensions. 4.2.2. Importing new releases and updates This section is concerned with updates to the SNOMED CT resource accessed by the terminology server. A separate section addresses issues related to management of SNOMED CT encoded records, queries and protocols following a new SNOMED CT release. 4.2.2.1. Update Release Formats In Release Format 1, each release of SNOMED CT content is distributed as a complete snapshot - rather than as a set of changes and additions. Additional history information is provided in files described in the Content History (3.2.7). Note: Release Format 2 has a different approach to release files and history (see Importing SNOMED CT release data and History Mechanism). 4.2.2.2. Updating from distribution files Updating a terminology server from a new release of distribution files is similar to the original import. However, the import process should support the retention and/or reinstatement of local configurations such as installed Extensions and selected Subsets. An alternative to repeating the full import process is to read and apply the changes indicated in the Component History Table. The distribution files are still required as the source for additional components that have been added between releases. Also, the Component History Table only indicates changes to Concepts and Descriptions. However, changes to the distribution format to allow better representation of all SNOMED CT component changes is under discussion. This process is outlined as follows: • Read the Component History Table: • Identify all changes since the last release used to update this server. • For each of these changes check the ChangeType value: Terminology services Guide (RF1) | 303 • If the ChangeType is 1 (status change), apply the new status to the component in the terminology server resource: • For example, if the new status of a Concept is Duplicate, this status is applied to the identified Concept; • For many inactivated concepts, the Relationships file can be used to identify an active concept that may be a candidate to use in place of the inactivated concept. • If the ChangeType is 0 (added), find the relevant component in the distribution files and add this to the terminology server resource. • If the ChangeType is 2 (minor change), find the relevant component in the distribution files and apply the new data to the component in the terminology server resource. © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
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SNOMED CT ® Release Format 1 (RF1)
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Contents | 3 Release Format 1 - Det
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Chapter 1 Preface The purpose of th
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Table 3: Document Types Type Name a
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IHTSDO Glossary (DRAFT) • On line
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Chapter 2 Structure and Content Gui
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Figure 1: Multiple levels of granul
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Table 5: Example: Defining arthriti
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The full definitions of the concept
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Other components (i.e. Relationship
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2.1.2.2.1.3. Linking related Concep
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• Local content requirements that
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Consistent representation is a prer
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Figure 8: Abstract logical model of
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1. As originally stated: : • | Ha
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2.2.1.3.2.3.1. Supertype aspects of
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Figure 11: Example hierarchy with l
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Concept E F G H J K L M Note: Compr
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Concept M List of proximal primitiv
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Table 11: Non-redundant attribute v
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G. | Severe upper limb laceration |
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As a result of this limitation some
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2.2.1.4.3. Historical relationships
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2.2.2.1.1.2. Refinement attribute n
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2.2.2.1.4.3. Use of "unapproved att
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Interim recommendations 1. Wherever
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2.2.2.3.1. Close-to-user expression
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It is important to note that combin
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2.2.2.3.6.1. Example of equivalent
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Figure 25: Alternative expressions
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Figure 27: Possible expressions of
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Figure 28: SCTID Short Format - App
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PartitionId 05 Description A Cross
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SctId 999999990989121104 2.3.2.9. T
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2.3.3.2. Specification for Namespac
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2.3.3.3.1.4. Procedures 2.3.3.3.1.4
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1. Every Concept in an Extension:
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Table 17: Processing Transfers betw
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In May 2008, the HL7 Version 3 Stan
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An expression supports combinations
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digitNonZero= %x31-39 The first cha
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excision of left fallopian tube. No
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This existential restriction is lab
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• In order to generate the OWL ve
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• Though there are many candidate
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2.3.7.2.2.1. Single byte encoding C
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9 0 9 Table 29: The full array for
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else {document.getElementById("out"
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http://www.augustana.ab.ca/~mohrj/a
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version. It seems unwise to prevent
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Table DescDualKey Table ConcDualKey
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The IHTSDO recognizes that, while i
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3.2.2. Release Format 1 - Structure
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3.2.3.2. Core Tables Data - Structu
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Data Fields InitialCapitalStatus De
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3.2.4.1. Subset Mechanism - Structu
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Data Fields ContextId 3.2.4.2.2. Su
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Subset SNOMED CT Top Level Navigati
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• as a combination of codes; •
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Table 41: Cross Mapping Tables Cros
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Table 44: Cross Map Targets Table K
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The History Mechanism is also used
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In addition, the ReferencedId field
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Table Descriptions Descriptions Rel
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Table 49: Relationships depending o
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Table 51: Changes to Relationships
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Table 52: Changes to Relationships
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• The only Relationships that it
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ComponentId ConceptId ReleaseVersio
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A readme.txt file is distributed wi
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Value 6 10 11 Limited Moved elsewhe
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As new concepts are added to SNOMED
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Table 73: DescriptionStatus Values
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3.2.9.2.2.4. InitialCapitalStatus T
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3.2.9.3. relationships tables Each
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3.2.9.3.2.3. ConceptId2 Table 84: -
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An integer value that expresses an
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3.2.9.4.1.2.4. SubsetType Table 95:
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A string that identifies a Context
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3.2.9.4.2.1.2. Data Fields Table 10
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• MemberStatus 3.2.9.4.2.3.1.1. S
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3.2.9.4.2.4.1.3. MemberStatus Table
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3.2.9.4.2.5.2. Data Fields Table 11
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3.2.9.4.2.7.1.1. SubsetId Table 124
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3.2.9.4.2.8.1.3. MemberStatus Table
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3.2.9.4.3. Subset Definition File P
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3.2.9.5.1.2.3. MapSetSchemeId Table
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This discussion of rules is include
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3.2.9.5.1.3.2.3. MapRule Table 151:
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3.2.9.5.1.4.2.3. TargetRule Table 1
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RELAT_NMS = column in the LOINC tab
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The value of the SNOMED CT / LOINC
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The SNOMED CT Relationships Table e
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LOINC Analyte Name(s) DESMETHYLAMIO
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LOINC Analyte Name(s) COMPLEMENT IC
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The information provided includes d
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3.2.9.6.4.1.2. ReleaseVersion Table
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Value 6 7 8 9 10 11 Note: Name Limi
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3.2.9.6.5.1.1. ComponentId Table 17
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Release Format 1 is represents a sn
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RF1 Descriptions Table Descriptions
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Table 177: Concepts Table Use of re
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Use of recommended additional indic
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Use of recommended additional indic
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Table 184: Cross Map Sets Table Use
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Keys Partition Size Type Field Name
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Table 192: Word Equivalents Table U
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3.2.10. The Stated relationships ta
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Figure 41: Overview of Cross Map Sc
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Table 197: Cross Maps Sets Table Ma
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Table 201: Cross Maps Sets Table Ma
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Table 205: Cross Map Sets Table Map
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If this approach is followed, there
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This approach allows a more consist
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1. A record may contain many record
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• Temporally related to the selec
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CONCEPTID 95333004 7119001 95336007
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CONCEPTID 109778006 109788007 15270
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CONCEPTID 417163006 417746004 12820
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CONCEPTID 102706005 1677001 9145400
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CONCEPTID 399023006 399154007 39905
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CONCEPTID 399306005 399239005 39937
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CONCEPTID 125086000 78678003 388393
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CONCEPTID 339008 47002008 128419007
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CONCEPTID 16817006 15367004 1580700
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Page 267 and 268: 3.2.13. Enumerated values Value 0 1
Page 269 and 270: Table and Field Subsets SubsetType
Page 271 and 272: 3.3. Release Format 2 Update Guide
Page 273 and 274: • The Release Format should minim
Page 275 and 276: 3.3.3.4. Backward compatibility The
Page 277 and 278: 3.3.4.5. Field Ordering Records in
Page 279 and 280: externalised structures such as Ref
Page 281 and 282: ContextId If either the RealmId fie
Page 283 and 284: eplaced by more descriptive ones if
Page 285 and 286: descriptions associated with concep
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Page 289 and 290: was inactivated. Each Reference ind
Page 291 and 292: Finally, add members to the Referen
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Cross maps table A data table consi
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• References Table Inactive compo
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A field in the Cross Maps Table tha
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A Subset that specifies sets of Nav
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A field in the Concepts Table that
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TargetId A SNOMED CT Identifier tha
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WordText A field in the Word Equiva
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