v1.1.1

CMECS Catalog Changes v.1.1.0 to 1.1.1

Summary of Changes

Please note that v1.1.1 includes changes to unit attributes ONLY and DOES NOT include any changes to CMECS units (i.e., concept changes).
Changes were made to select Biotic Component units to correct Unit Codes and spelling in both the cmecs.owl and output table files, and a missing Unit ID for Attached Phoronids.
New and revised Unit Codes were added to the Substrate Component units.

The CMECS Thesaurus (text output of the CMECS Catalog ecological units and implementation guidance) is therefore unchanged from the last release. The most recent version of the CMECS Thesaurus is still:

• CMECS_Thesaurus_v1.1.0.pdf
• CMECS_Thesaurus_v1.1.0.md

CMECS Biotic Component

• Biotic Group: Attached Tube-Building Fauna was erroneously omitted from the original CMECS Codeset so it was not assigned a Unit Code at that time. Therefore, and the subordinate units under Attached Tube-Building Fauna were erroneously categorized under Biotic Group: Diverse Colonizers. New Unit Codes were assigned as follows: to Biotic Group: Attached Tube-Building Fauna (https://w3id.org/CMECS/CMECS_00000067) and its subordinate Biotic Communities.
  • Biotic Group: Attached Tube-Building Fauna- unit code change from 2.2.1.3.4 to 2.2.1.24 in the csv and xlsx tables only. There was no unit code in the cmecs.owl file so the correct code has now been added.
    • Biotic Community: Attached Phoronids- new Unit Code is 2.2.1.24.1. Changed in the v1.1.0 cmecs.owl file, added to the csv and xlxs tables
    • Biotic Community: Attached Pogonophorans- Unit Code changed from 2.2.1.3.5 to 2.2.1.24.2. Changed in cmecs.owl file and the csv and xlsx tables
    • Biotic Community: Attached Sabellaria- Unit Code change from 2.2.1.3.6 to 2.2.1.24.3. Change in cmecs.owl file and the csv and xlsx tables
    • Biotic Community: Attached Serpula- Unit Code change from 2.2.1.3.7 to 2.2.1.24.4. Change in cmecs.owl file and the csv and xlsx tables
    • Biotic Community: Attached Serpulorbis- Unit Code change from 2.2.1.3.8 to 2.2.1.24.5. Change in cmecs.owl file and the csv and xlsx tables
• Fixed typo in unit name for CMECS_00001653 from Acroprora to Acropora
• Added missing Unit ID for Attached Phoronids (CMECS_00000061) in csv and xlsx tables

CMECS Substrate Component (SC) Changes

Unit Attribute Changes and Additions

Changes adopted to the Substrate Component in v1.1.0 required the assignment of new Unit Codes in v1.1.1 for most SC units. See CMECS_1.1.1_UnitCode_Crosswalk.xlxs for a side-by-side comparison of Unit Codes from v.1.0.0 to v1.1.1. Where Unit Codes were revised, the Unit Status Attribute Change (revised unit code) was added.

What's Changed- List of Pull Requests

• File Cleanup in #3
• xml to owl file extension change by @r0sek in #4
• Update README.md by @r0sek in #5
• Update CMECS_Thesaurus_v1.1.0.md by @r0sek in #6
• Cleanup edits to Thesaurus md file by @r0sek in #9
• Merge pull request #6 from NOAA-OCM/main by @r0sek in #8
• SC Unit Code Updates and Obsolete Unit class added by @r0sek in #17
• Add v1.1.1 files by @r0sek in #21
• Sync only by @r0sek in #22

New Contributors

• @r0sek made their first contribution in #4

Full Changelog: v1.1.0...v1.1.1

CMECS_Catalog_v1.1.0

Release v1.1.0 contains updates to the Substrate Component units and framework, additional Modifier units. New attributes (annotations) were also added to each unit.

New and Updated Files

The files in this release contain the CMECS Catalog v1.1.0 in various formats.

A summary of files

• About_CMECS_Catalog_v1.1.0_Files

A list of the changes made from v1.0.0 to v1.1.0

• Changes_1.0.0_to_1.1.0.pdf
• Changes_1.0.0_to_1.1.0.md

The CMECS Thesaurus (browsable text output of the CMECS Catalog v1.1.0 ecological units and implementation guidance)

• CMECS_Thesaurus_v1.1.0.pdf
• CMECS_Thesaurus_v1.1.0.md

Individual CSV files of CMECS Settings, Components, Modifers

• Aquatic Settings: CMECS_Catalog_v1.1.0-AS.csv
• Biogeographic Settings: CMECS_Catalog_v1.1.0-BS.csv
• Biotic Component: CMECS_Catalog_v1.1.0-BC.csv
• Geoform Component: CMECS_Catalog_v1.1.0-GC.csv
• Substrate Component: CMECS_Catalog_v1.1.0-SC.csv
• Water Column Component: CMECS_Catalog_v1.1.0-WC.csv
• Modifiers: CMECS_Catalog_v1.1.0-Modifiers.csv

Single CSV file of the complete CMECS Catalog v1.1.0 of units (CMECS Settings, Components, Modifers unified in a common hierarchy)

• CMECS_Catalog_v1.1.0-All.csv

Excel Workbook containing sheets with individual and unified tables for the complete CMECS Catalog v1.1.0 of units (CMECS Settings, Components, Modifers)

• CMECS_Catalog_v1.1.0.xlsx

The Interim Materials- Substrate Component Approved Changes directory contains files and documentation for the Substrate Component Work Group final materials which are the source for the Substrate Component changes adopted in this release.

Complete List of Changes

CMECS Aquatic Setting (AS) Changes

• Added column “Setting”; populated with “Aquatic Setting” for all units

• Added Aquatic Setting unit at the uppermost level with definition, Component Code, and Unit Code

• Corrected name of Oceanic Subsystem unit to Marine Oceanic Subsystem; corrected definition (previous version mistakenly used the definition for Marine System unit).

• Appended each unit name (term) with applicable type of setting (e.g. System, Subsystem, Tidal Zone). See description of unit status for more information

• Added column “Literature Cited”; populated with references for literature cited in unit definitions where applicable, sourced from FGDC-STD-018-2012 Section 14- Literature Cited, p. 245

• Added column “Unit Type”; populated with type of unit for each unit

• Added column “CMECS Version”; populated with “1.1.0” for each unit

• Added column “Unit Status”; populated with unit status for each unit. See description of unit status for more information

• Added column “Type of Change”; populated with change type for each unit where applicable. See description of unit status for more information

• Added column “Term ID”; populated with individual identifier codes for each unit

• Added column “Unit IRI”; populated with individual Internationalized Resource Identifiers for each unit. See https://en.wikipedia.org/wiki/Internationalized_Resource_Identifier for more information.

CMECS Biogeographic Setting (BS) Changes

• Added column “Setting”; populated with “Biogeographic Setting” for all units

• Added row populated with “Biogeographic Setting” unit term and attributes at the uppermost level

• Appended each unit name (term) with applicable type of setting (e.g. System, Subsystem, Tidal Zone). See description of unit status for more information

• Deprecated unit Ecoregion: Crustacean Meroplankton (E3.1.3), which was an erroneous entry from the previous CMECS Catalog database

• Added column “Literature Cited”; populated with references for literature cited in unit definitions where applicable, sourced from FGDC-STD-018-2012 Section 14- Literature Cited, p. 245

• Added column “Unit Type”; populated with type of unit for each unit

• Added column “CMECS Version”; populated with “1.1.0” for each unit

• Added column “Unit Status”; populated with unit status for each unit. See description of unit status for more information

• Added column “Type of Change”; populated with change type for each unit where applicable. See description of unit status for more information

• Added column “Term ID”; populated with individual identifier codes for each unit

• Added column “Unit IRI”; populated with individual Internationalized Resource Identifiers for each unit. See https://en.wikipedia.org/wiki/Internationalized_Resource_Identifier for more information.

CMECS Biotic Component (BC) Changes

• Added column “Component”; populated with unit term “Biotic Component” for all units

• Added “Biotic Component” unit with all related attributes at the uppermost level

• Added column “Literature Cited”; populated with references for literature cited in unit definitions where applicable, sourced from FGDC-STD-018-2012 Section 14- Literature Cited, p. 245

• Added unit Biotic Component Benthic/Attached Biota Emergent Wetland Emergent Tidal Marsh Freshwater Tidal Marsh/Acorus calamus Tidal Herbaceous Vegetation. Note: an original unit that was included in the FGDC-STD-018-2012 but was omitted from the database.

• Corrected definition for Subclass: Worm Meroplankton unit (previous version mistakenly used the definition for Subclass: Worm Holoplankton unit)

• Added column “Unit Type”; populated with type of unit for each unit

• Added column “CMECS Version”; populated with “1.1.0” for each unit

• Added column “Unit Status”; populated with unit status for each unit. See description of unit status for more information

• Added column “Type of Change”; no changes were made, so column is unpopulated. See description of unit status for more information

• Added column “Term ID”; populated with individual identifier codes for each unit

• Added column “Unit IRI”; populated with individual Internationalized Resource Identifiers for each unit. See https://en.wikipedia.org/wiki/Internationalized_Resource_Identifier for more information.

CMECS Geoform Component (GC) Changes

• Added column “Component”; populated with unit term “Geoform Component” for all units

• Added row populated with “Geoform Component” unit term and all related attributes at the uppermost level

• Added row populated with “Tectonic Setting” unit term and attributes

• Added row populated with “Physiographic Setting” unit term and attributes

• Moved all Unit Codes to single column and deleted Physiographic Setting and Geoform Unit Code columns

• Moved all Geoform Component Subcomponents (Tectonic Setting, Physiographic Setting, Level 1 Geoform, Level 2 Geoform) to a single “Subcomponent” column

• Added Geoform Origin term (ex., Geologic Origin) to Geoform Subcomponent term (ex., Geologic Geoform (Level 1); deleted “Geologic Origin” column

• Corrected definition for Anthropogenic Geoform: Dredge Deposit unit (previous version mistakenly used the definition for Anthropogenic Geoform Type: Dredge Deposit Shoal unit)

• Added column “Literature Cited”; populated with references for literature cited in unit definitions where applicable, sourced from FGDC-STD-018-2012 Section 14- Literature Cited, p. 245

• Added column “Unit Type”; populated with type of unit for each unit

• Added column “CMECS Version”; populated with “1.1.0” for each unit

• Added column “Unit Status”; populated with unit status for each unit. See description of unit status for more information

• Added column for “Type of Change” attribute (see description of unit status for more information); at this time, there are no values to populate for the GC.

• Added column “Term ID”; populated with individual identifier codes for each unit

• Added column “Unit IRI”; populated with individual Internationalized Resource Identifiers for each unit. See https://en.wikipedia.org/wiki/Internationalized_Resource_Identifier for more information.

CMECS Substrate Component (SC) Changes

• Added column “Component”; populated with unit term “Substrate Component” for all units

• Added row populated with “Substrate Component” unit term and all related attributes at the uppermost level.

• Unit Changes and Additions

  • Acropora Hash: Addition
  • Aggregate Fines: Addition
  • Aggregate Hash: Name Change (formerly Construction Hash); Change in Level Down; Membership Change; Editorial Change (definition re-worded)
  • Aggregate Rubble: Name Change (formerly Construction Rubble); Membership change; Editorial change (definition re-worded)
  • Algal Hash: Addition
  • Algal Reef Substrate: Addition
  • Algal Rubble: Addition
  • Algal Sand: Change in level down; Membership change; Editorial Change (definition re-worded)
  • Anthropogenic Substrate: Editorial change (definition re-worded)
  • Anthropogenic Wood Fines: Addition
  • Anthropogenic Wood Hash: Change in Level Down; Membership Change; Editorial change (definition re-worded)
  • Anthropogenic Wood Rubble: Change in Level Down; Membership Change; Editorial change (definition re-worded)
  • Biogenic Hash: Addition
  • Biogenic Pavement: Addition
  • Biogenic Pavement: Addition
  • Biogenic Rubble: Addition
  • Biogenic Sand: Addition
  • Biogenic Substrate: Editorial Change (definition re-worded)
  • Boulder: Editorial Change (definition re-worded)
  • Carbonate Ooze: Change in Level Down; Editorial Change (definition re-worded)
  • Clay: Editorial Change (definition re-worded)
  • Clayey Sand: Editorial Change (definition re-worded)
  • Coarse Sand: Editorial Change (definition re-worded)
  • Coarse Unconsolidated Aggregate Substrate: Addition
  • Coarse Unconsolidated Anthropogenic Substrate: Addition
  • Coarse Unconsolidated Anthropogenic Wood Substrate: Addition
  • Coarse Unconsolidated Biogenic Substrate: Addition
  • Coarse Unconsolidated Metal Substrate: Addition
  • Coarse Unconsolidated Mine...

CMECS v1.0.0

RELEASE NOTES

The CMECS units as published in FGDC-STD-018-2012

• The CMECS Catalog Microsoft Access database content was exported to .csv.
• Component and Unit Codes for each unit were added to the .csv files (see also the CMECS Coding System Approach document), and minor editorial corrections were made.
• The .csv files were imported into the Protege Desktop application using the Cellfie plug-in and saved in the cmecs.xml ontology file.

All mentions of page numbers, section numbers, figures, and tables in the CMECS Catalog are references to the CMECS FGDC-STD-018-2012 document, unless otherwise noted.