diff --git a/.github/workflows/e2e.yml b/.github/workflows/e2e.yml
index 7672765ea547299ce9cfe32197148bb24e2c1bfd..500d8035fd9c241b9bc56ef90c428b7c99209e1f 100644
--- a/.github/workflows/e2e.yml
+++ b/.github/workflows/e2e.yml
@@ -51,6 +51,7 @@ jobs:
- name: Start pptr docker container with name ${{ env.DOCKER_E2E_PPTR }}
run: |
docker run --rm \
+ -v /dev/shm:/dev/shm \
--name ${DOCKER_E2E_PPTR} \
-dt \
puppeteer
diff --git a/deploy/datasets/testData/allen2015.js b/deploy/datasets/testData/allen2015.js
index d8d00647d1ac2eb5dcf42993590e359d2a0c36e9..0220ae2a3a462ae4f5a8113e0d38627dcd9d6e7a 100644
--- a/deploy/datasets/testData/allen2015.js
+++ b/deploy/datasets/testData/allen2015.js
@@ -1,4 +1,114 @@
module.exports = [
+ {
+ "formats" : [],
+ "name" : "Neuropsin tetracycline-transactivator expression: horizontal sections (case 2877)",
+ "publications" : [
+ {
+ "cite" : "Lillehaug, S., Yetman, M.J., Puchades,M.A., Checinska, M.M., Kleven, H., Jankowsky, J.L., Bjaalie, J.G., Leergaard, T.B. (2019). Brain-wide distribution of reporter expression in five transgenic tetracycline-transactivator mouse lines. Scientific Data, 6, 190028.",
+ "name" : "Brain-wide distribution of reporter expression in five transgenic tetracycline-transactivator mouse lines",
+ "doi" : "10.1038/sdata.2019.28"
+ },
+ {
+ "doi" : "10.1007/s00429-015-1040-9",
+ "name" : "Transgene expression in the Nop-tTA driver line is not inherently restricted to the entorhinal cortex",
+ "cite" : "Yetman, M. J., Lillehaug, S., Bjaalie, J. G., Leergaard, T. B., & Jankowsky, J. L. (2015). Transgene expression in the Nop-tTA driver line is not inherently restricted to the entorhinal cortex. Brain Structure and Function, 221(4), 2231–2249. "
+ }
+ ],
+ "contributors" : [
+ "Jankowsky, Joanna L.",
+ "Leergaard, Trygve B.",
+ "Bjaalie, Jan G.",
+ "Lillehaug, Sveinung",
+ "Yetman, Michael J."
+ ],
+ "project" : [
+ "Transgene expression in tetracycline-transactivator driver lines"
+ ],
+ "methods" : [
+ "Immunohistochemistry",
+ "Reporter genes",
+ "Brightfield microscopy",
+ "Reporter proteins"
+ ],
+ "activity" : [
+ {
+ "preparation" : [
+ "Ex vivo"
+ ],
+ "protocols" : [
+ "Prss19",
+ "Kallikrein related-peptidase 8",
+ "Klk8-tTA",
+ "EC-tTA",
+ "tTA-EC",
+ "B6.Cg-Tg(Klk8-tTA)QMmay/MullMmmh",
+ "Neuropsin promoter",
+ "Atlas",
+ "Brain-wide",
+ "Tet-lacZ reporter",
+ "Double-transgenic",
+ "X-gal",
+ "histology",
+ "Reporter gene",
+ "Conditional model",
+ "Tet-off",
+ "Tetracycline transactivator protein",
+ "tTA",
+ "Nop-tTA",
+ "Nop"
+ ]
+ }
+ ],
+ "kgReference" : [
+ "10.25493/AYBB-BXV"
+ ],
+ "id" : "d56b1fe14bb84987a3a2340e21652b2d",
+ "custodians" : [
+ "Jankowsky, Joanna L."
+ ],
+ "parcellationRegion" : [
+ {
+ "species" : [],
+ "name" : "Mouse Whole brain (v3 2015)",
+ "alias" : "Whole brain",
+ "fullId" : "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/2bdfac7a-b38c-4c55-9843-0b56cb90bb67"
+ }
+ ],
+ "license" : [],
+ "embargoStatus" : [
+ "Free"
+ ],
+ "species" : [
+ "Mus musculus"
+ ],
+ "licenseInfo" : [
+ {
+ "url" : "https://creativecommons.org/licenses/by/4.0/",
+ "name" : "Creative Commons Attribution 4.0 International"
+ }
+ ],
+ "datasetDOI" : [
+ {
+ "doi" : "10.1038/sdata.2019.28",
+ "cite" : "Lillehaug, S., Yetman, M.J., Puchades,M.A., Checinska, M.M., Kleven, H., Jankowsky, J.L., Bjaalie, J.G., Leergaard, T.B. (2019). Brain-wide distribution of reporter expression in five transgenic tetracycline-transactivator mouse lines. Scientific Data, 6, 190028."
+ },
+ {
+ "cite" : "Yetman, M. J., Lillehaug, S., Bjaalie, J. G., Leergaard, T. B., & Jankowsky, J. L. (2015). Transgene expression in the Nop-tTA driver line is not inherently restricted to the entorhinal cortex. Brain Structure and Function, 221(4), 2231–2249. ",
+ "doi" : "10.1007/s00429-015-1040-9"
+ }
+ ],
+ "description" : "Bright-field microscopy images of serial horizontal brain sections showing neuropsin (Nop) promoter expression in a bigenic Nop-tetracycline-transactivator (tTA) mouse brain (case 2877, adult male), using a driver-reporter construct in which the Nop-tTA promoter regulates the expression of the E. coli derived LacZ reporter gene encoding β-galactosidase, which is visualized histologically using X-gal (5-Bromo-4-chloro-3-indolyl β-d-galactopyranoside) as a substrate. Methodological details are provided in Yetman et al., Brain Struct Funct 221:2231-49, 2016. Our data show that the Nop-tTA promoter mainly is expressed in the entorhinal cortex, but also in several other cortical regions.",
+ "referenceSpaces" : [],
+ "parcellationAtlas" : [
+ {
+ "id" : "39a1384b-8413-4d27-af8d-22432225401f",
+ "name" : "Allen Mouse Common Coordinate Framework v3 2015",
+ "fullId" : "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/39a1384b-8413-4d27-af8d-22432225401f"
+ }
+ ],
+ "fullId" : "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/82a9c981-0ba0-4a5a-9bbc-a3b74c568f5b",
+ "files" : []
+ },
{
"formats": [],
"datasetDOI": [],
diff --git a/deploy/datasets/util.spec.js b/deploy/datasets/util.spec.js
index 48de1ddfa584b597cc3d38bd737633f207c6b436..aadd7283fceb90aeedf8abb429e4e2087470a237 100644
--- a/deploy/datasets/util.spec.js
+++ b/deploy/datasets/util.spec.js
@@ -9,49 +9,53 @@ const mni152JuBrain = require('./testData/mni152JuBrain')
const colin27 = require('./testData/colin27')
const hoc1Pmap = require('./testData/hoc1pmap')
+const SKIP_RETRY_TEST = process.env.SKIP_RETRY_TEST
+
describe('datasets/util.js', () => {
- // describe('retry', () => {
+ describe('retry', () => {
+
+ if(SKIP_RETRY_TEST) return
- // let val = 0
+ let val = 0
- // const failCall = fake()
- // const succeedCall = fake()
+ const failCall = fake()
+ const succeedCall = fake()
- // const prFn = () => {
- // val++
- // return val >=3
- // ? (succeedCall(), Promise.resolve())
- // : (failCall(), Promise.reject())
- // }
+ const prFn = () => {
+ val++
+ return val >=3
+ ? (succeedCall(), Promise.resolve())
+ : (failCall(), Promise.reject())
+ }
- // beforeEach(() => {
- // val = 0
- // succeedCall.resetHistory()
- // failCall.resetHistory()
- // })
+ beforeEach(() => {
+ val = 0
+ succeedCall.resetHistory()
+ failCall.resetHistory()
+ })
- // it('retry until succeed', async () => {
- // await retry(prFn)
- // assert(succeedCall.called)
- // assert(failCall.calledTwice)
- // })
+ it('retry until succeed', async () => {
+ await retry(prFn)
+ assert(succeedCall.called)
+ assert(failCall.calledTwice)
+ })
- // it('retry with shorter timeouts', async () => {
- // await retry(prFn, { timeout: 100 })
- // assert(succeedCall.called)
- // assert(failCall.calledTwice)
- // })
+ it('retry with shorter timeouts', async () => {
+ await retry(prFn, { timeout: 100 })
+ assert(succeedCall.called)
+ assert(failCall.calledTwice)
+ })
- // it('when retries excceeded, retry fn throws', async () => {
- // try {
- // await retry(prFn, { timeout: 100, retries: 2 })
- // assert(false, 'retry fn should throw if retries exceed')
- // } catch (e) {
- // assert(true)
- // }
- // })
- // })
+ it('when retries excceeded, retry fn throws', async () => {
+ try {
+ await retry(prFn, { timeout: 100, retries: 2 })
+ assert(false, 'retry fn should throw if retries exceed')
+ } catch (e) {
+ assert(true)
+ }
+ })
+ })
describe('datasetBelongsInTemplate', () => {
it('should filter datasets with template defined', () => {
@@ -155,7 +159,7 @@ describe('datasets/util.js', () => {
it('should filter allen 2015 properly', async () => {
const filteredResult = await filterDatasets(allen2015, { parcellationName: 'Allen Mouse Common Coordinate Framework v3 2015' })
- expect(filteredResult).to.have.length(1)
+ expect(filteredResult).to.have.length(allen2015.length)
})
})
diff --git a/src/res/ext/allenMouse.json b/src/res/ext/allenMouse.json
index b0fbfcceb3f57dbd8bd17adcdd8409ee49c9a6bb..dad3a22fb6b0fc13c6d0350480863fa088596d13 100644
--- a/src/res/ext/allenMouse.json
+++ b/src/res/ext/allenMouse.json
@@ -30,7 +30,15 @@
"name": "root",
"labelIndex": 997,
"relatedAreas": [
- "Whole brain"
+ {
+ "name": "Whole brain",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "be45bc91-8db5-419f-9471-73a320f44e06"
+ }
+ }
+ }
],
"children": [
{
@@ -370,6 +378,18 @@
"labelIndex": 882,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary motor area (2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a07b4390-62db-451b-b211-a45f67c6b18e",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -935,6 +955,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary somatosensory area, barrel field (2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f99995b6-a3d0-42be-88c3-eff8a83e60ea",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -1502,6 +1534,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary somatosensory area (2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "baae9f67-b38e-4733-984a-56574ac6200b",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -2923,6 +2967,18 @@
"labelIndex": 305,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary visual area (2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "308fadb5-8b60-4f68-8edc-fdbd948ef098",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -5121,6 +5177,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Retrosplenial area (2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8487fa58-9d0f-4139-8601-4efd82452067",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -5739,6 +5807,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Isocortex (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e7ed7c2f-cc4f-47df-8041-46b5d49cf155",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -6802,6 +6882,18 @@
"labelIndex": 415,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Field CA1 (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "755ef6e9-29e5-4e7a-a869-094026b076ae",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -6935,6 +7027,18 @@
"labelIndex": 504,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Field CA3 (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "aad1e92a-4d91-4310-b310-7223fb7eafba",
+ "alternateOf": []
+ }
+ }
+ }
]
}
]
@@ -7182,6 +7286,18 @@
"labelIndex": 19,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Hippocampal region (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "06d2fa96-961c-4f17-91f4-b0e8320071da",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -7527,6 +7643,18 @@
"labelIndex": 743,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Entorhinal area, medial part, dorsal zone (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f7be1a12-adb1-430b-b7e5-a1a49e48b3e1",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -7996,6 +8124,25 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Hippocampal formation (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "925cdcf3-dc08-493a-b414-c125ed63e290",
+ "alternateOf": [
+ {
+ "prefLabel": "Hippocampal formation",
+ "label": "Hippocampal formation (mba)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/ontologies/core/parcellationregion/v1.0.1/967edd9a-515c-4583-8940-8ee6bacc73cd",
+ "geneOntologyId": null
+ }
+ ]
+ }
+ }
+ }
]
}
]
@@ -8302,6 +8449,25 @@
"labelIndex": 672,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Striatum dorsal region (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5424eeb1-7069-4067-8aa8-f4858c8a3357",
+ "alternateOf": [
+ {
+ "prefLabel": "Striatum dorsal region",
+ "label": "Striatum dorsal region (mba)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/ontologies/core/parcellationregion/v1.0.1/07bef62d-942f-4698-a7ec-3beb49575279",
+ "geneOntologyId": null
+ }
+ ]
+ }
+ }
+ }
]
},
{
@@ -8786,6 +8952,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Striatum (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a1f2074f-a3fe-4c50-9032-148390c8dfaa",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -9215,6 +9393,25 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Cerebrum (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "accd54ac-9fcf-4983-b17c-c01c466c734a",
+ "alternateOf": [
+ {
+ "prefLabel": "Cerebrum",
+ "label": "Cerebrum (mba)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/ontologies/core/parcellationregion/v1.0.1/fd6111ba-e172-4463-91c3-5f87d943cfc2",
+ "geneOntologyId": null
+ }
+ ]
+ }
+ }
+ }
]
},
{
@@ -11719,6 +11916,18 @@
"labelIndex": 10671,
"children": []
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Hypothalamus (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f0a1bb41-cf2b-4d27-ab08-59b53f66fd48",
+ "alternateOf": []
+ }
+ }
+ }
]
}
]
@@ -12910,6 +13119,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Midbrain (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "80deb95d-0d4f-4b3a-818e-7a7871ef7872",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -14855,6 +15076,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Brain stem (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "041b424e-670b-4918-b592-09bde6c3ec92",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -15978,6 +16211,18 @@
}
]
}
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Cerebellum (v3 2017)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c20af5e0-b577-4b2f-8510-77ab3df12e8a",
+ "alternateOf": []
+ }
+ }
+ }
]
}
]
@@ -19136,7 +19381,15 @@
"name": "root",
"labelIndex": 997,
"relatedAreas": [
- "Whole brain"
+ {
+ "name": "Whole brain",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2bdfac7a-b38c-4c55-9843-0b56cb90bb67"
+ }
+ }
+ }
],
"children": [
{
@@ -19862,7 +20115,18 @@
"kgId": "368c29b4-affd-46cf-ac89-ce6d520759b1"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary motor area (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "368c29b4-affd-46cf-ac89-ce6d520759b1",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Secondary motor area",
@@ -20146,7 +20410,18 @@
"kgId": "af019af1-3b69-42ac-be17-f1c2a1058329"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Secondary motor area (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "af019af1-3b69-42ac-be17-f1c2a1058329",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
}
],
"ontologyMetadata": {
@@ -20184,6 +20459,18 @@
2707500,
1817500
]
+ ],
+ "relatedAreas": [
+ {
+ "name": "Mouse Somatomotor areas (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "efd54363-f773-4250-aafe-3b39e07da82d",
+ "alternateOf": []
+ }
+ }
+ }
]
},
{
@@ -20796,7 +21083,18 @@
"kgId": "6321aaf1-e663-48ac-a2e4-a0b53b2a4941"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary somatosensory area, nose (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6321aaf1-e663-48ac-a2e4-a0b53b2a4941",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Primary somatosensory area, barrel field",
@@ -21281,7 +21579,18 @@
"kgId": "a2c0a613-0507-4878-a305-0b8455121e3a"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary somatosensory area, barrel field (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a2c0a613-0507-4878-a305-0b8455121e3a",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Primary somatosensory area, lower limb",
@@ -21611,7 +21920,18 @@
"kgId": "2442b0a6-5a4b-433f-b24c-24973831f4f4"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Primary somatosensory area, lower limb (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2442b0a6-5a4b-433f-b24c-24973831f4f4",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Primary somatosensory area, mouth",
@@ -21934,6 +22254,18 @@
2017500,
1027500
]
+ ],
+ "relatedAreas": [
+ {
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"name": "Anterior cingulate area, ventral part",
@@ -29278,7 +29770,25 @@
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}
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{
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@@ -32245,7 +32755,18 @@
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}
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@@ -32575,7 +33096,18 @@
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@@ -32881,7 +33413,18 @@
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@@ -33720,7 +34286,18 @@
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@@ -36972,7 +37585,19 @@
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@@ -37016,7 +37641,19 @@
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@@ -40690,7 +41381,25 @@
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}
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@@ -43209,7 +43966,18 @@
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{
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@@ -57651,7 +58479,18 @@
"kgId": "a470f51b-bf1f-4c63-a18f-df2ea2c65f3f"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Brain stem (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a470f51b-bf1f-4c63-a18f-df2ea2c65f3f",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Cerebellum",
@@ -59012,7 +59851,18 @@
"kgId": "8b7490d6-bde7-438a-aee9-34820860fe12"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Vermal regions (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8b7490d6-bde7-438a-aee9-34820860fe12",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Hemispheric regions",
@@ -60277,7 +61127,18 @@
"kgId": "caa2c52c-0d6c-4eba-b2b6-5414cc241553"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Mouse Cerebellum (v3 2015)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "caa2c52c-0d6c-4eba-b2b6-5414cc241553",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
}
],
"ontologyMetadata": {
diff --git a/src/res/ext/waxholmRatV2_0.json b/src/res/ext/waxholmRatV2_0.json
index 6b0c9fd80c19f7692d1473dfc4819d08b159a7f1..a3800e9509ac9fa57d8782f3d85328d48b76a25e 100644
--- a/src/res/ext/waxholmRatV2_0.json
+++ b/src/res/ext/waxholmRatV2_0.json
@@ -740,7 +740,18 @@
"kgId": "b4ab5ba5-0753-4ffb-80f9-ccd5d85cb6ac"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Rat Neocortex (v3)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0db35172-495f-494d-9c14-01a2d6c7e398",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"ngId": "v3",
@@ -826,7 +837,19 @@
79,
255
],
- "children": []
+ "children": [],
+ "relatedAreas": [
+ {
+ "name": "Rat Striatum (v3)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a06b8f76-c92e-4b16-9281-4c314a925ee4",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"ngId": "v3",
@@ -1158,7 +1181,18 @@
"kgId": "a844d80f-1d94-41a0-901a-14ae257519db"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Rat Cerebellum (v3)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f29cd2fd-fa5c-412f-b83e-7832c3cff80b",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"ngId": "v3",
@@ -1555,7 +1589,18 @@
"kgId": "b2b56201-472c-4f70-842f-cf2133eacaba"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Rat Whole brain (v3)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "781a8728-4178-4af4-b3e9-3e61ea5bc3cd",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
}
],
"properties": {
@@ -2444,7 +2489,19 @@
193,
45
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Neocortex (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b4ab5ba5-0753-4ffb-80f9-ccd5d85cb6ac",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "cingulate cortex, area 2",
@@ -2478,7 +2535,19 @@
131,
107
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Cornu ammonis 1 (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8b9dc624-b341-4b6a-9a9a-ac651c704daf",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "dentate gyrus",
@@ -2512,7 +2581,19 @@
255,
0
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Cornu ammonis 2 (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3017940f-ea61-47d1-8b8a-fc2bee012980",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "cornu ammonis 3",
@@ -2528,7 +2609,19 @@
104,
13
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Cornu ammonis 3 (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "28b4ba4a-eeb3-4307-8b9c-1d3eca66618e",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "fasciola cinereum",
@@ -2628,7 +2721,19 @@
51,
255
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Perirhinal area 35 (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b700dc11-cdd8-4e95-9605-25d1aa24bc46",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "perirhinal area 36",
@@ -2644,7 +2749,19 @@
48,
160
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Perirhinal area 36 (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "ae4b1c4f-83a4-48db-8f8c-2167c4ebc2d5",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "entorhinal cortex",
@@ -2696,7 +2813,19 @@
79,
255
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Striatum (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "39ed89c6-4653-4fd3-81cf-3be1c60ead10",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "globus pallidus",
@@ -2714,7 +2843,19 @@
145,
186
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Globus pallidus (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ab96590-23e6-413f-8055-6b6dbc543dce",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "entopeduncular nucleus",
@@ -2732,7 +2873,19 @@
231,
255
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Entopeduncular nucleus (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0026b0c8-da96-4329-8e29-8504dc2790d3",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "subthalamic nucleus",
@@ -2750,7 +2903,19 @@
0,
255
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Subthalamic nucleus (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "916d047f-a4f3-4d5b-89f9-b7c8ddc98edf",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "basal forebrain region",
@@ -2804,7 +2969,19 @@
100,
0
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Thalamus (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9f7936a8-08bd-4fc0-b8c7-f057befac01d",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "bed nucleus of the stria terminalis",
@@ -2858,7 +3035,19 @@
120,
161
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Hypothalamic region (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e96b882e-cd42-4e10-9e72-a87219c3f9b2",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "pineal gland",
@@ -2981,7 +3170,19 @@
186,
0
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Substantia nigra (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "4338cc81-ab0f-4972-bbba-c86328a8c66b",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "interpeduncular nucleus",
@@ -3035,7 +3236,19 @@
215,
11
],
- "children": null
+ "children": null,
+ "relatedAreas": [
+ {
+ "name": "Rat Pontine nuclei (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9c431f67-90c5-4a37-83c8-9706e62c1966",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "Cerebellum",
@@ -3093,7 +3306,18 @@
"kgId": "a844d80f-1d94-41a0-901a-14ae257519db"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Rat Cerebellum (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a844d80f-1d94-41a0-901a-14ae257519db",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
},
{
"name": "inferior olive",
@@ -3227,7 +3451,18 @@
"kgId": "b2b56201-472c-4f70-842f-cf2133eacaba"
}
},
- "relatedAreas": []
+ "relatedAreas": [
+ {
+ "name": "Rat Whole brain (v2)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b2b56201-472c-4f70-842f-cf2133eacaba",
+ "alternateOf": []
+ }
+ }
+ }
+ ]
}
],
"properties": {