Add required id slot to 4 isolate YAMLs (#72)

realmarcin · claude · web-flow · commit 6ddbb27a6dd1 · 2026-05-18T17:32:53.000-07:00
The schema-gap-analysis skill (PR #68) flagged 4 of 5 files under data/isolates/ as missing the required `id` slot (`'id' is a required property`). The schema defines `id` on MicrobialCommunity as `identifier: true, required: true, pattern: "^CommunityMech:\\d{6}$"`. Assigned the next four available IDs (max in use was 000270): - Aspergillus_Indium_LED_Recovery.yaml → CommunityMech:000271 - BioModels_MODEL2204300002_Kefir_Rothia_Model → CommunityMech:000272 - Chromobacterium_Gold_Biocyanidation.yaml → CommunityMech:000273 - Methylobacterium_REE_Ewaste_Platform.yaml → CommunityMech:000274 All 5 isolates now validate clean under linkml-validate -C MicrobialCommunity Co-authored-by: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
diff --git a/data/isolates/Aspergillus_Indium_LED_Recovery.yaml b/data/isolates/Aspergillus_Indium_LED_Recovery.yaml
@@ -1,3 +1,4 @@
+id: CommunityMech:000271
 name: Aspergillus Indium LED Recovery Platform
 description: 'An engineered fungal monoculture bioplatform based on Aspergillus niger for sustainable recovery of indium from
   waste liquid crystal display (LCD) and light-emitting diode (LED) panels through indirect bioleaching. This system represents
diff --git a/data/isolates/BioModels_MODEL2204300002_Kefir_Rothia_Model.yaml b/data/isolates/BioModels_MODEL2204300002_Kefir_Rothia_Model.yaml
@@ -1,3 +1,4 @@
+id: CommunityMech:000272
 name: BioModels MODEL2204300002 Kefir Rothia Model
 description: >-
   BioModels record MODEL2204300002 contains a genome-scale metabolic model for Rothia
diff --git a/data/isolates/Chromobacterium_Gold_Biocyanidation.yaml b/data/isolates/Chromobacterium_Gold_Biocyanidation.yaml
@@ -1,3 +1,4 @@
+id: CommunityMech:000273
 name: Chromobacterium Gold Biocyanidation Platform
 description: >
   An engineered bioplatform utilizing the purple pigmented bacterium Chromobacterium
diff --git a/data/isolates/Methylobacterium_REE_Ewaste_Platform.yaml b/data/isolates/Methylobacterium_REE_Ewaste_Platform.yaml
@@ -1,3 +1,4 @@
+id: CommunityMech:000274
 name: Methylobacterium REE E-waste Platform
 description: 'An engineered monoculture bioplatform based on the mesophilic methylotrophic bacterium Methylobacterium extorquens
   AM1 for sustainable recovery of rare earth elements (REE) from electronic waste. This system represents a paradigm shift

Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,4 @@`
	`1`	`+id: CommunityMech:000271`
`1`	`2`	`name: Aspergillus Indium LED Recovery Platform`
`2`	`3`	`description: 'An engineered fungal monoculture bioplatform based on Aspergillus niger for sustainable recovery of indium from`
`3`	`4`	`waste liquid crystal display (LCD) and light-emitting diode (LED) panels through indirect bioleaching. This system represents`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,4 @@`
	`1`	`+id: CommunityMech:000272`
`1`	`2`	`name: BioModels MODEL2204300002 Kefir Rothia Model`
`2`	`3`	`description: >-`
`3`	`4`	`BioModels record MODEL2204300002 contains a genome-scale metabolic model for Rothia`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,4 @@`
	`1`	`+id: CommunityMech:000273`
`1`	`2`	`name: Chromobacterium Gold Biocyanidation Platform`
`2`	`3`	`description: >`
`3`	`4`	`An engineered bioplatform utilizing the purple pigmented bacterium Chromobacterium`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,4 @@`
	`1`	`+id: CommunityMech:000274`
`1`	`2`	`name: Methylobacterium REE E-waste Platform`
`2`	`3`	`description: 'An engineered monoculture bioplatform based on the mesophilic methylotrophic bacterium Methylobacterium extorquens`
`3`	`4`	`AM1 for sustainable recovery of rare earth elements (REE) from electronic waste. This system represents a paradigm shift`