diff --git a/.github/workflows/e2e.yml b/.github/workflows/e2e.yml
index 796d2d4a01ef281f52332cb4f0055a872f367b5f..3e4c12d5b20f71c06f145b2c03b9bbd26718d361 100644
--- a/.github/workflows/e2e.yml
+++ b/.github/workflows/e2e.yml
@@ -8,7 +8,10 @@ on:
env:
DOCKER_IMAGE_NAME: interactive-viewer
DOCKER_IMAGE_TAG: ${{ github.sha }}
- DOCKER_CONTAINER_NAME: github-actions-iav-dkr-container
+ DOCKER_CONTAINER_NAME: gha-iav-built-${{ github.sha }}
+ DOCKER_E2E_PPTR: gha-iav-e2e-pptr-${{ github.sha }}
+ DOCKER_E2E_NETWORK: gha-dkr-network-${{ github.sha }}
+ ATLAS_URL: http://gha-iav-built-${{ github.sha }}:3000
jobs:
buildimage:
@@ -24,22 +27,15 @@ jobs:
run: |
docker build --build-arg BACKEND_URL=${BACKEND_URL} -t ${DOCKER_IMAGE_NAME}:${DOCKER_IMAGE_TAG} .
env:
- BACKEND_URL: http://localhost:3001/
+ BACKEND_URL: ${{ env.ATLAS_URL }}
test:
runs-on: self-hosted
needs: buildimage
steps:
- - uses: actions/checkout@v2
- with:
- fetch-depth: 2
- repository: 'FZJ-INM1-BDA/iv-automated-tests'
- - name: Install dependencies
- run: |
- npm i
- - name: run docker image ${{ env.DOCKER_IMAGE_NAME }}:${{ env.DOCKER_IMAGE_TAG }}
+ - name: run docker image ${{ env.DOCKER_IMAGE_NAME }}:${{ env.DOCKER_IMAGE_TAG }} as container ${{ env.DOCKER_CONTAINER_NAME }}
run: |
- docker run -p 3001:3000 \
+ docker run \
--rm \
--name ${DOCKER_CONTAINER_NAME} \
--env HBP_CLIENTID=${{ secrets.HBP_CLIENTID }} \
@@ -47,15 +43,31 @@ jobs:
--env REFRESH_TOKEN=${{ secrets.REFRESH_TOKEN }} \
-dit \
${DOCKER_IMAGE_NAME}:${DOCKER_IMAGE_TAG}
- - name: sleep for 60s
- run: sleep 60s
- - name: run pptr tests - ${{ env.TEST_URL }}
- run: node ./node_modules/.bin/mocha ./test/databrowser.spec.js --timeout 1800000
- env:
- TEST_URL: http://localhost:3001
+
+ - uses: actions/checkout@v1
+ - name: Start pptr docker container with name ${{ env.DOCKER_E2E_PPTR }}
+ run: |
+ docker run --rm \
+ --name ${DOCKER_E2E_PPTR} \
+ -dt \
+ puppeteer
+ docker cp . ${DOCKER_E2E_PPTR}:/iav
+ docker exec -u root ${DOCKER_E2E_PPTR} chown -R pptruser:pptruser /iav
+ docker exec -t -w /iav ${DOCKER_E2E_PPTR} npm i
+ docker exec -t -w /iav ${DOCKER_E2E_PPTR} npm run wd -- update --versions.chrome latest
+ docker exec -t ${DOCKER_E2E_PPTR} npm i puppeteer
+ - name: Setup docker network
+ run: |
+ docker network create ${{ env.DOCKER_E2E_NETWORK }}
+ docker network connect ${{ env.DOCKER_E2E_NETWORK }} ${{ env.DOCKER_E2E_PPTR }}
+ docker network connect ${{ env.DOCKER_E2E_NETWORK }} ${{ env.DOCKER_CONTAINER_NAME }}
+ - name: run pptr tests - ${{ env.ATLAS_URL }}
+ run: |
+ docker exec --env ATLAS_URL=${ATLAS_URL} -t -w /iav ${DOCKER_E2E_PPTR} npm run e2e
- name: cleanup, stop container ${{ env.DOCKER_CONTAINER_NAME }}
- if: always()
- run: docker stop ${DOCKER_CONTAINER_NAME}
- - name: cleanup, remove image ${{ env.DOCKER_IMAGE_NAME }}:${{ env.DOCKER_IMAGE_TAG }}
if: success()
- run: docker rmi ${DOCKER_IMAGE_NAME}:${DOCKER_IMAGE_TAG}
+ run: |
+ docker stop ${DOCKER_CONTAINER_NAME}
+ docker stop ${DOCKER_E2E_PPTR}
+ docker network rm ${DOCKER_E2E_NETWORK}
+ docker rmi ${DOCKER_IMAGE_NAME}:${DOCKER_IMAGE_TAG}
diff --git a/Dockerfile b/Dockerfile
index 87199619f483ddfe45793a012c87171032ece2b7..588e1efca446da79f6d454c1b7c3153522e9117b 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -34,6 +34,9 @@ RUN apk --no-cache add ca-certificates
RUN mkdir /iv-app
WORKDIR /iv-app
+# Copy common folder
+COPY --from=builder /iv/common /common
+
# Copy the express server
COPY --from=builder /iv/deploy .
diff --git a/common/util.js b/common/util.js
new file mode 100644
index 0000000000000000000000000000000000000000..74a3ff1f21886fc60554fb60ee49bd66ee8773d2
--- /dev/null
+++ b/common/util.js
@@ -0,0 +1,15 @@
+(function(exports) {
+ exports.getIdFromFullId = fullId => {
+ if (!fullId) return null
+ if (typeof fullId === 'string') {
+ const re = /\/([a-z]{1,}\/[a-z]{1,}\/[a-z]{1,}\/v[0-9.]{1,}\/[0-9a-z-]{1,}$)/.exec(fullId)
+ if (re) return re[1]
+ return null
+ } else {
+ const { kg = {} } = fullId
+ const { kgSchema , kgId } = kg
+ if (!kgSchema || !kgId) return null
+ return `${kgSchema}/${kgId}`
+ }
+ }
+})(typeof exports === 'undefined' ? module.exports : exports)
diff --git a/common/util.spec.js b/common/util.spec.js
new file mode 100644
index 0000000000000000000000000000000000000000..4597a54db648521dd029fb002f22ef56436d3b51
--- /dev/null
+++ b/common/util.spec.js
@@ -0,0 +1,20 @@
+import { getIdFromFullId } from './util'
+
+describe('common/util.js', () => {
+ describe('getIdFromFullId', () => {
+ it('should return correct kgId for regions fetched from kg', () => {
+ const id = 'https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/675a6ce9-ef26-4e68-9852-54afeb24923c'
+ expect(getIdFromFullId(id)).toBe('minds/core/parcellationregion/v1.0.0/675a6ce9-ef26-4e68-9852-54afeb24923c')
+ })
+
+ it('should return correct id for regions in hierarchy', () => {
+ const fullId = {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a844d80f-1d94-41a0-901a-14ae257519db"
+ }
+ }
+ expect(getIdFromFullId(fullId)).toBe(`minds/core/parcellationregion/v1.0.0/a844d80f-1d94-41a0-901a-14ae257519db`)
+ })
+ })
+})
diff --git a/deploy/datasets/testData/allen2015.js b/deploy/datasets/testData/allen2015.js
index 7c3afd5e2d0b4021446d7402ff6c44805fb4f3ec..d8d00647d1ac2eb5dcf42993590e359d2a0c36e9 100644
--- a/deploy/datasets/testData/allen2015.js
+++ b/deploy/datasets/testData/allen2015.js
@@ -1,23 +1,10 @@
module.exports = [
{
"formats": [],
- "datasetDOI": [
- {
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ],
+ "datasetDOI": [],
"activity": [
{
- "protocols": [
- "Immunohistochemistry",
- "Atlas",
- "Brain-wide",
- "Synaptic transmission",
- "Neurtransmitter transport",
- "Glutamate uptake",
- "GLT1"
- ],
+ "protocols": [],
"preparation": [
"Ex vivo"
]
@@ -25,200 +12,72 @@ module.exports = [
],
"referenceSpaces": [],
"methods": [
- "Immunohistochemistry"
+ "Patch clamp techniques",
+ "Voltage clamp recording",
+ "Single electrode recording",
+ "Knockin"
],
"custodians": [
- "Danbolt, Niels C."
+ "Cherubini, Enrico"
],
"project": [
- "Rodent brain neurotransporter atlas: GLT1"
+ "STDP"
],
- "description": "Glutamate is the major excitatory transmitter in the central nervous system (Danbolt, Prog. Neurobiol. 65:1-105, 2001). It is inactivated by cellular uptake, mostly catalyzed by the glutamate transporters GLT1 (slc1a2, excitatory amino acid transporter [EAAT2]) subtype expressed at high levels in brain astrocytes and at lower levels in neurons. Three C-terminal variants of EAAT2 exist: GLT1a (Pines et al., Nature 360:464-467, 1992), GLT1b (Utsunomiya-Tate et al., FEBS Lett 416:312-326,1997), and GLT1c (Rauen et al., Neurochem. Int. 45:1095-1106, 2004). This dataset is brain-wide collection of microscopic images showing the brain-wide distribution of GLT1 in the mouse and rat brain, visualized by immunohistochemistry using antibodies against GLT1a and GLT1b. To facilitate identification of anatomical location adjacent section were stained to reveal cyto- and myeloarchitecture.",
+ "description": "Spike-time dependent plasticity (STDP is a particular form of Hebbian type of learning which consists in bidirectional modifications of synaptic strength according to the temporal order of pre- and postsynaptic spiking (*Dan Y1, Poo MM (2006) Spike timing-dependent plasticity: from synapse to perception. Physiol Rev 86:1033-1048*). Thus, positively correlated pre- and postsynaptic spiking (pre before post) within a critical window leads to long term potentiation (LTP), whereas a negative correlation (post before pre) leads to long term depression (LTD). \nAt the neonatal stage, the hippocampal mossy fiber (MF)-CA3 is GABAergic and exhibits STDP. Our data demonstrate that, at the same age, positive pairing fails to induce STD-LTP at MF-CA3 synapses in hippocampal slices obtained from neuroligin-3 (NL3) knock-in (NL3<sup>R451C</sup> KI) and NL3 knock-out (KO) mice. Similarly, in NLR<sup>451C</sup> KI mice, negative pairing failed to cause STD-LTD. In contrast, STD-LTP and STD-LTD can be readily produced in control age-matched WT littermates. In NLR<sup>451C</sup> KI mice, the impairment in STD-LTP is maintained in adulthood when MF are glutamatergic. This set of data refers to the neonate, NLR<sup>451C</sup> KI, positive pairing condition.",
"parcellationAtlas": [
{
"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",
"id": "39a1384b-8413-4d27-af8d-22432225401f"
- },
- {
- "name": "Waxholm Space rat brain atlas v2",
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/2449a7f0-6dd0-4b5a-8f1e-aec0db03679d",
- "id": "2449a7f0-6dd0-4b5a-8f1e-aec0db03679d"
}
],
"licenseInfo": [
{
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "url": "https://creativecommons.org/licenses/by-sa/4.0"
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
}
],
"embargoStatus": [
- "Free"
+ "Embargoed"
],
"license": [
{
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "relativeUrl": "minds/core/licensetype/v1.0.0/78a3bfb2-f4b9-40f0-869c-34b5e48a45bd"
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "relativeUrl": "minds/core/licensetype/v1.0.0/88e71f2d-4fcc-4cb1-bc9f-cbab9ab2058b"
}
],
"parcellationRegion": [
- {
- "species": [],
- "name": "Mouse Whole brain (v3 2015)",
- "alias": "Whole brain"
- },
{
"species": [
{
"identifier": [
- "e9a384ea8a4edf817710b6edef5f2940",
- "5401fdb1d638c2bc5b68241560cddac0"
+ "899694120d41aab8054900b51d369ef8",
+ "e07b81dd7bbdf2727f6df2f4013ed025"
],
- "name": "Rattus norvegicus",
- "@id": "https://nexus.humanbrainproject.org/v0/data/minds/core/species/v1.0.0/f3490d7f-8f7f-4b40-b238-963dcac84412"
+ "name": "Mus musculus",
+ "@id": "https://nexus.humanbrainproject.org/v0/data/minds/core/species/v1.0.0/cfc1656c-67d1-4d2c-a17e-efd7ce0df88c"
}
],
- "name": "Whole Brain ",
- "alias": "Whole brain"
+ "name": "Mouse Hippocampal region (v3 2015)",
+ "alias": "Hippocampal region",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/fc429031-1632-49a4-b9c6-00ab72100c85"
}
],
"species": [
- "Rattus norvegicus",
"Mus musculus"
],
- "name": "Brain-wide distribution of glutamate type 1 transporter protein (GLT1)",
+ "name": "Spike time dependent plasticity (STDP) data from neonate neuroligin-3 knock-in mice, positive pairing",
"files": [],
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/f7a7d460-8724-4cd1-a06e-457eb8954fbd",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/88e4e64e-b053-48b3-828b-306e386621e0",
"contributors": [
- "Danbolt, Nils C.",
- "Bjaalie, Jan G.",
- "Leergaard, Trygve B.",
- "Lehre, K.P.",
- "Real, Katia",
- "Scott, Heather A.",
- "Holmseth, Silvia"
+ "Cherubini, Enrico",
+ "Sgritta, Martina",
+ "Marchetti, Cristina"
],
- "id": "63bbb845ac6d2f1839f919c2ef0455bc",
+ "id": "1a6cbd0b55a13e7b8775d3417281a83f",
"kgReference": [
- "10.25493/Y147-2CE"
- ],
- "publications": [
- {
- "name": "The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation",
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ]
- },
- {
- "formats": [],
- "datasetDOI": [
- {
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ],
- "activity": [
- {
- "protocols": [
- "Immunohistochemistry",
- "Atlas",
- "Brain-wide",
- "Synaptic transmission",
- "Neurtransmitter transport",
- "Glutamate uptake",
- "GLT1"
- ],
- "preparation": [
- "Ex vivo"
- ]
- }
- ],
- "referenceSpaces": [],
- "methods": [
- "Immunohistochemistry"
- ],
- "custodians": [
- "Danbolt, Niels C."
+ "10.25493/PF1P-YSE"
],
- "project": [
- "Rodent brain neurotransporter atlas: GLT1"
- ],
- "description": "Glutamate is the major excitatory transmitter in the central nervous system (Danbolt, Prog. Neurobiol. 65:1-105, 2001). It is inactivated by cellular uptake, mostly catalyzed by the glutamate transporters GLT1 (slc1a2, excitatory amino acid transporter [EAAT2]) subtype expressed at high levels in brain astrocytes and at lower levels in neurons. Three C-terminal variants of EAAT2 exist: GLT1a (Pines et al., Nature 360:464-467, 1992), GLT1b (Utsunomiya-Tate et al., FEBS Lett 416:312-326,1997), and GLT1c (Rauen et al., Neurochem. Int. 45:1095-1106, 2004). This dataset is brain-wide collection of microscopic images showing the brain-wide distribution of GLT1 in the mouse and rat brain, visualized by immunohistochemistry using antibodies against GLT1a and GLT1b. To facilitate identification of anatomical location adjacent section were stained to reveal cyto- and myeloarchitecture.",
- "parcellationAtlas": [
- {
- "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",
- "id": "39a1384b-8413-4d27-af8d-22432225401f"
- },
- {
- "name": "Waxholm Space rat brain atlas v2",
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/2449a7f0-6dd0-4b5a-8f1e-aec0db03679d",
- "id": "2449a7f0-6dd0-4b5a-8f1e-aec0db03679d"
- }
- ],
- "licenseInfo": [
- {
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "url": "https://creativecommons.org/licenses/by-sa/4.0"
- }
- ],
- "embargoStatus": [
- "Free"
- ],
- "license": [
- {
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "relativeUrl": "minds/core/licensetype/v1.0.0/78a3bfb2-f4b9-40f0-869c-34b5e48a45bd"
- }
- ],
- "parcellationRegion": [
- {
- "species": [],
- "name": "Mouse Whole brain (v3 2015)",
- "alias": "Whole brain"
- },
- {
- "species": [
- {
- "identifier": [
- "e9a384ea8a4edf817710b6edef5f2940",
- "5401fdb1d638c2bc5b68241560cddac0"
- ],
- "name": "Rattus norvegicus",
- "@id": "https://nexus.humanbrainproject.org/v0/data/minds/core/species/v1.0.0/f3490d7f-8f7f-4b40-b238-963dcac84412"
- }
- ],
- "name": "Whole Brain ",
- "alias": "Whole brain"
- }
- ],
- "species": [
- "Rattus norvegicus",
- "Mus musculus"
- ],
- "name": "Brain-wide distribution of glutamate type 1 transporter protein (GLT1)",
- "files": [],
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/f7a7d460-8724-4cd1-a06e-457eb8954fbd",
- "contributors": [
- "Danbolt, Nils C.",
- "Bjaalie, Jan G.",
- "Leergaard, Trygve B.",
- "Lehre, K.P.",
- "Real, Katia",
- "Scott, Heather A.",
- "Holmseth, Silvia"
- ],
- "id": "63bbb845ac6d2f1839f919c2ef0455bc",
- "kgReference": [
- "10.25493/Y147-2CE"
- ],
- "publications": [
- {
- "name": "The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation",
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ]
+ "publications": []
}
]
\ No newline at end of file
diff --git a/deploy/datasets/testData/mni152.js b/deploy/datasets/testData/hoc1pmap.js
similarity index 65%
rename from deploy/datasets/testData/mni152.js
rename to deploy/datasets/testData/hoc1pmap.js
index b7f11f1608db7a22c0b84558eb02ab547dfad6c1..3cd032968a85c4696ed35c9554dd0dc6c93f333c 100644
--- a/deploy/datasets/testData/mni152.js
+++ b/deploy/datasets/testData/hoc1pmap.js
@@ -82,14 +82,46 @@ module.exports = [
{
"species": [],
"name": "Area hOc1 (V1, 17, CalcS)",
- "alias": null
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/5151ab8f-d8cb-4e67-a449-afe2a41fb007"
}
],
"species": [
"Homo sapiens"
],
"name": "Probabilistic cytoarchitectonic map of Area hOc1 (V1, 17, CalcS) (v2.4)",
- "files": [],
+ "files": [
+ {
+ "byteSize": 199561,
+ "name": "Area-hOc1_r_N10_nlin2Stdcolin27_2.4_publicP_b3b742528b1d1a933c89b2604d23028d.nii.gz",
+ "absolutePath": "https://object.cscs.ch/v1/AUTH_227176556f3c4bb38df9feea4b91200c/hbp-d000001_jubrain-cytoatlas-Area-hOc1_pub/2.4/Area-hOc1_r_N10_nlin2Stdcolin27_2.4_publicP_b3b742528b1d1a933c89b2604d23028d.nii.gz",
+ "contentType": "application/octet-stream"
+ },
+ {
+ "byteSize": 217968,
+ "name": "Area-hOc1_l_N10_nlin2Stdcolin27_2.4_publicP_788fe1ea663b1fa4e7e9a8b5cf26c5d6.nii.gz",
+ "absolutePath": "https://object.cscs.ch/v1/AUTH_227176556f3c4bb38df9feea4b91200c/hbp-d000001_jubrain-cytoatlas-Area-hOc1_pub/2.4/Area-hOc1_l_N10_nlin2Stdcolin27_2.4_publicP_788fe1ea663b1fa4e7e9a8b5cf26c5d6.nii.gz",
+ "contentType": "application/octet-stream"
+ },
+ {
+ "byteSize": 188966,
+ "name": "Area-hOc1_l_N10_nlin2MNI152ASYM2009C_2.4_publicP_d3045ee3c0c4de9820eb1516d2cc72bb.nii.gz",
+ "absolutePath": "https://object.cscs.ch/v1/AUTH_227176556f3c4bb38df9feea4b91200c/hbp-d000001_jubrain-cytoatlas-Area-hOc1_pub/2.4/Area-hOc1_l_N10_nlin2MNI152ASYM2009C_2.4_publicP_d3045ee3c0c4de9820eb1516d2cc72bb.nii.gz",
+ "contentType": "application/octet-stream"
+ },
+ {
+ "byteSize": 181550,
+ "name": "Area-hOc1_r_N10_nlin2MNI152ASYM2009C_2.4_publicP_a48ca5d938781ebaf1eaa25f59df74d0.nii.gz",
+ "absolutePath": "https://object.cscs.ch/v1/AUTH_227176556f3c4bb38df9feea4b91200c/hbp-d000001_jubrain-cytoatlas-Area-hOc1_pub/2.4/Area-hOc1_r_N10_nlin2MNI152ASYM2009C_2.4_publicP_a48ca5d938781ebaf1eaa25f59df74d0.nii.gz",
+ "contentType": "application/octet-stream"
+ },
+ {
+ "byteSize": 20,
+ "name": "subjects_Area-hOc1.csv",
+ "absolutePath": "https://object.cscs.ch/v1/AUTH_227176556f3c4bb38df9feea4b91200c/hbp-d000001_jubrain-cytoatlas-Area-hOc1_pub/subjects_Area-hOc1.csv",
+ "contentType": "text/csv"
+ }
+ ],
"fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/5c669b77-c981-424a-858d-fe9f527dbc07",
"contributors": [
"Zilles, Karl",
@@ -108,6 +140,7 @@ module.exports = [
"cite": "Amunts, K., Malikovic, A., Mohlberg, H., Schormann, T., & Zilles, K. (2000). Brodmann’s Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable? NeuroImage, 11(1), 66–84. ",
"doi": "10.1006/nimg.1999.0516"
}
- ]
+ ],
+ "preview": true
}
]
\ No newline at end of file
diff --git a/deploy/datasets/testData/mni152JuBrain.js b/deploy/datasets/testData/mni152JuBrain.js
new file mode 100644
index 0000000000000000000000000000000000000000..788d622c47c85e9318868752bd2c14686df37f7e
--- /dev/null
+++ b/deploy/datasets/testData/mni152JuBrain.js
@@ -0,0 +1,337 @@
+module.exports = [
+ {
+ "formats": [
+ "NIFTI"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Amunts, K., Malikovic, A., Mohlberg, H., Schormann, T., & Zilles, K. (2000). Brodmann’s Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable? NeuroImage, 11(1), 66–84. ",
+ "doi": "10.1006/nimg.1999.0516"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "imaging"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [
+ {
+ "name": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2"
+ },
+ {
+ "name": "MNI Colin 27",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992"
+ }
+ ],
+ "methods": [
+ "silver staining",
+ "magnetic resonance imaging (MRI)",
+ "probability mapping",
+ "cytoarchitectonic mapping"
+ ],
+ "custodians": [
+ "Amunts, Katrin"
+ ],
+ "project": [
+ "JuBrain: cytoarchitectonic probabilistic maps of the human brain"
+ ],
+ "description": "This dataset contains the distinct architectonic Area hOc1 (V1, 17, CalcS) in the individual, single subject template of the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. As part of the JuBrain cytoarchitectonic atlas, the area was identified using cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then mapped to both reference spaces, where each voxel was assigned the probability to belong to Area hOc1 (V1, 17, CalcS). The probability map of Area hOc1 (V1, 17, CalcS) are provided in the NifTi format for each brain reference space and hemisphere. The JuBrain atlas relies on a modular, flexible and adaptive framework containing workflows to create the probabilistic brain maps for these structures. Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets.",
+ "parcellationAtlas": [
+ {
+ "name": "Jülich Cytoarchitechtonic Brain Atlas (human)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/94c1125b-b87e-45e4-901c-00daee7f2579",
+ "id": [
+ "deec923ec31a82f89a9c7c76a6fefd6b",
+ "e2d45e028b6da0f6d9fdb9491a4de80a"
+ ]
+ }
+ ],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area hOc1 (V1, 17, CalcS)",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/5151ab8f-d8cb-4e67-a449-afe2a41fb007"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Probabilistic cytoarchitectonic map of Area hOc1 (V1, 17, CalcS) (v2.4)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/5c669b77-c981-424a-858d-fe9f527dbc07",
+ "contributors": [
+ "Zilles, Karl",
+ "Schormann, Thorsten",
+ "Mohlberg, Hartmut",
+ "Malikovic, Aleksandar",
+ "Amunts, Katrin"
+ ],
+ "id": "5c669b77-c981-424a-858d-fe9f527dbc07",
+ "kgReference": [
+ "10.25493/MXJ6-6DH"
+ ],
+ "publications": [
+ {
+ "name": "Brodmann's Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable?",
+ "cite": "Amunts, K., Malikovic, A., Mohlberg, H., Schormann, T., & Zilles, K. (2000). Brodmann’s Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable? NeuroImage, 11(1), 66–84. ",
+ "doi": "10.1006/nimg.1999.0516"
+ }
+ ]
+ },{
+ "formats": [
+ "xlsx, tif, txt"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Eickhoff, S. B., Schleicher, A., Scheperjans, F., Palomero-Gallagher, N., & Zilles, K. (2007). Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex. NeuroImage, 34(4), 1317–1330. ",
+ "doi": "10.1016/j.neuroimage.2006.11.016"
+ },
+ {
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [],
+ "methods": [
+ "receptor autoradiography plot",
+ "receptor density fingerprint analysis",
+ "receptor density profile analysis",
+ "autoradiography with [³H] SCH23390",
+ "autoradiography with [³H] ketanserin",
+ "autoradiography with [³H] 8-OH-DPAT",
+ "autoradiography with [³H] UK-14,304",
+ "autoradiography with [³H] epibatidine",
+ "autoradiography with [³H] 4-DAMP",
+ "autoradiography with [³H] oxotremorine-M",
+ "autoradiography with [³H] flumazenil",
+ "autoradiography with [³H] CGP 54626",
+ "autoradiography with [³H] prazosin",
+ "autoradiography with [³H] muscimol",
+ "autoradiography with [³H]LY 341 495",
+ "autoradiography with [³H] pirenzepine",
+ "autoradiography with [³H] MK-801",
+ "autoradiography with [³H] kainate",
+ "autoradiography with [³H] AMPA"
+ ],
+ "custodians": [
+ "Palomero-Gallagher, Nicola",
+ "Zilles, Karl"
+ ],
+ "project": [
+ "Quantitative Receptor data"
+ ],
+ "description": "This dataset contains the densities (in fmol/mg protein) of 16 receptors for classical neurotransmitters in Area hOc1 using quantitative in vitro autoradiography. The receptor density measurements can be provided in three ways: (fp) as density fingerprints (average across samples; mean density and standard deviation for each of the 16 receptors), (pr) as laminar density profiles (exemplary data from one sample; average course of the density from the pial surface to the border between layer VI and the white matter for each receptor), and (ar) as color-coded autoradiographs (exemplary data from one sample; laminar density distribution patterns for each receptor labeling). \nThis dataset contains the following receptor density measurements based on the labeling of these receptor binding sites: \n\nAMPA (glutamate; labelled with [³H]AMPA): fp, pr, ar\n\nkainate (glutamate; [³H]kainate): fp, pr, ar\n\nNMDA (glutamate; [³H]MK-801): fp, pr, ar\n\nmGluR2/3 (glutamate; [³H] LY 341 495): pr, ar\n\nGABA<sub>A</sub> (GABA; [³H]muscimol): fp, pr, ar\n\nGABA<sub>B</sub> (GABA; [³H] CGP54626): fp, pr, ar\n\nGABA<sub>A</sub> associated benzodiazepine binding sites (BZ; [³H]flumazenil): fp, pr, ar\n\nmuscarinic Mâ‚ (acetylcholine; [³H]pirenzepine): fp, pr, ar\n\nmuscarinic Mâ‚‚ (acetylcholine; [³H]oxotremorine-M): fp, pr, ar\n\nmuscarinic M₃ (acetylcholine; [³H]4-DAMP): fp, pr, ar\n\nnicotinic α₄β₂ (acetylcholine; [³H]epibatidine): fp, pr, ar\n\nα₠(noradrenalin; [³H]prazosin): fp, pr, ar\n\nα₂ (noradrenalin; [³H]UK-14,304): fp, pr, ar\n\n5-HTâ‚<sub>A</sub> (serotonin; [³H]8-OH-DPAT): fp, pr, ar\n\n5-HTâ‚‚ (serotonin; [³H]ketanserin): fp, pr, ar\n\nDâ‚ (dopamine; [³H]SCH23390): fp, pr, ar\n\nWhich sample was used for which receptor density measurement is stated in metadata files accompanying the main data repository. For methodological details, see Zilles et al. (2002), and in Palomero-Gallagher and Zilles (2018).\n\nZilles, K. et al. (2002). Quantitative analysis of cyto- and receptorarchitecture of the human brain, pp. 573-602. In: Brain Mapping: The Methods, 2nd edition (A.W. Toga and J.C. Mazziotta, eds.). San Diego, Academic Press.\n\nPalomero-Gallagher N, Zilles K. (2018) Cyto- and receptorarchitectonic mapping of the human brain. In: Handbook of Clinical Neurology 150: 355-387",
+ "parcellationAtlas": [],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area hOc1",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/b851eb9d-9502-45e9-8dd8-2861f0e6da3f"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Density measurements of different receptors for Area hOc1",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/e715e1f7-2079-45c4-a67f-f76b102acfce",
+ "contributors": [
+ "Scheperjans, Filip",
+ "Schleicher, Axel",
+ "Eickhoff, Simon B.",
+ "Friederici, Angela D.",
+ "Amunts, Katrin",
+ "Palomero-Gallagher, Nicola",
+ "Bacha-Trams, Maraike",
+ "Zilles, Karl"
+ ],
+ "id": "0616d1e97b8be75de526bc265d9af540",
+ "kgReference": [
+ "10.25493/P8SD-JMH"
+ ],
+ "publications": [
+ {
+ "name": "Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex",
+ "cite": "Eickhoff, S. B., Schleicher, A., Scheperjans, F., Palomero-Gallagher, N., & Zilles, K. (2007). Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex. NeuroImage, 34(4), 1317–1330. ",
+ "doi": "10.1016/j.neuroimage.2006.11.016"
+ },
+ {
+ "name": "Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints",
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ]
+ },{
+ "formats": [
+ "xlsx, tif, txt"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Amunts, K., Lenzen, M., Friederici, A. D., Schleicher, A., Morosan, P., Palomero-Gallagher, N., & Zilles, K. (2010). Broca’s Region: Novel Organizational Principles and Multiple Receptor Mapping. PLoS Biology, 8(9), e1000489. ",
+ "doi": "10.1371/journal.pbio.1000489"
+ },
+ {
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [],
+ "methods": [
+ "receptor autoradiography plot",
+ "receptor density fingerprint analysis",
+ "receptor density profile analysis",
+ "autoradiography with [³H] SCH23390",
+ "autoradiography with [³H] ketanserin",
+ "autoradiography with [³H] 8-OH-DPAT",
+ "autoradiography with [³H] UK-14,304",
+ "autoradiography with [³H] epibatidine",
+ "autoradiography with [³H] 4-DAMP",
+ "autoradiography with [³H] oxotremorine-M",
+ "autoradiography with [³H] flumazenil",
+ "autoradiography with [³H] CGP 54626",
+ "autoradiography with [³H] prazosin",
+ "autoradiography with [³H] muscimol",
+ "autoradiography with [³H]LY 341 495",
+ "autoradiography with [³H] pirenzepine",
+ "autoradiography with [³H] MK-801",
+ "autoradiography with [³H] kainate",
+ "autoradiography with [³H] AMPA"
+ ],
+ "custodians": [
+ "Palomero-Gallagher, Nicola",
+ "Zilles, Karl"
+ ],
+ "project": [
+ "Quantitative Receptor data"
+ ],
+ "description": "This dataset contains the densities (in fmol/mg protein) of 16 receptors for classical neurotransmitters in Area 44d using quantitative in vitro autoradiography. The receptor density measurements can be provided in three ways: (fp) as density fingerprints (average across samples; mean density and standard deviation for each of the 16 receptors), (pr) as laminar density profiles (exemplary data from one sample; average course of the density from the pial surface to the border between layer VI and the white matter for each receptor), and (ar) as color-coded autoradiographs (exemplary data from one sample; laminar density distribution patterns for each receptor labeling). \nThis dataset contains the following receptor density measurements based on the labeling of these receptor binding sites: \n\nAMPA (glutamate; labelled with [³H]AMPA): fp, pr, ar\n\nkainate (glutamate; [³H]kainate): fp, pr, ar\n\nNMDA (glutamate; [³H]MK-801): fp, pr, ar\n\nmGluR2/3 (glutamate; [³H] LY 341 495): pr, ar\n\nGABA<sub>A</sub> (GABA; [³H]muscimol): fp, pr, ar\n\nGABA<sub>B</sub> (GABA; [³H] CGP54626): fp, pr, ar\n\nGABA<sub>A</sub> associated benzodiazepine binding sites (BZ; [³H]flumazenil): fp, pr, ar\n\nmuscarinic Mâ‚ (acetylcholine; [³H]pirenzepine): fp, pr, ar\n\nmuscarinic Mâ‚‚ (acetylcholine; [³H]oxotremorine-M): fp, pr, ar\n\nmuscarinic M₃ (acetylcholine; [³H]4-DAMP): fp, pr, ar\n\nnicotinic α₄β₂ (acetylcholine; [³H]epibatidine): fp, pr, ar\n\nα₠(noradrenalin; [³H]prazosin): fp, pr, ar\n\nα₂ (noradrenalin; [³H]UK-14,304): fp, pr, ar\n\n5-HTâ‚<sub>A</sub> (serotonin; [³H]8-OH-DPAT): fp, pr, ar\n\n5-HTâ‚‚ (serotonin; [³H]ketanserin): fp, pr, ar\n\nDâ‚ (dopamine; [³H]SCH23390): fp, pr, ar\n\nWhich sample was used for which receptor density measurement is stated in metadata files accompanying the main data repository. For methodological details, see Zilles et al. (2002), and in Palomero-Gallagher and Zilles (2018).\n\nZilles, K. et al. (2002). Quantitative analysis of cyto- and receptorarchitecture of the human brain, pp. 573-602. In: Brain Mapping: The Methods, 2nd edition (A.W. Toga and J.C. Mazziotta, eds.). San Diego, Academic Press.\n\nPalomero-Gallagher N, Zilles K. (2018) Cyto- and receptorarchitectonic mapping of the human brain. In: Handbook of Clinical Neurology 150: 355-387",
+ "parcellationAtlas": [],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area 44d",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Density measurements of different receptors for Area 44d",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/cb875c0d-97f4-4dbc-a9ce-472d8ba58c99",
+ "contributors": [
+ "Morosan, Patricia",
+ "Schleicher, Axel",
+ "Lenzen, Marianne",
+ "Friederici, Angela D.",
+ "Amunts, Katrin",
+ "Palomero-Gallagher, Nicola",
+ "Bacha-Trams, Maraike",
+ "Zilles, Karl"
+ ],
+ "id": "31397abd7aebcf13bf3b1d5eb2e2d400",
+ "kgReference": [
+ "10.25493/YQCR-1DQ"
+ ],
+ "publications": [
+ {
+ "name": "Broca's Region: Novel Organizational Principles and Multiple Receptor Mapping",
+ "cite": "Amunts, K., Lenzen, M., Friederici, A. D., Schleicher, A., Morosan, P., Palomero-Gallagher, N., & Zilles, K. (2010). Broca’s Region: Novel Organizational Principles and Multiple Receptor Mapping. PLoS Biology, 8(9), e1000489. ",
+ "doi": "10.1371/journal.pbio.1000489"
+ },
+ {
+ "name": "Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints",
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ]
+ }
+]
\ No newline at end of file
diff --git a/deploy/datasets/testData/waxholmv2.js b/deploy/datasets/testData/waxholmv2.js
index 7c3afd5e2d0b4021446d7402ff6c44805fb4f3ec..91c198d28a131a55de5a44e5b4c2b1ca7ec888b7 100644
--- a/deploy/datasets/testData/waxholmv2.js
+++ b/deploy/datasets/testData/waxholmv2.js
@@ -65,7 +65,8 @@ module.exports = [
{
"species": [],
"name": "Mouse Whole brain (v3 2015)",
- "alias": "Whole brain"
+ "alias": "Whole brain",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/2bdfac7a-b38c-4c55-9843-0b56cb90bb67"
},
{
"species": [
@@ -78,8 +79,9 @@ module.exports = [
"@id": "https://nexus.humanbrainproject.org/v0/data/minds/core/species/v1.0.0/f3490d7f-8f7f-4b40-b238-963dcac84412"
}
],
- "name": "Whole Brain ",
- "alias": "Whole brain"
+ "name": "Rat Whole brain (v2)",
+ "alias": "Whole brain",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/b2b56201-472c-4f70-842f-cf2133eacaba"
}
],
"species": [
@@ -87,118 +89,6 @@ module.exports = [
"Mus musculus"
],
"name": "Brain-wide distribution of glutamate type 1 transporter protein (GLT1)",
- "files": [],
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/f7a7d460-8724-4cd1-a06e-457eb8954fbd",
- "contributors": [
- "Danbolt, Nils C.",
- "Bjaalie, Jan G.",
- "Leergaard, Trygve B.",
- "Lehre, K.P.",
- "Real, Katia",
- "Scott, Heather A.",
- "Holmseth, Silvia"
- ],
- "id": "63bbb845ac6d2f1839f919c2ef0455bc",
- "kgReference": [
- "10.25493/Y147-2CE"
- ],
- "publications": [
- {
- "name": "The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation",
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ]
- },
- {
- "formats": [],
- "datasetDOI": [
- {
- "cite": "Holmseth, S., Scott, H. A., Real, K., Lehre, K. P., Leergaard, T. B., Bjaalie, J. G., & Danbolt, N. C. (2009). The concentrations and distributions of three C-terminal variants of the GLT1 (EAAT2; slc1a2) glutamate transporter protein in rat brain tissue suggest differential regulation. Neuroscience, 162(4), 1055–1071. ",
- "doi": "10.1016/j.neuroscience.2009.03.048"
- }
- ],
- "activity": [
- {
- "protocols": [
- "Immunohistochemistry",
- "Atlas",
- "Brain-wide",
- "Synaptic transmission",
- "Neurtransmitter transport",
- "Glutamate uptake",
- "GLT1"
- ],
- "preparation": [
- "Ex vivo"
- ]
- }
- ],
- "referenceSpaces": [],
- "methods": [
- "Immunohistochemistry"
- ],
- "custodians": [
- "Danbolt, Niels C."
- ],
- "project": [
- "Rodent brain neurotransporter atlas: GLT1"
- ],
- "description": "Glutamate is the major excitatory transmitter in the central nervous system (Danbolt, Prog. Neurobiol. 65:1-105, 2001). It is inactivated by cellular uptake, mostly catalyzed by the glutamate transporters GLT1 (slc1a2, excitatory amino acid transporter [EAAT2]) subtype expressed at high levels in brain astrocytes and at lower levels in neurons. Three C-terminal variants of EAAT2 exist: GLT1a (Pines et al., Nature 360:464-467, 1992), GLT1b (Utsunomiya-Tate et al., FEBS Lett 416:312-326,1997), and GLT1c (Rauen et al., Neurochem. Int. 45:1095-1106, 2004). This dataset is brain-wide collection of microscopic images showing the brain-wide distribution of GLT1 in the mouse and rat brain, visualized by immunohistochemistry using antibodies against GLT1a and GLT1b. To facilitate identification of anatomical location adjacent section were stained to reveal cyto- and myeloarchitecture.",
- "parcellationAtlas": [
- {
- "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",
- "id": "39a1384b-8413-4d27-af8d-22432225401f"
- },
- {
- "name": "Waxholm Space rat brain atlas v2",
- "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/2449a7f0-6dd0-4b5a-8f1e-aec0db03679d",
- "id": "2449a7f0-6dd0-4b5a-8f1e-aec0db03679d"
- }
- ],
- "licenseInfo": [
- {
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "url": "https://creativecommons.org/licenses/by-sa/4.0"
- }
- ],
- "embargoStatus": [
- "Free"
- ],
- "license": [
- {
- "name": "Creative Commons Attribution-ShareAlike 4.0 International",
- "relativeUrl": "minds/core/licensetype/v1.0.0/78a3bfb2-f4b9-40f0-869c-34b5e48a45bd"
- }
- ],
- "parcellationRegion": [
- {
- "species": [],
- "name": "Mouse Whole brain (v3 2015)",
- "alias": "Whole brain"
- },
- {
- "species": [
- {
- "identifier": [
- "e9a384ea8a4edf817710b6edef5f2940",
- "5401fdb1d638c2bc5b68241560cddac0"
- ],
- "name": "Rattus norvegicus",
- "@id": "https://nexus.humanbrainproject.org/v0/data/minds/core/species/v1.0.0/f3490d7f-8f7f-4b40-b238-963dcac84412"
- }
- ],
- "name": "Whole Brain ",
- "alias": "Whole brain"
- }
- ],
- "species": [
- "Rattus norvegicus",
- "Mus musculus"
- ],
- "name": "Brain-wide distribution of glutamate type 1 transporter protein (GLT1)",
- "files": [],
"fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/f7a7d460-8724-4cd1-a06e-457eb8954fbd",
"contributors": [
"Danbolt, Nils C.",
diff --git a/deploy/datasets/util.js b/deploy/datasets/util.js
index bda610f0bdb7f4e6ec89146dc2c9e1333f7d4f10..e693ad311d68ca9a450a5e40c3a4d488e942da71 100644
--- a/deploy/datasets/util.js
+++ b/deploy/datasets/util.js
@@ -3,6 +3,7 @@ const { getCommonSenseDsFilter } = require('./supplements/commonSense')
const { hasPreview } = require('./supplements/previewFile')
const path = require('path')
const fs = require('fs')
+const { getIdFromFullId } = require('../../common/util')
let getPublicAccessToken
@@ -58,12 +59,18 @@ const populateSet = (flattenedRegions, set = new Set()) => {
if (!(set instanceof Set)) throw `set needs to be an instance of Set`
if (!(flattenedRegions instanceof Array)) throw `flattenedRegions needs to be an instance of Array`
for (const region of flattenedRegions) {
- const { name, relatedAreas } = region
- if (name) set.add(name)
- if (relatedAreas && relatedAreas instanceof Array && relatedAreas.length > 0) {
+ const { name, relatedAreas, fullId } = region
+ if (fullId) {
+ set.add(
+ getIdFromFullId(fullId)
+ )
+ }
+ if (relatedAreas && Array.isArray(relatedAreas)) {
for (const relatedArea of relatedAreas) {
- if(typeof relatedArea === 'string') set.add(relatedArea)
- else console.warn(`related area not an instance of String. skipping`, relatedArea)
+ const { fullId } = relatedArea
+ set.add(
+ getIdFromFullId(fullId)
+ )
}
}
}
@@ -137,7 +144,9 @@ initPrArray.push(
const datasetRegionExistsInParcellationRegion = async (prs, atlasPrSet = new Set()) => {
if (!(atlasPrSet instanceof Set)) throw `atlasPrSet needs to be a set!`
await Promise.all(initPrArray)
- return prs.some(({ name, alias }) => atlasPrSet.has(alias) || atlasPrSet.has(name))
+ return prs.some(({ fullId }) => atlasPrSet.has(
+ getIdFromFullId(fullId)
+ ))
}
const templateNameToIdMap = new Map([
@@ -309,6 +318,8 @@ const retry = async (fn, { timeout = defaultConfig.timeout, retries = defaultCon
}
module.exports = {
+ getIdFromFullId,
+ populateSet,
init,
getUserKGRequestParam,
retry,
diff --git a/deploy/datasets/util.spec.js b/deploy/datasets/util.spec.js
index a84b78208f395922cf9389954420bfd62f0409e0..48de1ddfa584b597cc3d38bd737633f207c6b436 100644
--- a/deploy/datasets/util.spec.js
+++ b/deploy/datasets/util.spec.js
@@ -1,56 +1,57 @@
-const { retry, datasetBelongsInTemplate, filterDatasets, datasetRegionExistsInParcellationRegion, _getParcellations } = require('./util')
+const { populateSet, datasetBelongToParcellation, retry, datasetBelongsInTemplate, filterDatasets, datasetRegionExistsInParcellationRegion, _getParcellations } = require('./util')
const { fake } = require('sinon')
const { assert, expect } = require('chai')
const waxholmv2 = require('./testData/waxholmv2')
const allen2015 = require('./testData/allen2015')
const bigbrain = require('./testData/bigbrain')
const humanReceptor = require('./testData/humanReceptor')
-const mni152 = require('./testData/mni152')
+const mni152JuBrain = require('./testData/mni152JuBrain')
const colin27 = require('./testData/colin27')
+const hoc1Pmap = require('./testData/hoc1pmap')
describe('datasets/util.js', () => {
- describe('retry', () => {
+ // describe('retry', () => {
- 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', () => {
@@ -60,11 +61,6 @@ describe('datasets/util.js', () => {
expect(belong).to.be.true
}
- for (const ds of mni152) {
-
- const belong = datasetBelongsInTemplate({ templateName: 'MNI 152 ICBM 2009c Nonlinear Asymmetric' })(ds)
- expect(belong).to.be.true
- }
for (const ds of colin27) {
const belong = datasetBelongsInTemplate({ templateName: 'MNI Colin 27' })(ds)
@@ -86,7 +82,7 @@ describe('datasets/util.js', () => {
const belong = datasetBelongsInTemplate({ templateName: 'MNI 152 ICBM 2009c Nonlinear Asymmetric' })(ds)
expect(belong).to.be.false
}
- for (const ds of mni152) {
+ for (const ds of mni152JuBrain) {
const belong = datasetBelongsInTemplate({ templateName: 'Big Brain (Histology)' })(ds)
expect(belong).to.be.false
@@ -108,6 +104,41 @@ describe('datasets/util.js', () => {
expect(flag).to.be.true
}
})
+
+ it('should filter mni152JuBrain jubrain properly', async () => {
+ const { juBrainSet } = await _getParcellations()
+ for (const ds of mni152JuBrain){
+
+ const { parcellationRegion: prs } = ds
+ const flag = await datasetRegionExistsInParcellationRegion(prs, juBrainSet)
+ expect(flag).to.be.true
+ }
+ })
+
+ it('should filter allen2015 properly', async () => {
+ const { allen2015Set } = await _getParcellations()
+ for (const ds of allen2015){
+
+ const flag2015 = await datasetRegionExistsInParcellationRegion(ds.parcellationRegion, allen2015Set)
+ expect(
+ flag2015
+ ).to.be.true
+
+ }
+ })
+
+ it('should filterout allen2015 datasets in allen2017', async () => {
+
+ const { allen2017Set } = await _getParcellations()
+ for (const ds of allen2015){
+
+ const flag2017 = await datasetRegionExistsInParcellationRegion(ds.parcellationRegion, allen2017Set)
+ expect(
+ flag2017
+ ).to.be.false
+ }
+ })
+
})
describe('filterDatasets', () => {
@@ -118,14 +149,140 @@ describe('datasets/util.js', () => {
it('should filter waxholm v2 properly', async () => {
const filteredResult = await filterDatasets(waxholmv2, { parcellationName: 'Waxholm Space rat brain atlas v2' })
- expect(filteredResult).to.have.length(2)
+ expect(filteredResult).to.have.length(1)
})
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(2)
+ expect(filteredResult).to.have.length(1)
+ })
+ })
+
+ describe('datasetBelongToParcellation', () => {
+ const dataset = {
+ parcellationAtlas:[{
+ name: 'jubrain v17'
+ }]
+ }
+ const parcellationName = 'jubrain v17'
+ const dataset2 = {
+ parcellationAtlas:[{
+ name: 'jubrain v18'
+ }]
+ }
+ const parcellationName2 = 'jubrain v18'
+ it('if parcellation name is undefined, will always return true', () => {
+ expect(
+ datasetBelongToParcellation({
+ parcellationName: null,
+ dataset
+ })
+ ).to.be.true
+ })
+ it('if parcellationAtlas of dataset is empty array, will always return true', () => {
+ expect(
+ datasetBelongToParcellation({
+ dataset: { parcellationAtlas: [] },
+ parcellationName
+ })).to.be.true
+ })
+ it('if parcellationAtlas of dataset is non empty array, and parcellationName is defined, should return false if they do not match', () => {
+ expect(
+ datasetBelongToParcellation({
+ dataset,
+ parcellationName: parcellationName2
+ })
+ ).to.be.false
+ })
+
+ it('if parcellationAtlas of dataset is non empty array, and parcellationName is defined, should return true if they do match', () => {
+ expect(
+ datasetBelongToParcellation({
+ dataset,
+ parcellationName
+ })
+ ).to.be.true
+ })
+
+ it('allen2015 belong to parcellation', () => {
+ for (const ds of allen2015){
+
+ expect(
+ datasetBelongToParcellation({
+ dataset: ds,
+ parcellationName: 'Allen Mouse Common Coordinate Framework v3 2015'
+ })
+ ).to.be.true
+ }
+ })
+
+ it('hoc1pmap should not belong to bundle parcellation', () => {
+ for (const ds of hoc1Pmap){
+ expect(
+ datasetBelongToParcellation({
+ dataset: ds,
+ parcellationName: 'Fibre Bundle Atlas - Long Bundle'
+ })
+ ).to.be.false
+ expect(
+ datasetBelongToParcellation({
+ dataset: ds,
+ parcellationName: 'Fibre Bundle Atlas - Short Bundle'
+ })
+ ).to.be.false
+ }
+ })
+ })
+
+ describe('populateSet', () => {
+ it('should populate relatedAreas', () => {
+ const area44 = {
+ "name": "Area 44 (IFG)",
+ "arealabel": "Area-44",
+ "status": "publicP",
+ "labelIndex": null,
+ "synonyms": [],
+ "relatedAreas": [
+ {
+ "name": "Area 44v",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e5e7aa8-28b8-445b-8980-2a6f3fa645b3"
+ }
+ }
+ },
+ {
+ "name": "Area 44d",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ }
+ }
+ ],
+ "rgb": [
+ 54,
+ 74,
+ 75
+ ],
+ "children": [
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8a6be82c-5947-4fff-8348-cf9bf73e4f40"
+ }
+ }
+ }
+ const set = populateSet([area44])
+ expect(Array.from(set)).to.contain.members([
+ 'minds/core/parcellationregion/v1.0.0/7e5e7aa8-28b8-445b-8980-2a6f3fa645b3',
+ 'minds/core/parcellationregion/v1.0.0/8aeae833-81c8-4e27-a8d6-deee339d6052',
+ 'minds/core/parcellationregion/v1.0.0/8a6be82c-5947-4fff-8348-cf9bf73e4f40',
+ ])
})
})
-
})
diff --git a/e2e/chromeOpts.js b/e2e/chromeOpts.js
new file mode 100644
index 0000000000000000000000000000000000000000..f2239f793d3bd4f104e8f6b8e53edc8e999c8cd6
--- /dev/null
+++ b/e2e/chromeOpts.js
@@ -0,0 +1,7 @@
+module.exports = [
+ '--headless',
+ '--no-sandbox',
+ '--disable-setuid-sandbox',
+ "--disable-extensions",
+ '--window-size=800,600'
+]
\ No newline at end of file
diff --git a/e2e/protractor.conf.js b/e2e/protractor.conf.js
index dc04206e5c9d5762246b1c6ef5a302f065845f17..531d037f1401c1114262d955a63b59bc263cd37f 100644
--- a/e2e/protractor.conf.js
+++ b/e2e/protractor.conf.js
@@ -1,8 +1,29 @@
+
+// n.b. to start selenium, run npm run wd -- update && npm run wd -- start
+// n.b. you will need to run `npm i --no-save puppeteer`, so that normal download script does not download chrome binary
+const pptr = require('puppeteer')
+const chromeOpts = require('./chromeOpts')
+const SELENIUM_ADDRESS = process.env.SELENIUM_ADDRESS
+
exports.config = {
- seleniumAddress: 'http://localhost:4444/wd/hub',
+ ...(SELENIUM_ADDRESS
+ ? { seleniumAddress: SELENIUM_ADDRESS }
+ : { directConnect: true }
+ ),
specs: ['./src/**/*.e2e-spec.js'],
- // params: {
- // interactiveViewer : 'interactiveViewer',
- // viewer: 'viewer'
- // }
+ capabilities: {
+
+ // Use headless chrome
+ browserName: 'chrome',
+ chromeOptions: {
+ args: [
+ ...chromeOpts
+ ],
+ ...(
+ SELENIUM_ADDRESS
+ ? {}
+ : { binary: pptr.executablePath() }
+ )
+ }
+ }
}
\ No newline at end of file
diff --git a/e2e/src/iv.e2e-spec.js b/e2e/src/iv.e2e-spec.js
index 34fdb7c386b2c97e8f1858bd2c7356810bf0d820..2d249046dfa8c2ca15c79d0d24c5fc85673a2422 100644
--- a/e2e/src/iv.e2e-spec.js
+++ b/e2e/src/iv.e2e-spec.js
@@ -1,8 +1,8 @@
-const url = 'http://localhost:8081/'
-
+const chromeOpts = require('../chromeOpts')
const noErrorLog = require('./noErrorLog')
-const { getSelectedTemplate, getSelectedParcellation } = require('./ivApi')
+const { getSelectedTemplate, getSelectedParcellation, getSelectedRegions } = require('./ivApi')
const { getSearchParam, wait } = require('./util')
+const { URLSearchParams } = require('url')
describe('protractor works', () => {
it('protractor works', () => {
@@ -10,89 +10,61 @@ describe('protractor works', () => {
})
})
-describe('Home screen', () => {
- beforeEach(() => {
- browser.waitForAngularEnabled(false)
- browser.get(url)
+const pptr = require('puppeteer')
+const ATLAS_URL = process.env.ATLAS_URL || 'http://localhost:3000'
+if (ATLAS_URL.length === 0) throw new Error(`ATLAS_URL must either be left unset or defined.`)
+if (ATLAS_URL[ATLAS_URL.length - 1] === '/') throw new Error(`ATLAS_URL should not trail with a slash: ${ATLAS_URL}`)
+
+let browser
+describe('IAV', () => {
+ beforeAll(async () => {
+ browser = await pptr.launch({
+ ...(
+ chromeOpts.indexOf('--headless') >= 0
+ ? { headless: true }
+ : {}
+ ),
+ args: [
+ ...chromeOpts
+ ]
+ })
})
- it('get title works', () => {
- browser.getTitle()
- .then(title => {
- expect(title).toEqual('Interactive Atlas Viewer')
- })
- .catch(error => {
- console.error('error', error)
+ // TODO figure out how to get jasmine to compare array members
+ describe('api', () => {
+ const urlMni152JuBrain = `${ATLAS_URL}/?templateSelected=MNI+152+ICBM+2009c+Nonlinear+Asymmetric&parcellationSelected=JuBrain+Cytoarchitectonic+Atlas&cRegionsSelected=%7B%22jubrain+mni152+v18+left%22%3A%222%22%2C%22jubrain+mni152+v18+right%22%3A%222%22%7D&cNavigation=0.0.0.-W000..2_ZG29.-ASCS.2-8jM2._aAY3..BSR0..70hl~.1w4W0~.70hk..1Pl9`
+ describe('selectRegion obs', () => {
+ it('should populate selected region with inherited properties', async () => {
+ const page = await browser.newPage()
+ await page.goto(urlMni152JuBrain, {waitUntil: 'networkidle2'})
+ const regions = await getSelectedRegions(page)
+ for (const region of regions){
+ expect(region.relatedAreas).toBeDefined()
+ expect(
+ region.relatedAreas.map(({ name }) => name).sort()
+ ).toEqual(
+ [
+ 'Area 44v',
+ 'Area 44d'
+ ].sort()
+ )
+ }
})
-
- browser.executeScript('window.interactiveViewer')
- .then(result => expect(result).toBeDefined())
- browser.executeScript('window.viewer')
- .then(result => expect(result).toBeNull())
-
- noErrorLog(browser)
+ })
})
-})
-
-describe('Query param: ', () => {
-
- it('correctly defined templateSelected and selectedParcellation works', async () => {
-
- const searchParam = '?templateSelected=MNI+Colin+27&parcellationSelected=JuBrain+Cytoarchitectonic+Atlas'
- browser.get(url + searchParam)
- browser.executeScript('window.interactiveViewer').then(result => expect(result).toBeDefined())
- browser.executeScript('window.viewer').then(result => expect(result).toBeDefined())
+
+ // tracking issue: https://github.com/HumanBrainProject/interactive-viewer/issues/455
+ // reenable when fixed
+ // describe('Url parsing', () => {
- await wait(browser)
-
- getSelectedTemplate(browser)
- .then(template => {
- expect(template.name).toBe('MNI Colin 27')
- })
-
- getSelectedParcellation(browser)
- .then(parcellation => {
- expect(parcellation.name).toBe('JuBrain Cytoarchitectonic Atlas')
- })
-
- noErrorLog(browser)
- })
-
- it('correctly defined templateSelected but incorrectly defined selectedParcellation work', async () => {
- const searchParam = '?templateSelected=MNI+Colin+27&parcellationSelected=NoName'
- browser.get(url + searchParam)
-
- await wait(browser)
-
- getSelectedTemplate(browser)
- .then(template => {
- expect(template.name).toBe('MNI Colin 27')
- })
- .catch(fail)
-
- Promise.all([
- getSelectedTemplate(browser),
- getSelectedParcellation(browser)
- ])
- .then(([template, parcellation]) => {
- expect(parcellation.name).toBe(template.parcellations[0].name)
- })
- .catch(fail)
-
- noErrorLog(browser)
- })
-
- it('incorrectly defined templateSelected should clear searchparam', async () => {
- const searchParam = '?templateSelected=NoName2&parcellationSelected=NoName'
- browser.get(url + searchParam)
-
- await wait(browser)
-
- getSearchParam(browser)
- .then(searchParam => {
- const templateSelected = searchParam.get('templateSelected')
- expect(templateSelected).toBeNull()
- })
- .catch(fail)
- })
-})
\ No newline at end of file
+ // it('incorrectly defined templateSelected should clear searchparam', async () => {
+ // const search = '/?templateSelected=NoName2&parcellationSelected=NoName'
+ // const page = await browser.newPage()
+ // await page.goto(`${ATLAS_URL}${search}`, {waitUntil: 'networkidle2'})
+ // await page.waitFor(500)
+ // const searchParam = await getSearchParam(page)
+ // const searchParamObj = new URLSearchParams(searchParam)
+ // expect(searchParamObj.get('templateSelected')).toBeNull()
+ // })
+ // })
+})
diff --git a/e2e/src/ivApi.js b/e2e/src/ivApi.js
index 825bee506911fff68b5dfd80924b73ed3f83df2f..ed5cc821e384c2d8b41e24eafa92da99dec835dc 100644
--- a/e2e/src/ivApi.js
+++ b/e2e/src/ivApi.js
@@ -8,4 +8,17 @@ exports.getSelectedParcellation = (browser) => new Promise((resolve, reject) =>
browser.executeAsyncScript('let sub = window.interactiveViewer.metadata.selectedParcellationBSubject.subscribe(obj => arguments[arguments.length - 1](obj));sub.unsubscribe()')
.then(resolve)
.catch(reject)
-})
\ No newline at end of file
+})
+
+exports.getSelectedRegions = async (page) => {
+ return await page.evaluate(async () => {
+ let region, sub
+ const getRegion = () => new Promise(rs => {
+ sub = interactiveViewer.metadata.selectedRegionsBSubject.subscribe(rs)
+ })
+
+ region = await getRegion()
+ sub.unsubscribe()
+ return region
+ })
+}
\ No newline at end of file
diff --git a/e2e/src/util.js b/e2e/src/util.js
index 030f2ccad62151ce4392c95704b211d57fb7af43..49892e2939ed39841494905fae28ab3f840d8790 100644
--- a/e2e/src/util.js
+++ b/e2e/src/util.js
@@ -1,12 +1,5 @@
-const {URLSearchParams} = require('url')
-
-exports.getSearchParam = (browser) => {
- const script = `
- const search = window.location.search;
- return search
- `
- return browser.executeScript(script)
- .then(search => new URLSearchParams(search))
+exports.getSearchParam = page => {
+ return page.evaluate(`window.location.search`)
}
exports.wait = (browser) => new Promise(resolve => {
diff --git a/package.json b/package.json
index 73cd4587730fe06f3015dfd850966bdde81d93d4..b40068d878e38c6d24dcf9ea43d245c280487043 100644
--- a/package.json
+++ b/package.json
@@ -16,7 +16,8 @@
"test": "karma start spec/karma.conf.js",
"e2e": "protractor e2e/protractor.conf",
"lint": "eslint src --ext .ts",
- "eslint": "eslint"
+ "eslint": "eslint",
+ "wd": "webdriver-manager"
},
"keywords": [],
"author": "",
diff --git a/spec/test.ts b/spec/test.ts
index 3d805584bd3e83f877957c738a748c010843c631..d2b2c152b7022cc9b536001f4602ec8e88017fef 100644
--- a/spec/test.ts
+++ b/spec/test.ts
@@ -19,4 +19,6 @@ getTestBed().initTestEnvironment(
);
const testContext = require.context('../src', true, /\.spec\.ts$/)
-testContext.keys().map(testContext)
\ No newline at end of file
+testContext.keys().map(testContext)
+
+require('../common/util.spec.js')
\ No newline at end of file
diff --git a/src/atlasViewer/atlasViewer.constantService.service.ts b/src/atlasViewer/atlasViewer.constantService.service.ts
index 919f2b9134aa99d59da652e142baf4ad6882a876..04a9f0f2170a4b041fdd2a653a17f6c965eadcde 100644
--- a/src/atlasViewer/atlasViewer.constantService.service.ts
+++ b/src/atlasViewer/atlasViewer.constantService.service.ts
@@ -1,16 +1,19 @@
import { HttpClient } from "@angular/common/http";
import { Injectable, OnDestroy } from "@angular/core";
import { select, Store } from "@ngrx/store";
-import { merge, Observable, of, Subscription, throwError } from "rxjs";
-import { catchError, map, shareReplay, switchMap, tap } from "rxjs/operators";
+import { merge, Observable, of, Subscription, throwError, fromEvent, forkJoin } from "rxjs";
+import { catchError, map, shareReplay, switchMap, tap, filter, take } from "rxjs/operators";
import { LoggingService } from "src/services/logging.service";
import { SNACKBAR_MESSAGE } from "src/services/state/uiState.store";
import { IavRootStoreInterface } from "../services/stateStore.service";
+import { AtlasWorkerService } from "./atlasViewer.workerService.service";
export const CM_THRESHOLD = `0.05`
export const CM_MATLAB_JET = `float r;if( x < 0.7 ){r = 4.0 * x - 1.5;} else {r = -4.0 * x + 4.5;}float g;if (x < 0.5) {g = 4.0 * x - 0.5;} else {g = -4.0 * x + 3.5;}float b;if (x < 0.3) {b = 4.0 * x + 0.5;} else {b = -4.0 * x + 2.5;}float a = 1.0;`
export const GLSL_COLORMAP_JET = `void main(){float x = toNormalized(getDataValue());${CM_MATLAB_JET}if(x>${CM_THRESHOLD}){emitRGB(vec3(r,g,b));}else{emitTransparent();}}`
+const getUniqueId = () => Math.round(Math.random() * 1e16).toString(16)
+
@Injectable({
providedIn : 'root',
})
@@ -69,10 +72,48 @@ export class AtlasViewerConstantsServices implements OnDestroy {
public totalTemplates = null
+ private workerUpdateParcellation$ = fromEvent(this.workerService.worker, 'message').pipe(
+ filter((message: MessageEvent) => message && message.data && message.data.type === 'UPDATE_PARCELLATION_REGIONS'),
+ map(({ data }) => data)
+ )
+
+ private processTemplate = template => forkJoin(
+ ...template.parcellations.map(parcellation => {
+
+ const id = getUniqueId()
+
+ this.workerService.worker.postMessage({
+ type: 'PROPAGATE_PARC_REGION_ATTR',
+ parcellation,
+ inheritAttrsOpts: {
+ ngId: (parcellation as any ).ngId,
+ relatedAreas: [],
+ fullId: null
+ },
+ id
+ })
+
+ return this.workerUpdateParcellation$.pipe(
+ filter(({ id: returnedId }) => id === returnedId),
+ take(1),
+ map(({ parcellation }) => parcellation)
+ )
+ })
+ )
+
public initFetchTemplate$ = this.http.get(`${this.backendUrl}templates`, { responseType: 'json' }).pipe(
tap((arr: any[]) => this.totalTemplates = arr.length),
switchMap((templates: string[]) => merge(
- ...templates.map(this.fetchTemplate),
+ ...templates.map(templateName => this.fetchTemplate(templateName).pipe(
+ switchMap(template => this.processTemplate(template).pipe(
+ map(parcellations => {
+ return {
+ ...template,
+ parcellations
+ }
+ })
+ ))
+ )),
)),
catchError((err) => {
this.log.warn(`fetching templates error`, err)
@@ -255,6 +296,7 @@ Send us an email: <a target = "_blank" href = "mailto:${this.supportEmailAddress
private store$: Store<IavRootStoreInterface>,
private http: HttpClient,
private log: LoggingService,
+ private workerService: AtlasWorkerService
) {
this.darktheme$ = this.store$.pipe(
diff --git a/src/atlasViewer/atlasViewer.pluginService.service.spec.ts b/src/atlasViewer/atlasViewer.pluginService.service.spec.ts
index e9dd0b1fbce6e6c0c173ed429a34923675dfe694..acb0d9425edc4d4e54b72ab59ce658f9448f65b1 100644
--- a/src/atlasViewer/atlasViewer.pluginService.service.spec.ts
+++ b/src/atlasViewer/atlasViewer.pluginService.service.spec.ts
@@ -56,7 +56,6 @@
// expect(mockScript).toBeTruthy()
// })
// )
-
// it(
// 'template overrides templateURL',
// inject([HttpTestingController], (httpMock: HttpTestingController) => {
diff --git a/src/res/ext/MNI152.json b/src/res/ext/MNI152.json
index 3ce8bc85cc9c1bd30b2f6465c5cf2cb870390f18..cc88e19c20b47c922116ffdb97b56756cd6b8f91 100644
--- a/src/res/ext/MNI152.json
+++ b/src/res/ext/MNI152.json
@@ -9,14 +9,18 @@
{
"name": "JuBrain Cytoarchitectonic Atlas",
"ngId": "jubrain mni152 v18 left",
- "auxillaryMeshIndices": [ 65535 ],
+ "auxillaryMeshIndices": [
+ 65535
+ ],
"hasAdditionalViewMode": [
"connectivity"
],
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "4ac9f0bc-560d-47e0-8916-7b24da9bb0ce"
- }],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "4ac9f0bc-560d-47e0-8916-7b24da9bb0ce"
+ }
+ ],
"properties": {
"version": "1.0",
"description": "This dataset contains the whole-brain parcellation of the JuBrain Cytoarchitectonic Atlas (Amunts and Zilles, 2015) in the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. The parcellation is derived from the individual probability maps (PMs) of the cytoarchitectonic regions released in the JuBrain Atlas, that are further combined into a Maximum Probability Map (MPM). The MPM is calculated by considering for each voxel the probability of all cytoarchitectonic areas released in the atlas, and determining the most probable assignment (Eickhoff 2005). Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets.",
@@ -108,7 +112,14 @@
-8461290
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -163,7 +174,14 @@
-12582822
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a5c9d95f-8e7c-4454-91b6-a790387370fc"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -218,7 +236,14 @@
-8461290
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -272,7 +297,14 @@
"labelIndex": 187,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -317,7 +349,14 @@
"labelIndex": 22,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "SF (Amygdala)",
@@ -353,7 +392,14 @@
"labelIndex": 186,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -408,7 +454,14 @@
-15985714
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3741c788-9412-4b8e-9ab4-9ca2d3a715ca"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "VTM (Amygdala)",
@@ -454,7 +507,14 @@
-17326733
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a964e6e6-8014-41a2-b975-754d75cbb6f2"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "IF (Amygdala)",
@@ -500,7 +560,14 @@
-17973684
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5a1391c8-6056-40e4-a19b-3774df42bd07"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -545,7 +612,14 @@
"labelIndex": 16,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "CM (Amygdala)",
@@ -591,7 +665,14 @@
-13743499
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -664,7 +745,14 @@
55690476
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "af9c4f39-63a4-409f-b306-e5965d639f37"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 5M (SPL)",
@@ -710,7 +798,14 @@
59763933
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "abe105cf-2c29-46af-af75-6b46fdb75137"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7PC (SPL)",
@@ -756,7 +851,14 @@
62336656
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "763140d3-7ba0-4f28-b0ac-c6cbda2d14e1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 5L (SPL)",
@@ -802,7 +904,14 @@
69561773
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "64555f7f-1b33-4ffe-9853-be41e7a21096"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7M (SPL)",
@@ -848,7 +957,14 @@
38515152
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0aacea5c-bc9e-483f-8376-25f176ada158"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7A (SPL)",
@@ -856,8 +972,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area 7A"
+ "relatedAreas": [
+ {
+ "name": "Area 7A",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "811f4adb-4a7c-45c1-8034-4afa9edf586a"
+ }
+ }
+ }
],
"rgb": [
38,
@@ -897,7 +1021,13 @@
62051683
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e26e999f-77ad-4934-9569-8290ed05ebda"
+ }
+ }
},
{
"name": "Area 5Ci (SPL)",
@@ -943,7 +1073,14 @@
45477854
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "07d08f74-af3d-4cbe-bc3c-f32b7f5c989f"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -998,7 +1135,14 @@
18500000
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "ab26cefd-f7d6-4442-8020-a6e418e673ff"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP4 (POperc)",
@@ -1044,7 +1188,14 @@
12300125
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b1e7f0d2-6d37-4047-9c2e-a08c3f1e2a16"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP3 (POperc)",
@@ -1090,7 +1241,14 @@
18514977
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f6f10b01-6c10-42cf-8129-f5aaf307a36b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP1 (POperc)",
@@ -1136,7 +1294,14 @@
18151001
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "402ec28d-0809-4226-91a4-900d9303291b"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -1191,7 +1356,14 @@
56291435
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c9753e82-80ca-4074-a704-9dd2c4c0d58b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 3b (PostCG)",
@@ -1200,7 +1372,15 @@
"labelIndex": null,
"synonyms": [],
"relatedAreas": [
- "Area 3b"
+ {
+ "name": "Area 3b",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "74304fe9-452e-4ca3-97a3-8cf3459bb1a0"
+ }
+ }
+ }
],
"rgb": [
239,
@@ -1240,7 +1420,13 @@
47310887
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b84f67bb-5d9f-4daf-a8d6-15f63f901bd4"
+ }
+ }
},
{
"name": "Area 3a (PostCG)",
@@ -1286,7 +1472,14 @@
36367169
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2657ecc1-da69-4a37-9b37-66ae95f9623c"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 2 (PostCS)",
@@ -1332,7 +1525,14 @@
52910085
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9147ae9-5cf0-41b2-89a3-e6e6df07bef1"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -1349,8 +1549,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PFm"
+ "relatedAreas": [
+ {
+ "name": "Area PFm",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3455ada4-48c3-4748-ae38-2fe3f376f0fc"
+ }
+ }
+ }
],
"rgb": [
53,
@@ -1390,7 +1598,13 @@
39537196
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "411edde9-685f-464b-970c-a929f9a4067c"
+ }
+ }
},
{
"name": "Area PFop (IPL)",
@@ -1398,8 +1612,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PFop"
+ "relatedAreas": [
+ {
+ "name": "Area PFop",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b4397c40-82e1-4d62-b97a-44e8d04b428b"
+ }
+ }
+ }
],
"rgb": [
146,
@@ -1439,7 +1661,13 @@
26279323
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e8262e56-88fe-4006-b078-def4d78416b8"
+ }
+ }
},
{
"name": "Area PF (IPL)",
@@ -1447,8 +1675,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PF"
+ "relatedAreas": [
+ {
+ "name": "Area PF",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f4e177a6-1b2c-48d5-a62c-91949ba636e4"
+ }
+ }
+ }
],
"rgb": [
226,
@@ -1488,7 +1724,13 @@
31797118
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "18e5e1b0-6c25-4f55-a967-0834d2bd3ee4"
+ }
+ }
},
{
"name": "Area PGp (IPL)",
@@ -1496,8 +1738,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PGp"
+ "relatedAreas": [
+ {
+ "name": "Area PGp",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "1b00a0e4-9493-43ff-bfbd-b02119064813"
+ }
+ }
+ }
],
"rgb": [
92,
@@ -1537,7 +1787,13 @@
31755974
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b3ef6947-76c9-4935-bbc6-8b2329c0967b"
+ }
+ }
},
{
"name": "Area PGa (IPL)",
@@ -1545,8 +1801,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PGa"
+ "relatedAreas": [
+ {
+ "name": "Area PGa",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d5b168a3-a92e-4ab3-8b4d-61e58e5b7a1c"
+ }
+ }
+ }
],
"rgb": [
42,
@@ -1586,7 +1850,13 @@
31733304
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d7f6c5be-93c6-4a16-8939-4420329d4147"
+ }
+ }
},
{
"name": "Area PFt (IPL)",
@@ -1594,8 +1864,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PFt"
+ "relatedAreas": [
+ {
+ "name": "Area PFt",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ff7fcc4-a88b-4bf8-be07-1386a3760a96"
+ }
+ }
+ }
],
"rgb": [
120,
@@ -1635,7 +1913,13 @@
39924515
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "847cef50-7340-470d-8580-327b4ce9db19"
+ }
+ }
},
{
"name": "Area PFcm (IPL)",
@@ -1643,8 +1927,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area PFcm"
+ "relatedAreas": [
+ {
+ "name": "Area PFcm",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f07d441f-452f-471b-ac7c-0d3c2ae16fb2"
+ }
+ }
+ }
],
"rgb": [
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@@ -1684,7 +1976,13 @@
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]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "10502c3a-f20e-44fa-b985-786d6888d4bb"
+ }
+ }
}
]
},
@@ -1739,7 +2037,14 @@
37156498
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a78998c2-99d4-4738-bbda-82a317f713f1"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -1794,7 +2099,14 @@
34275566
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9717dec-0310-4078-a4ae-294170b4fb37"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP3 (IPS)",
@@ -1840,7 +2152,14 @@
50509215
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "700ac6db-870d-44f1-8786-0c01207f992b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP8 (IPS)",
@@ -1886,7 +2205,14 @@
41158435
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a2c1acc7-7fdc-4fbd-90ee-729eda7fdff3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP4 (IPS)",
@@ -1932,7 +2258,14 @@
22440217
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5875bfe2-99ca-4e50-bce2-61c201c3dd54"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP7 (IPS)",
@@ -1978,7 +2311,14 @@
27718516
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9c6c3c96-8129-4e0e-aa22-a0fb435aab45"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP1 (IPS)",
@@ -2024,7 +2364,14 @@
39221848
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7722c71f-fe84-4deb-8f6b-98e2aecf2e31"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP6 (IPS)",
@@ -2070,7 +2417,14 @@
45176974
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b9975f8e-f484-4e82-883a-5fd765855ae0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP2 (IPS)",
@@ -2116,7 +2470,14 @@
45742512
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "4490ef3e-ce60-4453-9e9f-85388d0603cb"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -2180,7 +2541,14 @@
27567915
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8120426c-f65b-4426-8a58-3060e2334921"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc3d (Cuneus)",
@@ -2226,7 +2594,14 @@
24647659
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d7ec4342-ae58-41e3-a68c-28e90a719d41"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc6 (POS)",
@@ -2272,7 +2647,14 @@
18144838
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d72e0210-a910-4b15-bcaf-80c3433cd3e0"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -2327,7 +2709,14 @@
-12568268
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "27d91cbb-5611-4d38-bd17-c0f1ac22b4cc"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc3v (LingG)",
@@ -2373,7 +2762,14 @@
-10415129
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0d6392fd-b905-4bc3-bac9-fc44d8990a30"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -2428,7 +2824,14 @@
3658074
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "04674a3c-bb3a-495e-a466-206355e630bd"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc1 (V1, 17, CalcS)",
@@ -2436,8 +2839,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area hOc1"
+ "relatedAreas": [
+ {
+ "name": "Area hOc1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b851eb9d-9502-45e9-8dd8-2861f0e6da3f"
+ }
+ }
+ }
],
"rgb": [
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@@ -2477,7 +2888,13 @@
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]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5151ab8f-d8cb-4e67-a449-afe2a41fb007"
+ }
+ }
}
]
},
@@ -2532,7 +2949,14 @@
4126719
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b40afb5a-e6a1-47b6-8a3e-1f8a20fbf99a"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc4la (LOC)",
@@ -2578,7 +3002,14 @@
251812
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "94365b82-6204-4937-8b86-fe0433287938"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc4lp (LOC)",
@@ -2624,7 +3055,14 @@
4946882
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9006ee6a-6dc1-4604-9f20-7e08b42d574d"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -2714,7 +3152,14 @@
"labelIndex": 247,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "472dacc9-c27d-49c2-9e6f-a1cc3309c4ab"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifs1 (IFS)",
@@ -2750,7 +3195,14 @@
"labelIndex": 244,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d687d385-98d9-4b31-85db-4bc682cd0a31"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifj2 (IFS/PreS)",
@@ -2822,7 +3274,14 @@
"labelIndex": 245,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "658a67d8-60c2-4bb4-8eaf-e54725eda261"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifs3 (IFS)",
@@ -2858,7 +3317,14 @@
"labelIndex": 246,
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e555881e-7082-4ac0-b6cc-cd096f30d3dc"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -2875,9 +3341,25 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area 44v",
- "Area 44d"
+ "relatedAreas": [
+ {
+ "name": "Area 44v",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e5e7aa8-28b8-445b-8980-2a6f3fa645b3"
+ }
+ }
+ },
+ {
+ "name": "Area 44d",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ }
+ }
],
"rgb": [
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@@ -2917,7 +3399,13 @@
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]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8a6be82c-5947-4fff-8348-cf9bf73e4f40"
+ }
+ }
},
{
"name": "Area 45 (IFG)",
@@ -2926,7 +3414,15 @@
"labelIndex": null,
"synonyms": [],
"relatedAreas": [
- "Area 45"
+ {
+ "name": "Area 45",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "131e6de8-b073-4f01-8f60-1bdb5a6c9a9a"
+ }
+ }
+ }
],
"rgb": [
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@@ -2966,7 +3462,13 @@
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]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "cb32e688-43f0-4ae3-9554-085973137663"
+ }
+ }
}
]
},
@@ -2978,7 +3480,7 @@
"rgb": null,
"children": [
{
- "name": "Area 6d1 (PreG)",
+ "name": "Area 6d1 (PreCG)",
"arealabel": "Area-6d1",
"status": "publicDOI",
"labelIndex": null,
@@ -2988,9 +3490,15 @@
33,
27
],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId":"a802f3dc-b7e5-48b7-9845-832a6e6f9b1c"
+ }
+ },
"children": [
{
- "name": "Area 6d1 (PreG) - left hemisphere",
+ "name": "Area 6d1 (PreCG) - left hemisphere",
"rgb": [
45,
33,
@@ -3006,7 +3514,7 @@
]
},
{
- "name": "Area 6d1 (PreG) - right hemisphere",
+ "name": "Area 6d1 (PreCG) - right hemisphere",
"rgb": [
45,
33,
@@ -3024,7 +3532,7 @@
]
},
{
- "name": "Area 6d2 (PreG)",
+ "name": "Area 6d2 (PreCG)",
"arealabel": "Area-6d2",
"status": "publicDOI",
"labelIndex": null,
@@ -3034,9 +3542,15 @@
151,
180
],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId":"963c5281-67df-4d41-9b91-60b31cf150c0"
+ }
+ },
"children": [
{
- "name": "Area 6d2 (PreG) - left hemisphere",
+ "name": "Area 6d2 (PreCG) - left hemisphere",
"rgb": [
170,
151,
@@ -3052,7 +3566,7 @@
]
},
{
- "name": "Area 6d2 (PreG) - right hemisphere",
+ "name": "Area 6d2 (PreCG) - right hemisphere",
"rgb": [
170,
151,
@@ -3122,7 +3636,14 @@
57073758
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "07b4c6a1-8a24-4f88-8f73-b2ea06e1c2f3"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3177,7 +3698,14 @@
53205165
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "266c1ada-1840-462f-8223-7ff2df457552"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3232,7 +3760,14 @@
-2304434
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "10dc5343-941b-4e3e-80ed-df031c33bbc6"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fp2 (FPole)",
@@ -3278,7 +3813,14 @@
-3022228
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3bf7bde1-cc06-4657-b296-380275f9d4b8"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3295,8 +3837,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area 4p"
+ "relatedAreas": [
+ {
+ "name": "Area 4p",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "861ab96a-c4b5-4ba6-bd40-1e80d4680f89"
+ }
+ }
+ }
],
"rgb": [
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@@ -3336,7 +3886,13 @@
46248351
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "82e6e826-a439-41db-84ff-4674ca3d643a"
+ }
+ }
},
{
"name": "Area 4a (PreCG)",
@@ -3382,7 +3938,14 @@
67748853
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "175848ff-4c55-47e3-a0ae-f905a14e03cd"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3437,7 +4000,14 @@
56050065
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "def99e8e-ce8f-4a62-bd5d-739948c4b010"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3492,7 +4062,14 @@
-20253609
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "741f6a9e-cfd7-4173-ac7d-ee616c29555e"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo1 (OFC)",
@@ -3538,7 +4115,14 @@
-25066859
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3864cb8c-f277-4de6-9f8d-c76d71d7e9a9"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo2 (OFC)",
@@ -3584,7 +4168,14 @@
-21936370
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "30a04d2b-58e1-43d7-8b8f-1f0b598382d0"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3740,7 +4331,14 @@
-6858425
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3fd2e113-ec08-407b-bc88-172c9285694a"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo7 (OFC)",
@@ -3786,7 +4384,14 @@
-13535015
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "1b882148-fcdd-4dbe-b33d-659957840e9e"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo4 (OFC)",
@@ -3832,7 +4437,14 @@
-15390093
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2cdee956-207a-4d4d-b051-bef80045210b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo6 (OFC)",
@@ -3878,7 +4490,14 @@
-14205821
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "330ae178-557c-4bd0-a932-f138c0a05345"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -3942,7 +4561,14 @@
8838776
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "46cf08af-8086-4e8a-9e9f-182ca583bdf0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Ig2 (Insula)",
@@ -3988,7 +4614,14 @@
5868966
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "49092952-1eef-4b89-b8bf-1bf1f25f149a"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4043,7 +4676,14 @@
-8955882
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "110d0d7b-cb88-48ea-9caf-863f548dbe38"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4098,7 +4738,14 @@
1550497
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3d5729f5-55c6-412a-8fc1-41a95c71b13a"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4153,7 +4800,14 @@
-5112416
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c22055c1-514f-4096-906b-abf57286053b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id5 (Insula)",
@@ -4199,7 +4853,14 @@
165741
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e03cd3c6-d0be-481c-b906-9b39c1d0b641"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id4 (Insula)",
@@ -4245,7 +4906,14 @@
10987327
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f480ed72-5ca5-4d1f-8905-cbe9bedcfaee"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id6 (Insula)",
@@ -4291,7 +4959,14 @@
2772938
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "31bbe92d-e5e8-4cf4-be5d-e6b12c71a107"
+ }
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+ "relatedAreas": []
}
]
}
@@ -4355,7 +5030,14 @@
-5666868
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "68784b66-ff15-4b09-b28a-a2146c0f8907"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area STS2 (STS)",
@@ -4401,7 +5083,14 @@
-16698805
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "278fc30f-2e24-4046-856b-95dfaf561635"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4456,7 +5145,14 @@
-1006136
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e1a3291-efdc-4ca6-a3d0-6c496c34639f"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4511,7 +5207,14 @@
-1426009
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "677cd48c-70fa-4bbd-9f0a-ffdc7744bc0f"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area TE 1.1 (HESCHL)",
@@ -4557,7 +5260,14 @@
10842857
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e2969911-77eb-4b21-af70-216cab5285b1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area TE 1.0 (HESCHL)",
@@ -4565,8 +5275,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area Te1"
+ "relatedAreas": [
+ {
+ "name": "Area Te1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f424643e-9baf-4c50-9417-db1ac33dcd3e"
+ }
+ }
+ }
],
"rgb": [
252,
@@ -4606,7 +5324,13 @@
5319209
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "13e21153-2ba8-4212-b172-8894f1012225"
+ }
+ }
}
]
},
@@ -4623,8 +5347,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area FG1"
+ "relatedAreas": [
+ {
+ "name": "Area FG1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6318e160-4ad2-4eec-8a2e-2df6fe07d8f4"
+ }
+ }
+ }
],
"rgb": [
131,
@@ -4664,7 +5396,13 @@
-12459885
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "39fb34a8-fd6d-4fba-898c-2f6167e40459"
+ }
+ }
},
{
"name": "Area FG4 (FusG)",
@@ -4710,7 +5448,14 @@
-21712296
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "fa602743-5f6e-49d1-9734-29dffaa95ff5"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area FG3 (FusG)",
@@ -4756,7 +5501,14 @@
-15743424
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "023f8ef7-c266-4c45-8bf2-4a17dc52985b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area FG2 (FusG)",
@@ -4764,8 +5516,16 @@
"status": "publicP",
"labelIndex": null,
"synonyms": [],
- "relatedAreas":[
- "Area FG2"
+ "relatedAreas": [
+ {
+ "name": "Area FG2",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8f436328-4251-4706-ae38-767e1ab21c6f"
+ }
+ }
+ }
],
"rgb": [
67,
@@ -4805,7 +5565,13 @@
-16661544
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6e7a0441-4baa-4355-921b-50d23d07d50f"
+ }
+ }
}
]
}
@@ -4869,7 +5635,14 @@
11145614
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e6507a3d-f2f8-4c17-84ff-0e7297e836a0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area p24ab (pACC)",
@@ -4915,7 +5688,14 @@
6891142
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5dbb1035-487c-4f43-b551-ccadcf058340"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area s32 (sACC)",
@@ -4961,7 +5741,14 @@
-15008494
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "61b44255-ae3a-4a23-b1bc-7d303a48dbd3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 25 (sACC)",
@@ -5007,7 +5794,14 @@
-13530501
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9010ef76-accd-4308-9951-f37b6a10f42b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area s24 (sACC)",
@@ -5053,7 +5847,14 @@
-10923181
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d4ea6cc5-1e1d-4212-966f-81fed01eb648"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area p32 (pACC)",
@@ -5099,7 +5900,14 @@
10022042
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b09aaa77-f41b-4008-b8b9-f984b0417cf3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 33 (ACC)",
@@ -5145,7 +5953,14 @@
15680187
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b83a3330-b80e-42a0-b8d2-82f38784aa1d"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5200,15 +6015,30 @@
-34844921
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "030827d4-e0d1-4406-b71f-3f58dc2f9cca"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "CA (Hippocampus)",
"arealabel": "CA",
"status": "publicP",
"labelIndex": null,
- "relatedAreas":[
- "CA1 (Hippocampus)"
+ "relatedAreas": [
+ {
+ "name": "CA1 (Hippocampus)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bfc0beb7-310c-4c57-b810-2adc464bd02c"
+ }
+ }
+ }
],
"synonyms": [],
"rgb": [
@@ -5249,7 +6079,13 @@
-11735266
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a0d14d3e-bc30-41cf-8b28-540067897f80"
+ }
+ }
},
{
"name": "DG (Hippocampus)",
@@ -5295,7 +6131,14 @@
-11462629
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0bea7e03-bfb2-4907-9d45-db9071ce627d"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Subiculum (Hippocampus)",
@@ -5341,7 +6184,14 @@
-18015846
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e2dab4c-a140-440d-a322-c1679adef2d4"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "HATA (Hippocampus)",
@@ -5387,7 +6237,14 @@
-18866667
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ec4a423-70fa-43cd-90b3-fbc26a3cbc6c"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -5469,7 +6326,14 @@
-32600000
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5524,7 +6388,14 @@
-37750665
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "58095aef-da69-43d4-887c-009c095cecce"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Ventral Dentate Nucleus (Cerebellum)",
@@ -5570,7 +6441,14 @@
-32527125
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "57282342-5a75-4e07-bcdc-2d368c517b71"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5625,7 +6503,14 @@
-30598446
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e8abfe3d-8b64-45c2-8853-314d82873273"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5680,7 +6565,14 @@
-32600000
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -5694,113 +6586,164 @@
},
{
"ngId": "fibre bundle long",
- "auxillaryMeshIndices": [ 65535 ],
+ "auxillaryMeshIndices": [
+ 65535
+ ],
"type": "parcellation",
"surfaceParcellation": true,
"ngData": null,
"name": "Fibre Bundle Atlas - Long Bundle",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "fcbb049b-edd5-4fb5-acbc-7bf8ee933e24"
- }],
- "properties": {
- },
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "fcbb049b-edd5-4fb5-acbc-7bf8ee933e24"
+ }
+ ],
+ "properties": {},
"regions": [
{
"name": "Arcuate - Left",
"children": [],
"labelIndex": "1",
- "relatedAreas": [
- "Direct segment of the left arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7de080e0-fa5e-492f-9cbc-a4d7e498b1d5"
+ }
+ }
},
{
"name": "Arcuate - Right",
"children": [],
"labelIndex": "31",
- "relatedAreas": [
- "Direct segment of the right arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "17cbf31c-f68b-4753-9014-44aa38e1cdcf"
+ }
+ }
},
{
"name": "Arcuate_Anterior - Left",
"children": [],
"labelIndex": "2",
- "relatedAreas": [
- "Anterior segment of the left arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "1ed86a08-d720-427c-9796-ade24e34a36b"
+ }
+ }
},
{
"name": "Arcuate_Anterior - Right",
"children": [],
"labelIndex": "32",
- "relatedAreas": [
- "Anterior segment of the right arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9f625fad-9329-4824-8751-8b27dc197d3e"
+ }
+ }
},
{
"name": "Arcuate_Posterior - Left",
"children": [],
"labelIndex": "3",
- "relatedAreas": [
- "Posterior segment of the left arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f13ba46b-09ad-48bd-9301-282b0ee74d8d"
+ }
+ }
},
{
"name": "Arcuate_Posterior - Right",
"children": [],
"labelIndex": "33",
- "relatedAreas": [
- "Posterior segment of the right arcuate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2a6ea612-46c1-4a0f-a6f4-5ffc7ff09548"
+ }
+ }
},
{
"name": "Cingulum_Long - Left",
"children": [],
"labelIndex": "4",
- "relatedAreas": [
- "Left long cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6fa27cc1-2efe-4fd3-83d7-973667a0b925"
+ }
+ }
},
{
"name": "Cingulum_Long - Right",
"children": [],
"labelIndex": "34",
- "relatedAreas": [
- "Right long cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f5ae1188-8a10-4e17-9fa9-47b1dc4e50cd"
+ }
+ }
},
{
"name": "Cingulum_Short - Left",
"children": [],
"labelIndex": "5",
- "relatedAreas": [
- "Left short cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "882d13c0-ffe4-4fd8-95a1-ba714cd25fbb"
+ }
+ }
},
{
"name": "Cingulum_Short - Right",
"children": [],
"labelIndex": "35",
- "relatedAreas": [
- "Right short cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "4c5ecae5-17b4-4a65-8b66-c4d0882a2bca"
+ }
+ }
},
{
"name": "Cingulum_Temporal - Left",
"children": [],
"labelIndex": "6",
- "relatedAreas": [
- "Left temporal cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2c71b329-5a32-4ba0-aacb-0fac99c46aca"
+ }
+ }
},
{
"name": "Cingulum_Temporal - Right",
"children": [],
"labelIndex": "36",
- "relatedAreas": [
- "Right temporal cingulate fibres"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e965e21-1d9b-4b8d-b77d-4a7ca17603e6"
+ }
+ }
},
{
"name": "CorpusCallosum_Body",
@@ -5826,17 +6769,25 @@
"name": "CorticoSpinalTract - Left",
"children": [],
"labelIndex": "11",
- "relatedAreas": [
- "Left corticospinal tract"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "afbb2642-5e90-412f-9847-3d7a831f8f07"
+ }
+ }
},
{
"name": "CorticoSpinalTract - Right",
"children": [],
"labelIndex": "41",
- "relatedAreas": [
- "Right corticospinal tract"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2f398c6e-6264-4615-8a28-18b3573d0732"
+ }
+ }
},
{
"name": "ExternalCapsule - Left",
@@ -5852,49 +6803,73 @@
"name": "Fornix - Left",
"children": [],
"labelIndex": "13",
- "relatedAreas": [
- "Left fornix"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c8d1e4a0-d0c2-4101-a971-3ffb1ba65ef8"
+ }
+ }
},
{
"name": "Fornix - Right",
"children": [],
"labelIndex": "43",
- "relatedAreas": [
- "Right fornix"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e7e8fd6d-aa43-452e-9fc3-635aa0333910"
+ }
+ }
},
{
"name": "InferiorFrontoOccipital - Left",
"children": [],
"labelIndex": "14",
- "relatedAreas": [
- "Left inferior fronto-occipital fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "524cd5a0-7066-4149-83b8-c0c4aaa12820"
+ }
+ }
},
{
"name": "InferiorFrontoOccipital - Right",
"children": [],
"labelIndex": "44",
- "relatedAreas": [
- "Right inferior fronto-occipital fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "34e8f68d-0b00-4e9e-bd43-ccaf10deef6d"
+ }
+ }
},
{
"name": "InferiorLongitudinal - Left",
"children": [],
"labelIndex": "15",
- "relatedAreas": [
- "Left inferior longitudinal fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d3a458e1-6dbf-418d-bb52-c0b0c6acb920"
+ }
+ }
},
{
"name": "InferiorLongitudinal - Right",
"children": [],
"labelIndex": "45",
- "relatedAreas": [
- "Right inferior longitudinal fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "25326bc6-2b87-4483-9738-89ca249faccd"
+ }
+ }
},
{
"name": "InferiorLongitudinal_Lateral - Left",
@@ -5950,31 +6925,43 @@
"name": "Uncinate - Left",
"children": [],
"labelIndex": "21",
- "relatedAreas": [
- "Left uncinate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f36707b5-d4f3-480b-a1c9-651bf8cc49d5"
+ }
+ }
},
{
"name": "Uncinate - Right",
"children": [],
"labelIndex": "51",
- "relatedAreas": [
- "Right uncinate fasciculus"
- ]
+ "relatedAreas": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "84ea1a64-03a6-4a7e-9f64-a3d2127ebf3f"
+ }
+ }
}
]
},
{
"ngId": "fibre bundle short",
- "auxillaryMeshIndices": [ 65535 ],
+ "auxillaryMeshIndices": [
+ 65535
+ ],
"type": "parcellation",
"surfaceParcellation": true,
"ngData": null,
"name": "Fibre Bundle Atlas - Short Bundle",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "f58e4425-6614-4ad9-ac26-5e946b1296cb"
- }],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "f58e4425-6614-4ad9-ac26-5e946b1296cb"
+ }
+ ],
"regions": [
{
"name": "Left Hemisphere",
@@ -7008,4 +7995,4 @@
"name": "ICBM 2009c Nonlinear Asymmetric",
"description": "An unbiased non-linear average of multiple subjects from the MNI152 database, which provides high-spatial resolution and signal-to-noise while not being biased towards a single brain (Fonov et al., 2011). This template space is widely used as a reference space in neuroimaging. HBP provides the JuBrain probabilistic cytoarchitectonic atlas (Amunts/Zilles, 2015) as well as a probabilistic atlas of large fibre bundles (Guevara, Mangin et al., 2017) in this space."
}
-}
+}
\ No newline at end of file
diff --git a/src/res/ext/allenMouse.json b/src/res/ext/allenMouse.json
index 13ebc3c9f38106b9cd7d037544070be2abf7bb0f..b0fbfcceb3f57dbd8bd17adcdd8409ee49c9a6bb 100644
--- a/src/res/ext/allenMouse.json
+++ b/src/res/ext/allenMouse.json
@@ -3,7 +3,9 @@
"type": "template",
"species": "Mouse",
"ngId": "stpt",
- "otherNgIds": ["nissl"],
+ "otherNgIds": [
+ "nissl"
+ ],
"useTheme": "dark",
"nehubaConfigURL": "nehubaConfig/allenMouseNehubaConfig",
"parcellations": [
@@ -19106,9 +19108,11 @@
"properties": {
"name": "Allen Mouse Common Coordinate Framework v3 2017",
"description": "Allen Mouse Common Coordinate Framework v3, downloaded on 19/09/2019, 2017 (662 newly drawn structures, 1522 structures total)",
- "publications": [{
- "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
- }]
+ "publications": [
+ {
+ "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
+ }
+ ]
}
},
{
@@ -19851,7 +19855,14 @@
2337500,
1677500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "368c29b4-affd-46cf-ac89-ce6d520759b1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Secondary motor area",
@@ -20128,7 +20139,14 @@
3027500,
1927500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "af019af1-3b69-42ac-be17-f1c2a1058329"
+ }
+ },
+ "relatedAreas": []
}
],
"ontologyMetadata": {
@@ -20771,7 +20789,14 @@
967500,
1577500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6321aaf1-e663-48ac-a2e4-a0b53b2a4941"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Primary somatosensory area, barrel field",
@@ -21249,7 +21274,14 @@
-102500,
2287500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a2c0a613-0507-4878-a305-0b8455121e3a"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Primary somatosensory area, lower limb",
@@ -21572,7 +21604,14 @@
667500,
2807500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2442b0a6-5a4b-433f-b24c-24973831f4f4"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Primary somatosensory area, mouth",
@@ -22218,7 +22257,14 @@
1187500,
2297500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0b260c14-c381-4260-a958-505bfd6672d1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Primary somatosensory area, trunk",
@@ -22541,7 +22587,14 @@
-42500,
3097500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "4b9e5151-bf65-4d3c-9926-9f8e92061889"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Primary somatosensory area, unassigned",
@@ -22864,7 +22917,14 @@
777500,
2317500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "ac8f6062-6014-437d-b24a-715b211f2096"
+ }
+ },
+ "relatedAreas": []
}
],
"ontologyMetadata": {
@@ -22902,7 +22962,14 @@
897500,
1977500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6ffdfed4-d9bf-4c92-b6f7-e7de76dee881"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Supplemental somatosensory area",
@@ -25867,7 +25934,14 @@
-1622500,
2357500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6f17fd2c-94d7-4807-be28-12eb2b870e6d"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Anteromedial visual area",
@@ -26190,7 +26264,14 @@
-1022500,
3317500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9925036-2394-48df-813e-150dce63aee4"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Lateral visual area",
@@ -26836,7 +26917,14 @@
-2432500,
2837500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9d426ec-d6b2-4370-8fa2-8e85d30168c6"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Posterolateral visual area",
@@ -28562,7 +28650,14 @@
2197500,
2097500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6f9e275f-e4b1-4b73-ab3c-61f3d386ed00"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Anterior cingulate area, ventral part",
@@ -29176,7 +29271,14 @@
3527500,
1257500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "157f0525-03ae-434b-8856-bac7abb0a2a3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Infralimbic area",
@@ -32136,7 +32238,14 @@
-1492500,
3217500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a43fe448-5035-4fb2-b141-3af62baf7c02"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Retrosplenial area, dorsal part",
@@ -32459,7 +32568,14 @@
-1382500,
3237500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "30517d4d-668e-40eb-a7a8-7112058ca906"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Retrosplenial area, ventral part",
@@ -32758,7 +32874,14 @@
-1152500,
2777500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "fc465f87-b153-4418-a526-52874591f64a"
+ }
+ },
+ "relatedAreas": []
}
],
"ontologyMetadata": {
@@ -33260,7 +33383,14 @@
-612500,
3177500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "cf5c7194-fe25-4828-8225-8a8125c30133"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Rostrolateral visual area",
@@ -33583,7 +33713,14 @@
-1162500,
2797500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d5ffb9fa-04e2-44dc-bcee-ab4a1467fa99"
+ }
+ },
+ "relatedAreas": []
}
],
"ontologyMetadata": {
@@ -37851,7 +37988,14 @@
-1332500,
797500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "fc429031-1632-49a4-b9c6-00ab72100c85"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Retrohippocampal region",
@@ -40539,7 +40683,14 @@
997500,
1107500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b4747984-ae71-4de2-bf18-e5965a27b490"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Cerebral nuclei",
@@ -43051,7 +43202,14 @@
867500,
297500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2f520589-1a89-427d-ac6b-3a561e0fa0f3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Brain stem",
@@ -57486,7 +57644,14 @@
-2602500,
-722500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a470f51b-bf1f-4c63-a18f-df2ea2c65f3f"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Cerebellum",
@@ -58840,7 +59005,14 @@
-5122500,
1147500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8b7490d6-bde7-438a-aee9-34820860fe12"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Hemispheric regions",
@@ -60098,7 +60270,14 @@
-4942500,
777500
]
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "caa2c52c-0d6c-4eba-b2b6-5414cc241553"
+ }
+ },
+ "relatedAreas": []
}
],
"ontologyMetadata": {
@@ -67952,28 +68131,35 @@
}
],
"properties": {
- "name":"Allen Mouse Common Coordinate Framework v3 2015",
- "description":"Allen Mouse Common Coordinate Framework v3, downloaded on 01/07/2017 2015 (178 newly drawn structures, 1045 structures total)",
- "publications": [{
- "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
- },{
- "doi": "10.1038/nature13186",
- "citation": "Oh, S.W. et al. (2014) A mesoscale connectome of the mouse brain, Nature 508: 207-214. "
- }]
+ "name": "Allen Mouse Common Coordinate Framework v3 2015",
+ "description": "Allen Mouse Common Coordinate Framework v3, downloaded on 01/07/2017 2015 (178 newly drawn structures, 1045 structures total)",
+ "publications": [
+ {
+ "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
+ },
+ {
+ "doi": "10.1038/nature13186",
+ "citation": "Oh, S.W. et al. (2014) A mesoscale connectome of the mouse brain, Nature 508: 207-214. "
+ }
+ ]
}
}
],
"properties": {
"name": "Allen Mouse Common Coordinate Framework v3 2015",
"description": "The Allen Mouse Common Coordinate Framework v3 2015 includes a full-color, high-resolution anatomical reference atlas accompanied by a systematic, hierarchically organized taxonomy of mouse brain structures. Anatomical annotations in classical histological atlas plates were extracted to create a comprehensive volumetric reference atlas of the mouse brain.",
- "publications":[{
- "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
- },{
- "cite":"Oh, S.W. et al. (2014) A mesoscale connectome of the mouse brain, Nature 508: 207-214.",
- "doi": "10.1038/nature13186"
- }, {
- "cite": "http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/",
- "doi": "http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/"
- }]
+ "publications": [
+ {
+ "cite": "Allen Mouse Brain Connectivity Atlas [Internet]. Seattle (WA): Allen Institute for Brain Science. ©2011. Available from: http://connectivity.brain-map.org/."
+ },
+ {
+ "cite": "Oh, S.W. et al. (2014) A mesoscale connectome of the mouse brain, Nature 508: 207-214.",
+ "doi": "10.1038/nature13186"
+ },
+ {
+ "cite": "http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/",
+ "doi": "http://download.alleninstitute.org/informatics-archive/current-release/mouse_ccf/"
+ }
+ ]
}
}
\ No newline at end of file
diff --git a/src/res/ext/bigbrain.json b/src/res/ext/bigbrain.json
index 2440a1ee9b1c54631a4fa82215c7b58123c1b5f5..abff253c1bcfe71b4fc29561fb23804a84882302 100644
--- a/src/res/ext/bigbrain.json
+++ b/src/res/ext/bigbrain.json
@@ -4,10 +4,12 @@
"species": "Human",
"useTheme": "light",
"ngId": " grey value: ",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "e32f9053-38c9-4911-b868-845c56828f4d"
- }],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "e32f9053-38c9-4911-b868-845c56828f4d"
+ }
+ ],
"nehubaConfigURL": "nehubaConfig/bigbrainNehubaConfig",
"parcellations": [
{
@@ -43,6 +45,23 @@
4363384,
836825,
4887117
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "13e21153-2ba8-4212-b172-8894f1012225"
+ }
+ },
+ "relatedAreas": [
+ {
+ "name": "Area Te1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f424643e-9baf-4c50-9417-db1ac33dcd3e"
+ }
+ }
+ }
]
},
{
@@ -60,7 +79,14 @@
-11860944,
-3841071,
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- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e2969911-77eb-4b21-af70-216cab5285b1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area TE 1.2 (HESCHL)",
@@ -77,7 +103,14 @@
19474750,
7932494,
3511322
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "677cd48c-70fa-4bbd-9f0a-ffdc7744bc0f"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -99,7 +132,14 @@
3479937,
2702958,
3819372
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e1a3291-efdc-4ca6-a3d0-6c496c34639f"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -116,7 +156,14 @@
-3185950,
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-8346900
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "68784b66-ff15-4b09-b28a-a2146c0f8907"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area STS2 (STS)",
@@ -128,7 +175,14 @@
8584703,
6170348,
-11790982
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "278fc30f-2e24-4046-856b-95dfaf561635"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -150,7 +204,13 @@
-10496194,
13643679,
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- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a802f3dc-b7e5-48b7-9845-832a6e6f9b1c"
+ }
+ }
},
{
"name": "Area 6d2 (PreCG)",
@@ -162,7 +222,13 @@
-9255504,
27432072,
43445689
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "963c5281-67df-4d41-9b91-60b31cf150c0"
+ }
+ }
},
{
"name": "Area 6ma (preSMA, mesial SFG)",
@@ -174,7 +240,14 @@
-9349145,
27783957,
38734627
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "07b4c6a1-8a24-4f88-8f73-b2ea06e1c2f3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 6mp (SMA, mesial SFG)",
@@ -186,7 +259,14 @@
-11566856,
15797100,
42172031
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "def99e8e-ce8f-4a62-bd5d-739948c4b010"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -203,7 +283,14 @@
-8973604,
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- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "266c1ada-1840-462f-8223-7ff2df457552"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -220,7 +307,14 @@
-7394436,
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- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a6a83284-829b-4385-9f83-7f1bc832c5a5"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifj2 (IFS/PreCS)",
@@ -244,7 +338,14 @@
-4044465,
40212624,
17596493
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d687d385-98d9-4b31-85db-4bc682cd0a31"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifs2 (IFS)",
@@ -256,7 +357,14 @@
6807265,
40114241,
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- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "658a67d8-60c2-4bb4-8eaf-e54725eda261"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifs3 (IFS)",
@@ -268,7 +376,14 @@
-2260366,
37593844,
19960703
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e555881e-7082-4ac0-b6cc-cd096f30d3dc"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area ifs4 (IFS)",
@@ -280,7 +395,14 @@
-3440565,
37895181,
17378851
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "472dacc9-c27d-49c2-9e6f-a1cc3309c4ab"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -307,7 +429,14 @@
4800238,
8859989,
-24872710
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "030827d4-e0d1-4406-b71f-3f58dc2f9cca"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -329,7 +458,14 @@
-5671181,
-44793673,
21692004
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5875bfe2-99ca-4e50-bce2-61c201c3dd54"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP5 (IPS)",
@@ -341,7 +477,14 @@
-13546343,
-38230309,
26252296
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9717dec-0310-4078-a4ae-294170b4fb37"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP6 (IPS)",
@@ -353,7 +496,14 @@
-3723403,
-33064127,
32569712
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b9975f8e-f484-4e82-883a-5fd765855ae0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP7 (IPS)",
@@ -365,7 +515,14 @@
-5344588,
-43655931,
24702722
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9c6c3c96-8129-4e0e-aa22-a0fb435aab45"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -382,7 +539,14 @@
-4455614,
-44097379,
28855803
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a78998c2-99d4-4738-bbda-82a317f713f1"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -409,7 +573,24 @@
30,
250
],
- "children": []
+ "children": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5151ab8f-d8cb-4e67-a449-afe2a41fb007"
+ }
+ },
+ "relatedAreas": [
+ {
+ "name": "Area hOc1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b851eb9d-9502-45e9-8dd8-2861f0e6da3f"
+ }
+ }
+ }
+ ]
},
{
"name": "Area hOc2 (V2, 18)",
@@ -426,7 +607,14 @@
100,
250
],
- "children": []
+ "children": [],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "04674a3c-bb3a-495e-a466-206355e630bd"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "dorsal occipital cortex",
@@ -441,7 +629,14 @@
-4399437,
-36706104,
15113374
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d72e0210-a910-4b15-bcaf-80c3433cd3e0"
+ }
+ },
+ "relatedAreas": []
}
]
}
diff --git a/src/res/ext/colin.json b/src/res/ext/colin.json
index 9094492116566be46ff2869c02b27d01e40198d9..c9a3d19638ccd97efbd20da73e12547e6ce87a5a 100644
--- a/src/res/ext/colin.json
+++ b/src/res/ext/colin.json
@@ -115,7 +115,14 @@
-8347692
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -173,7 +180,14 @@
-11539130
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a5c9d95f-8e7c-4454-91b6-a790387370fc"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -231,7 +245,14 @@
-8347692
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bb111a95-e04c-4987-8254-4af4ed8b0022"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -276,7 +297,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "LB (Amygdala)",
@@ -303,7 +331,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "LB (Amygdala)",
@@ -330,7 +365,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "LB (Amygdala)",
@@ -367,7 +409,14 @@
-24045836
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "708df0fa-e9a4-4c23-bd85-8957f6d30faf"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -413,7 +462,14 @@
-19413304
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "SF (Amygdala)",
@@ -440,7 +496,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "SF (Amygdala)",
@@ -479,7 +542,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "48929163-bf7b-4471-9f14-991c5225eced"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "CM (Amygdala)",
@@ -518,7 +588,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -576,7 +653,14 @@
-15551351
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a964e6e6-8014-41a2-b975-754d75cbb6f2"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "IF (Amygdala)",
@@ -625,7 +709,14 @@
-16578431
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5a1391c8-6056-40e4-a19b-3774df42bd07"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "MF (Amygdala)",
@@ -674,7 +765,14 @@
-14441860
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3741c788-9412-4b8e-9ab4-9ca2d3a715ca"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -722,7 +820,14 @@
"children": [],
"status": "publicP"
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "CM (Amygdala)",
@@ -771,7 +876,14 @@
-12555825
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7aba8aef-6430-4fa7-ab54-8ecac558faed"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -847,7 +959,14 @@
70371695
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "64555f7f-1b33-4ffe-9853-be41e7a21096"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7M (SPL)",
@@ -896,7 +1015,14 @@
38312500
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0aacea5c-bc9e-483f-8376-25f176ada158"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7PC (SPL)",
@@ -945,7 +1071,14 @@
61493485
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "763140d3-7ba0-4f28-b0ac-c6cbda2d14e1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 5M (SPL)",
@@ -994,7 +1127,14 @@
60273140
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "abe105cf-2c29-46af-af75-6b46fdb75137"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7P (SPL)",
@@ -1043,7 +1183,14 @@
56304919
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "af9c4f39-63a4-409f-b306-e5965d639f37"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 5Ci (SPL)",
@@ -1092,7 +1239,14 @@
46892989
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "07d08f74-af3d-4cbe-bc3c-f32b7f5c989f"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 7A (SPL)",
@@ -1143,8 +1297,22 @@
}
],
"relatedAreas": [
- "Area 7A"
- ]
+ {
+ "name": "Area 7A",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "811f4adb-4a7c-45c1-8034-4afa9edf586a"
+ }
+ }
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e26e999f-77ad-4934-9569-8290ed05ebda"
+ }
+ }
}
]
},
@@ -1202,7 +1370,14 @@
18002513
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f6f10b01-6c10-42cf-8129-f5aaf307a36b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP4 (POperc)",
@@ -1251,7 +1426,14 @@
12780864
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b1e7f0d2-6d37-4047-9c2e-a08c3f1e2a16"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP2 (POperc)",
@@ -1300,7 +1482,14 @@
18021705
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "ab26cefd-f7d6-4442-8020-a6e418e673ff"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area OP1 (POperc)",
@@ -1349,7 +1538,14 @@
17000826
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "402ec28d-0809-4226-91a4-900d9303291b"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -1368,7 +1564,15 @@
"doi": "https://doi.org/10.25493/2JK3-QXR",
"synonyms": [],
"relatedAreas": [
- "Area 3b"
+ {
+ "name": "Area 3b",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "74304fe9-452e-4ca3-97a3-8cf3459bb1a0"
+ }
+ }
+ }
],
"rgb": [
239,
@@ -1410,7 +1614,13 @@
48227174
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b84f67bb-5d9f-4daf-a8d6-15f63f901bd4"
+ }
+ }
},
{
"name": "Area 1 (PostCG)",
@@ -1459,7 +1669,14 @@
56150187
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c9753e82-80ca-4074-a704-9dd2c4c0d58b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 2 (PostCS)",
@@ -1508,7 +1725,14 @@
52535010
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9147ae9-5cf0-41b2-89a3-e6e6df07bef1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 3a (PostCG)",
@@ -1557,7 +1781,14 @@
36284571
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2657ecc1-da69-4a37-9b37-66ae95f9623c"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -1576,7 +1807,15 @@
"doi": "https://doi.org/10.25493/F1TJ-54W",
"synonyms": [],
"relatedAreas": [
- "Area PF"
+ {
+ "name": "Area PF",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f4e177a6-1b2c-48d5-a62c-91949ba636e4"
+ }
+ }
+ }
],
"rgb": [
226,
@@ -1618,7 +1857,13 @@
30153112
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "18e5e1b0-6c25-4f55-a967-0834d2bd3ee4"
+ }
+ }
},
{
"name": "Area PFcm (IPL)",
@@ -1628,7 +1873,15 @@
"doi": "https://doi.org/10.25493/8DP8-8HE",
"synonyms": [],
"relatedAreas": [
- "Area PFcm"
+ {
+ "name": "Area PFcm",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f07d441f-452f-471b-ac7c-0d3c2ae16fb2"
+ }
+ }
+ }
],
"rgb": [
98,
@@ -1670,7 +1923,13 @@
23177904
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "10502c3a-f20e-44fa-b985-786d6888d4bb"
+ }
+ }
},
{
"name": "Area PGa (IPL)",
@@ -1680,7 +1939,15 @@
"doi": "https://doi.org/10.25493/V5HY-XTS",
"synonyms": [],
"relatedAreas": [
- "Area PGa"
+ {
+ "name": "Area PGa",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d5b168a3-a92e-4ab3-8b4d-61e58e5b7a1c"
+ }
+ }
+ }
],
"rgb": [
42,
@@ -1722,7 +1989,13 @@
30316395
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d7f6c5be-93c6-4a16-8939-4420329d4147"
+ }
+ }
},
{
"name": "Area PFt (IPL)",
@@ -1732,7 +2005,15 @@
"doi": "https://doi.org/10.25493/JGM9-ZET",
"synonyms": [],
"relatedAreas": [
- "Area PFt"
+ {
+ "name": "Area PFt",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ff7fcc4-a88b-4bf8-be07-1386a3760a96"
+ }
+ }
+ }
],
"rgb": [
120,
@@ -1774,7 +2055,13 @@
37973570
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "847cef50-7340-470d-8580-327b4ce9db19"
+ }
+ }
},
{
"name": "Area PFm (IPL)",
@@ -1784,7 +2071,15 @@
"doi": "https://doi.org/10.25493/TB94-HRK",
"synonyms": [],
"relatedAreas": [
- "Area PFm"
+ {
+ "name": "Area PFm",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3455ada4-48c3-4748-ae38-2fe3f376f0fc"
+ }
+ }
+ }
],
"rgb": [
53,
@@ -1826,7 +2121,13 @@
38606571
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "411edde9-685f-464b-970c-a929f9a4067c"
+ }
+ }
},
{
"name": "Area PGp (IPL)",
@@ -1877,8 +2178,22 @@
}
],
"relatedAreas": [
- "Area PGp"
- ]
+ {
+ "name": "Area PGp",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "1b00a0e4-9493-43ff-bfbd-b02119064813"
+ }
+ }
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b3ef6947-76c9-4935-bbc6-8b2329c0967b"
+ }
+ }
},
{
"name": "Area PFop (IPL)",
@@ -1929,8 +2244,22 @@
}
],
"relatedAreas": [
- "Area PFop"
- ]
+ {
+ "name": "Area PFop",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b4397c40-82e1-4d62-b97a-44e8d04b428b"
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+ "fullId": {
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+ "kgId": "e8262e56-88fe-4006-b078-def4d78416b8"
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}
]
},
@@ -1988,7 +2317,14 @@
37048660
]
}
- ]
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+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a78998c2-99d4-4738-bbda-82a317f713f1"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -2046,7 +2382,14 @@
39158853
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7722c71f-fe84-4deb-8f6b-98e2aecf2e31"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP7 (IPS)",
@@ -2095,7 +2438,14 @@
27046207
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9c6c3c96-8129-4e0e-aa22-a0fb435aab45"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP3 (IPS)",
@@ -2144,7 +2494,14 @@
50461950
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "700ac6db-870d-44f1-8786-0c01207f992b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP2 (IPS)",
@@ -2193,7 +2550,14 @@
45130872
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "4490ef3e-ce60-4453-9e9f-85388d0603cb"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP4 (IPS)",
@@ -2242,7 +2606,14 @@
22338021
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5875bfe2-99ca-4e50-bce2-61c201c3dd54"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP5 (IPS)",
@@ -2291,7 +2662,14 @@
33299252
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f9717dec-0310-4078-a4ae-294170b4fb37"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP6 (IPS)",
@@ -2340,7 +2718,14 @@
45628006
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b9975f8e-f484-4e82-883a-5fd765855ae0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hIP8 (IPS)",
@@ -2389,7 +2774,14 @@
41680048
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a2c1acc7-7fdc-4fbd-90ee-729eda7fdff3"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -2456,7 +2848,14 @@
17755898
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d72e0210-a910-4b15-bcaf-80c3433cd3e0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc4d (Cuneus)",
@@ -2505,7 +2904,14 @@
27253227
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8120426c-f65b-4426-8a58-3060e2334921"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc3d (Cuneus)",
@@ -2554,7 +2960,14 @@
23080617
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d7ec4342-ae58-41e3-a68c-28e90a719d41"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -2612,7 +3025,14 @@
-10031193
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0d6392fd-b905-4bc3-bac9-fc44d8990a30"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc4v (LingG)",
@@ -2661,7 +3081,14 @@
-12453305
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "27d91cbb-5611-4d38-bd17-c0f1ac22b4cc"
+ }
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+ "relatedAreas": []
}
]
},
@@ -2719,7 +3146,14 @@
2905309
]
}
- ]
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+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "04674a3c-bb3a-495e-a466-206355e630bd"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc1 (V1, 17, CalcS)",
@@ -2770,8 +3204,22 @@
}
],
"relatedAreas": [
- "Area hOc1"
- ]
+ {
+ "name": "Area hOc1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b851eb9d-9502-45e9-8dd8-2861f0e6da3f"
+ }
+ }
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5151ab8f-d8cb-4e67-a449-afe2a41fb007"
+ }
+ }
}
]
},
@@ -2829,7 +3277,14 @@
4086228
]
}
- ]
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+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9006ee6a-6dc1-4604-9f20-7e08b42d574d"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc5 (LOC)",
@@ -2878,7 +3333,14 @@
3121699
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b40afb5a-e6a1-47b6-8a3e-1f8a20fbf99a"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area hOc4la (LOC)",
@@ -2927,7 +3389,14 @@
-779202
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "94365b82-6204-4937-8b86-fe0433287938"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -2955,8 +3424,24 @@
"doi": "https://doi.org/10.25493/F9P8-ZVW",
"synonyms": [],
"relatedAreas": [
- "Area 44v",
- "Area 44d"
+ {
+ "name": "Area 44v",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e5e7aa8-28b8-445b-8980-2a6f3fa645b3"
+ }
+ }
+ },
+ {
+ "name": "Area 44d",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ }
+ }
],
"rgb": [
54,
@@ -2998,7 +3483,13 @@
13444358
]
}
- ]
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+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8a6be82c-5947-4fff-8348-cf9bf73e4f40"
+ }
+ }
},
{
"name": "Area 45 (IFG)",
@@ -3008,7 +3499,15 @@
"doi": "https://doi.org/10.25493/MR1V-BJ3",
"synonyms": [],
"relatedAreas": [
- "Area 45"
+ {
+ "name": "Area 45",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "131e6de8-b073-4f01-8f60-1bdb5a6c9a9a"
+ }
+ }
+ }
],
"rgb": [
167,
@@ -3050,7 +3549,13 @@
12102941
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "cb32e688-43f0-4ae3-9554-085973137663"
+ }
+ }
}
]
},
@@ -3108,7 +3613,14 @@
68442439
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "963c5281-67df-4d41-9b91-60b31cf150c0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 6d1 (PreCG)",
@@ -3157,7 +3669,14 @@
68870890
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a802f3dc-b7e5-48b7-9845-832a6e6f9b1c"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3215,7 +3734,14 @@
58355079
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "07b4c6a1-8a24-4f88-8f73-b2ea06e1c2f3"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3273,7 +3799,14 @@
53334281
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "266c1ada-1840-462f-8223-7ff2df457552"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3331,7 +3864,14 @@
-317043
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "10dc5343-941b-4e3e-80ed-df031c33bbc6"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fp2 (FPole)",
@@ -3380,7 +3920,14 @@
-509606
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3bf7bde1-cc06-4657-b296-380275f9d4b8"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3399,7 +3946,15 @@
"doi": "https://doi.org/10.25493/5HSF-81J",
"synonyms": [],
"relatedAreas": [
- "Area 4p"
+ {
+ "name": "Area 4p",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "861ab96a-c4b5-4ba6-bd40-1e80d4680f89"
+ }
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+ }
],
"rgb": [
116,
@@ -3441,7 +3996,13 @@
46456250
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "82e6e826-a439-41db-84ff-4674ca3d643a"
+ }
+ }
},
{
"name": "Area 4a (PreCG)",
@@ -3490,7 +4051,14 @@
68068112
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "175848ff-4c55-47e3-a0ae-f905a14e03cd"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3548,7 +4116,14 @@
57534028
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "def99e8e-ce8f-4a62-bd5d-739948c4b010"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3606,7 +4181,14 @@
-22481988
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3864cb8c-f277-4de6-9f8d-c76d71d7e9a9"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo3 (OFC)",
@@ -3655,7 +4237,14 @@
-20231493
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "741f6a9e-cfd7-4173-ac7d-ee616c29555e"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo2 (OFC)",
@@ -3704,7 +4293,14 @@
-20593342
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "30a04d2b-58e1-43d7-8b8f-1f0b598382d0"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -3869,7 +4465,14 @@
-4983615
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3fd2e113-ec08-407b-bc88-172c9285694a"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo4 (OFC)",
@@ -3918,7 +4521,14 @@
-15509742
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "2cdee956-207a-4d4d-b051-bef80045210b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo6 (OFC)",
@@ -3967,7 +4577,14 @@
-12457353
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "330ae178-557c-4bd0-a932-f138c0a05345"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Fo7 (OFC)",
@@ -4016,7 +4633,14 @@
-13777644
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "1b882148-fcdd-4dbe-b33d-659957840e9e"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -4083,7 +4707,14 @@
9071429
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "46cf08af-8086-4e8a-9e9f-182ca583bdf0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Ig3 (Insula)",
@@ -4132,7 +4763,14 @@
13916877
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "10dba769-4f6c-40f9-8ffd-e0cce71c5adb"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Ig2 (Insula)",
@@ -4181,7 +4819,14 @@
5703657
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "49092952-1eef-4b89-b8bf-1bf1f25f149a"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4239,7 +4884,14 @@
-7609615
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "110d0d7b-cb88-48ea-9caf-863f548dbe38"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4297,7 +4949,14 @@
2446009
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3d5729f5-55c6-412a-8fc1-41a95c71b13a"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4355,7 +5014,14 @@
3759834
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "cf9dea67-649d-4034-ae57-ec389f339277"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id1 (Insula)",
@@ -4404,7 +5070,14 @@
-4688027
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "c22055c1-514f-4096-906b-abf57286053b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id3 (Insula)",
@@ -4453,7 +5126,14 @@
-9042586
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "3dcfcfc2-035c-4785-a820-a671f2104ac3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id5 (Insula)",
@@ -4502,7 +5182,14 @@
607357
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e03cd3c6-d0be-481c-b906-9b39c1d0b641"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id6 (Insula)",
@@ -4551,7 +5238,14 @@
3041624
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "31bbe92d-e5e8-4cf4-be5d-e6b12c71a107"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area Id4 (Insula)",
@@ -4600,7 +5294,14 @@
10858017
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f480ed72-5ca5-4d1f-8905-cbe9bedcfaee"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -4667,7 +5368,14 @@
-16067930
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "278fc30f-2e24-4046-856b-95dfaf561635"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area STS1 (STS)",
@@ -4716,7 +5424,14 @@
-5712544
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "68784b66-ff15-4b09-b28a-a2146c0f8907"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4774,7 +5489,14 @@
-1027621
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e1a3291-efdc-4ca6-a3d0-6c496c34639f"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -4832,7 +5554,14 @@
52747
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "677cd48c-70fa-4bbd-9f0a-ffdc7744bc0f"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area TE 1.1 (HESCHL)",
@@ -4881,7 +5610,14 @@
10308962
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e2969911-77eb-4b21-af70-216cab5285b1"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area TE 1.0 (HESCHL)",
@@ -4891,7 +5627,15 @@
"doi": "https://doi.org/10.25493/MV3G-RET",
"synonyms": [],
"relatedAreas": [
- "Area Te1"
+ {
+ "name": "Area Te1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "f424643e-9baf-4c50-9417-db1ac33dcd3e"
+ }
+ }
+ }
],
"rgb": [
252,
@@ -4933,7 +5677,13 @@
5942946
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "13e21153-2ba8-4212-b172-8894f1012225"
+ }
+ }
}
]
},
@@ -4952,7 +5702,15 @@
"doi": "https://doi.org/10.25493/F2JH-KVV",
"synonyms": [],
"relatedAreas": [
- "Area FG2"
+ {
+ "name": "Area FG2",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8f436328-4251-4706-ae38-767e1ab21c6f"
+ }
+ }
+ }
],
"rgb": [
67,
@@ -4994,7 +5752,13 @@
-17316773
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6e7a0441-4baa-4355-921b-50d23d07d50f"
+ }
+ }
},
{
"name": "Area FG3 (FusG)",
@@ -5043,7 +5807,14 @@
-15533822
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "023f8ef7-c266-4c45-8bf2-4a17dc52985b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area FG1 (FusG)",
@@ -5094,8 +5865,22 @@
}
],
"relatedAreas": [
- "Area FG1"
- ]
+ {
+ "name": "Area FG1",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "6318e160-4ad2-4eec-8a2e-2df6fe07d8f4"
+ }
+ }
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "39fb34a8-fd6d-4fba-898c-2f6167e40459"
+ }
+ }
},
{
"name": "Area FG4 (FusG)",
@@ -5105,7 +5890,15 @@
"doi": "https://doi.org/10.25493/13RG-FYV",
"synonyms": [],
"relatedAreas": [
- "Area FG2"
+ {
+ "name": "Area FG2",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8f436328-4251-4706-ae38-767e1ab21c6f"
+ }
+ }
+ }
],
"rgb": [
170,
@@ -5147,7 +5940,13 @@
-22392295
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "fa602743-5f6e-49d1-9734-29dffaa95ff5"
+ }
+ }
}
]
}
@@ -5214,7 +6013,14 @@
12002406
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e6507a3d-f2f8-4c17-84ff-0e7297e836a0"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 25 (sACC)",
@@ -5263,7 +6069,14 @@
-12174863
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9010ef76-accd-4308-9951-f37b6a10f42b"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area p24ab (pACC)",
@@ -5312,7 +6125,14 @@
7809963
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "5dbb1035-487c-4f43-b551-ccadcf058340"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area s32 (sACC)",
@@ -5361,7 +6181,14 @@
-12141905
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "61b44255-ae3a-4a23-b1bc-7d303a48dbd3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area 33 (ACC)",
@@ -5410,7 +6237,14 @@
16125051
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b83a3330-b80e-42a0-b8d2-82f38784aa1d"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area p32 (pACC)",
@@ -5459,7 +6293,14 @@
12436058
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b09aaa77-f41b-4008-b8b9-f984b0417cf3"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Area s24 (sACC)",
@@ -5508,7 +6349,14 @@
-9257019
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "d4ea6cc5-1e1d-4212-966f-81fed01eb648"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5566,7 +6414,14 @@
-17871795
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "9ec4a423-70fa-43cd-90b3-fbc26a3cbc6c"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Entorhinal Cortex",
@@ -5615,15 +6470,30 @@
-32577556
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "030827d4-e0d1-4406-b71f-3f58dc2f9cca"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "CA (Hippocampus)",
"arealabel": "CA",
"status": "publicP",
"labelIndex": null,
- "relatedAreas":[
- "CA1 (Hippocampus)"
+ "relatedAreas": [
+ {
+ "name": "CA1 (Hippocampus)",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "bfc0beb7-310c-4c57-b810-2adc464bd02c"
+ }
+ }
+ }
],
"doi": "https://doi.org/10.25493/B85T-D88",
"synonyms": [],
@@ -5667,7 +6537,13 @@
-11142814
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a0d14d3e-bc30-41cf-8b28-540067897f80"
+ }
+ }
},
{
"name": "DG (Hippocampus)",
@@ -5716,7 +6592,14 @@
-10596203
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "0bea7e03-bfb2-4907-9d45-db9071ce627d"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Subiculum (Hippocampus)",
@@ -5765,7 +6648,14 @@
-15923499
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e2dab4c-a140-440d-a322-c1679adef2d4"
+ }
+ },
+ "relatedAreas": []
}
]
}
@@ -5850,7 +6740,14 @@
-31489418
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -5908,7 +6805,14 @@
-36586280
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "58095aef-da69-43d4-887c-009c095cecce"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "Ventral Dentate Nucleus (Cerebellum)",
@@ -5957,7 +6861,14 @@
-31385609
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "57282342-5a75-4e07-bcdc-2d368c517b71"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -6015,7 +6926,14 @@
-29040632
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "e8abfe3d-8b64-45c2-8853-314d82873273"
+ }
+ },
+ "relatedAreas": []
}
]
},
@@ -6073,7 +6991,14 @@
-31489418
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "85e7bb13-4b73-4f6f-8222-3adb7b800788"
+ }
+ },
+ "relatedAreas": []
}
]
}
diff --git a/src/res/ext/waxholmRatV2_0.json b/src/res/ext/waxholmRatV2_0.json
index 58c045cb923f560434ec224ee815a2bd800e22d9..6b0c9fd80c19f7692d1473dfc4819d08b159a7f1 100644
--- a/src/res/ext/waxholmRatV2_0.json
+++ b/src/res/ext/waxholmRatV2_0.json
@@ -4,7 +4,7 @@
"species": "Rat",
"useTheme": "dark",
"ngId": "template",
- "otherNgIds":[
+ "otherNgIds": [
"templateUnMasked"
],
"nehubaConfigURL": "nehubaConfig/waxholmRatV2_0NehubaConfig",
@@ -13,1545 +13,1576 @@
"ngId": "v3",
"type": "parcellation",
"name": "Waxholm Space rat brain atlas v3",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "e80f9946-1aa9-494b-b81a-9048ca9afdbe"
- }],
- "regions": [{
- "ngId": "v3",
- "name": "Whole brain",
- "labelIndex": null,
- "rgb": null,
- "children":[
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "White matter",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 67,
- "name": "corpus callosum and associated subcortical white matter",
- "rgb": [
- 255,
- 110,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Anterior commissure",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 36,
- "name": "anterior commissure, anterior part",
- "rgb": [
- 124,
- 252,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 37,
- "name": "anterior commissure, posterior part",
- "rgb": [
- 255,
- 186,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 73,
- "name": "anterior commissure",
- "rgb": [
- 255,
- 79,
- 206
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Hippocampal white matter",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 6,
- "name": "alveus of the hippocampus",
- "rgb": [
- 255,
- 0,
- 255
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 38,
- "name": "ventral hippocampal commissure",
- "rgb": [
- 174,
- 0,
- 232
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 52,
- "name": "fornix",
- "rgb": [
- 21,
- 192,
- 255
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 59,
- "name": "fimbria of the hippocampus",
- "rgb": [
- 0,
- 255,
- 29
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Corticofugal pathways",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 1,
- "name": "descending corticofugal pathways",
- "rgb": [
- 255,
- 52,
- 39
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 85,
- "name": "pyramidal decussation",
- "rgb": [
- 114,
- 9,
- 212
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Medial lemniscus",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 34,
- "name": "medial lemniscus",
- "rgb": [
- 212,
- 255,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 84,
- "name": "medial lemniscus decussation",
- "rgb": [
- 65,
- 150,
- 255
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Thalamic tracts",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 53,
- "name": "mammillothalamic tract",
- "rgb": [
- 238,
- 186,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 54,
- "name": "commissural stria terminalis",
- "rgb": [
- 173,
- 255,
- 47
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 60,
- "name": "fasciculus retroflexus",
- "rgb": [
- 244,
- 67,
- 69
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 61,
- "name": "stria medullaris of the thalamus",
- "rgb": [
- 0,
- 255,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 62,
- "name": "stria terminalis",
- "rgb": [
- 238,
- 117,
- 51
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 80,
- "name": "habenular commissure",
- "rgb": [
- 69,
- 235,
- 202
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": 63,
- "name": "posterior commissure",
- "rgb": [
- 255,
- 0,
- 218
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Facial nerve",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 35,
- "name": "facial nerve",
- "rgb": [
- 255,
- 25,
- 240
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 72,
- "name": "ascending fibers of the facial nerve",
- "rgb": [
- 179,
- 28,
- 53
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 57,
- "name": "genu of the facial nerve",
- "rgb": [
- 250,
- 244,
- 247
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Optic fiber system and supraoptic decussation",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 41,
- "name": "optic nerve",
- "rgb": [
- 48,
- 218,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 42,
- "name": "optic tract and optic chiasm",
- "rgb": [
- 38,
- 126,
- 255
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 83,
- "name": "supraoptic decussation",
- "rgb": [
- 250,
- 170,
- 64
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": 76,
- "name": "spinal trigeminal tract",
- "rgb": [
- 250,
- 128,
- 114
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "White matter of the tectum",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 46,
- "name": "commissure of the superior colliculus",
- "rgb": [
- 33,
- 230,
- 255
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 68,
- "name": "brachium of the superior colliculus",
- "rgb": [
- 188,
- 32,
- 173
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 69,
- "name": "inferior colliculus, commissure",
- "rgb": [
- 255,
- 42,
- 39
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 146,
- "name": "inferior colliculus, brachium",
- "rgb": [
- 176,
- 58,
- 72
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Cerebellar and precerebellar white matter",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 7,
- "name": "inferior cerebellar peduncle",
- "rgb": [
- 52,
- 255,
- 13
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 78,
- "name": "middle cerebellar peduncle",
- "rgb": [
- 134,
- 204,
- 76
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 79,
- "name": "transverse fibers of the pons",
- "rgb": [
- 128,
- 170,
- 255
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "White matter of the brainstem",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Lateral lemniscus",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 140,
- "name": "lateral lemniscus, commissure",
- "rgb": [
- 255,
- 29,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 141,
- "name": "lateral lemniscus",
- "rgb": [
- 255,
- 166,
- 0
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": 129,
- "name": "acoustic striae",
- "rgb": [
- 255,
- 217,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 130,
- "name": "trapezoid body",
- "rgb": [
- 213,
- 255,
- 0
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": 157,
- "name": "auditory radiation",
- "rgb": [
- 244,
- 156,
- 255
- ],
- "children": []
- }
- ]
- },
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Gray matter",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Olfactory system",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 64,
- "name": "glomerular layer of the accessory olfactory bulb",
- "rgb": [
- 15,
- 109,
- 230
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 65,
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+ "labelIndex": 70,
+ "name": "central canal",
+ "rgb": [
+ 39,
+ 244,
+ 253
+ ],
+ "children": []
+ }
+ ]
+ },
+ {
+ "ngId": "v3",
+ "labelIndex": null,
+ "name": "Inner ear",
+ "children": [
+ {
+ "ngId": "v3",
+ "labelIndex": 119,
+ "name": "vestibular apparatus",
+ "rgb": [
+ 0,
+ 144,
+ 55
+ ],
+ "children": []
+ },
+ {
+ "ngId": "v3",
+ "labelIndex": 120,
+ "name": "cochlea",
+ "rgb": [
+ 0,
+ 255,
+ 29
+ ],
+ "children": []
+ },
+ {
+ "ngId": "v3",
+ "labelIndex": 121,
+ "name": "cochlear nerve",
+ "rgb": [
+ 253,
+ 148,
+ 0
+ ],
+ "children": []
+ },
+ {
+ "ngId": "v3",
+ "labelIndex": 122,
+ "name": "vestibular nerve",
+ "rgb": [
+ 253,
+ 50,
+ 0
+ ],
+ "children": []
+ },
+ {
+ "ngId": "v3",
+ "labelIndex": 162,
+ "name": "spiral ganglion",
+ "rgb": [
+ 185,
+ 255,
+ 233
+ ],
+ "children": []
+ }
+ ]
+ }
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b2b56201-472c-4f70-842f-cf2133eacaba"
+ }
},
- {
- "ngId": "v3",
- "labelIndex": null,
- "name": "Inner ear",
- "children": [
- {
- "ngId": "v3",
- "labelIndex": 119,
- "name": "vestibular apparatus",
- "rgb": [
- 0,
- 144,
- 55
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 120,
- "name": "cochlea",
- "rgb": [
- 0,
- 255,
- 29
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 121,
- "name": "cochlear nerve",
- "rgb": [
- 253,
- 148,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 122,
- "name": "vestibular nerve",
- "rgb": [
- 253,
- 50,
- 0
- ],
- "children": []
- },
- {
- "ngId": "v3",
- "labelIndex": 162,
- "name": "spiral ganglion",
- "rgb": [
- 185,
- 255,
- 233
- ],
- "children": []
- }
- ]
- }]
- }],
+ "relatedAreas": []
+ }
+ ],
"properties": {
"name": "Waxholm Space rat brain atlas v3",
"description": "Waxholm Space atlas of the rat brain, with detailed delineations of the ascending auditory system. (40 new structures added, 10 structures revised, in total 118 structures delineated)",
- "publications": [{
- "cite": "https://www.nitrc.org/frs/?group_id=1081",
- "doi": "https://www.nitrc.org/frs/?group_id=1081"
- },{
- "doi": "10.1016/j.neuroimage.2019.05.016",
- "cite": "Osen KK, Imad J, Wennberg AE, Papp EA, Leergaard TB (2019) Waxholm Space atlas of the rat brain auditory system: Three-dimensional delineations based on structural and diffusion tensor magnetic resonance imaging. NeuroImage 199, 38-56"
- }]
+ "publications": [
+ {
+ "cite": "https://www.nitrc.org/frs/?group_id=1081",
+ "doi": "https://www.nitrc.org/frs/?group_id=1081"
+ },
+ {
+ "doi": "10.1016/j.neuroimage.2019.05.016",
+ "cite": "Osen KK, Imad J, Wennberg AE, Papp EA, Leergaard TB (2019) Waxholm Space atlas of the rat brain auditory system: Three-dimensional delineations based on structural and diffusion tensor magnetic resonance imaging. NeuroImage 199, 38-56"
+ }
+ ]
}
},
{
"ngId": "v2",
"type": "parcellation",
"name": "Waxholm Space rat brain atlas v2",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "2c8ec4fb-45ca-4fe7-accf-c41b5e92c43d"
- }],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "2c8ec4fb-45ca-4fe7-accf-c41b5e92c43d"
+ }
+ ],
"regions": [
{
"name": "Whole brain",
@@ -3055,7 +3086,14 @@
],
"children": null
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a844d80f-1d94-41a0-901a-14ae257519db"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "inferior olive",
@@ -3182,37 +3220,48 @@
}
]
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b2b56201-472c-4f70-842f-cf2133eacaba"
+ }
+ },
+ "relatedAreas": []
}
],
"properties": {
"name": "Waxholm Space rat brain atlas v2",
"description": "Waxholm Space atlas of the rat brain, expanded with detailed delineations of 13 hippocampal and parahippocampal region (79 structures total).",
- "publications": [{
- "cite": "https://www.nitrc.org/frs/?group_id=1081",
- "doi": "https://www.nitrc.org/frs/?group_id=1081"
- },{
- "cite": "Kjonigsen LJ, Lillehaug S, Bjaalie JG, Witter MP, Leergaard TB (2015) Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging. NeuroImage 108, 441-449",
- "doi": "10.1016/j.neuroimage.2014.12.080"
- }]
+ "publications": [
+ {
+ "cite": "https://www.nitrc.org/frs/?group_id=1081",
+ "doi": "https://www.nitrc.org/frs/?group_id=1081"
+ },
+ {
+ "cite": "Kjonigsen LJ, Lillehaug S, Bjaalie JG, Witter MP, Leergaard TB (2015) Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional delineations based on magnetic resonance and diffusion tensor imaging. NeuroImage 108, 441-449",
+ "doi": "10.1016/j.neuroimage.2014.12.080"
+ }
+ ]
}
},
{
"ngId": "v1_01",
"type": "parcellation",
"name": "Waxholm Space rat brain atlas v1",
- "originDatasets":[{
- "kgSchema": "minds/core/dataset/v1.0.0",
- "kgId": "f40e466b-8247-463a-a4cb-56dfe68e7059"
- }],
+ "originDatasets": [
+ {
+ "kgSchema": "minds/core/dataset/v1.0.0",
+ "kgId": "f40e466b-8247-463a-a4cb-56dfe68e7059"
+ }
+ ],
"regions": [
{
"ngId": "v1_01",
"name": "Whole brain",
"labelIndex": null,
"rgb": null,
- "children":[
-
+ "children": [
{
"name": "White matter",
"labelIndex": null,
@@ -4718,7 +4767,14 @@
},
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "a844d80f-1d94-41a0-901a-14ae257519db"
+ }
+ },
+ "relatedAreas": []
},
{
"name": "inferior olive",
@@ -4885,33 +4941,47 @@
},
"children": []
}
- ]
+ ],
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "b2b56201-472c-4f70-842f-cf2133eacaba"
+ }
+ },
+ "relatedAreas": []
}
],
"properties": {
"name": "Waxholm Space rat brain atlas v1",
"description": "Waxholm Space atlas of the Sprague Dawley rat brain, first iteration with major brain regions delineated (76 structures).",
- "publications": [{
- "cite": "https://www.nitrc.org/frs/?group_id=1081",
- "doi": "https://www.nitrc.org/frs/?group_id=1081"
- },{
- "doi": "10.1016/j.neuroimage.2014.04.001",
- "cite": "Papp EA, Leergaard TB, Calabrese E, Johnson GA, Bjaalie JG (2014) Waxholm Space atlas of the Sprague Dawley rat brain. NeuroImage 97, 374-386"
- }]
+ "publications": [
+ {
+ "cite": "https://www.nitrc.org/frs/?group_id=1081",
+ "doi": "https://www.nitrc.org/frs/?group_id=1081"
+ },
+ {
+ "doi": "10.1016/j.neuroimage.2014.04.001",
+ "cite": "Papp EA, Leergaard TB, Calabrese E, Johnson GA, Bjaalie JG (2014) Waxholm Space atlas of the Sprague Dawley rat brain. NeuroImage 97, 374-386"
+ }
+ ]
}
}
],
"properties": {
"name": "Waxholm Space rat brain MRI/DTI",
"description": "MRI/DTI template of adult male Sprague Dawley rat brain.",
- "publications": [{
- "doi": "10.1016/j.neuroimage.2014.04.001",
- "cite": "Papp EA, Leergaard TB, Calabrese E, Johnson GA, Bjaalie JG (2014) Waxholm Space atlas of the Sprague Dawley rat brain. NeuroImage 97, 374-386"
- },{
- "cite": "RRID: SCR_017124"
- },{
- "doi": "https://www.nitrc.org/projects/whs-sd-atlas",
- "cite": "https://www.nitrc.org/projects/whs-sd-atlas"
- }]
+ "publications": [
+ {
+ "doi": "10.1016/j.neuroimage.2014.04.001",
+ "cite": "Papp EA, Leergaard TB, Calabrese E, Johnson GA, Bjaalie JG (2014) Waxholm Space atlas of the Sprague Dawley rat brain. NeuroImage 97, 374-386"
+ },
+ {
+ "cite": "RRID: SCR_017124"
+ },
+ {
+ "doi": "https://www.nitrc.org/projects/whs-sd-atlas",
+ "cite": "https://www.nitrc.org/projects/whs-sd-atlas"
+ }
+ ]
}
}
\ No newline at end of file
diff --git a/src/services/effect/effect.ts b/src/services/effect/effect.ts
index 043ff4c116bd86a34155c4048e35d61c8c9b4400..a1ade573150dc87aa589e1d5a7d867cc0060be69 100644
--- a/src/services/effect/effect.ts
+++ b/src/services/effect/effect.ts
@@ -1,12 +1,11 @@
import { Injectable, OnDestroy } from "@angular/core";
import { Actions, Effect, ofType } from "@ngrx/effects";
import { select, Store } from "@ngrx/store";
-import { fromEvent, merge, Observable, Subscription } from "rxjs";
+import { merge, Observable, Subscription } from "rxjs";
import { filter, map, shareReplay, switchMap, take, withLatestFrom } from "rxjs/operators";
-import { worker } from 'src/atlasViewer/atlasViewer.workerService.service'
import { LoggingService } from "../logging.service";
-import { ADD_TO_REGIONS_SELECTION_WITH_IDS, DESELECT_REGIONS, NEWVIEWER, SELECT_PARCELLATION, SELECT_REGIONS, SELECT_REGIONS_WITH_ID, UPDATE_PARCELLATION } from "../state/viewerState.store";
-import { generateLabelIndexId, getNgIdLabelIndexFromId, IavRootStoreInterface, recursiveFindRegionWithLabelIndexId } from '../stateStore.service';
+import { ADD_TO_REGIONS_SELECTION_WITH_IDS, DESELECT_REGIONS, NEWVIEWER, SELECT_PARCELLATION, SELECT_REGIONS, SELECT_REGIONS_WITH_ID } from "../state/viewerState.store";
+import { generateLabelIndexId, getNgIdLabelIndexFromId, IavRootStoreInterface, recursiveFindRegionWithLabelIndexId, getMultiNgIdsRegionsLabelIndexMap, GENERAL_ACTION_TYPES } from '../stateStore.service';
@Injectable({
providedIn: 'root',
@@ -18,15 +17,6 @@ export class UseEffects implements OnDestroy {
private store$: Store<IavRootStoreInterface>,
private log: LoggingService,
) {
- this.subscriptions.push(
- this.newParcellationSelected$.subscribe(parcellation => {
- worker.postMessage({
- type: `PROPAGATE_NG_ID`,
- parcellation,
- })
- }),
- )
-
this.regionsSelected$ = this.store$.pipe(
select('viewerState'),
select('regionsSelected'),
@@ -105,11 +95,24 @@ export class UseEffects implements OnDestroy {
ofType(NEWVIEWER),
)
+ // trigger for rebuilding the parcellation
private newParcellationSelected$ = merge(
- this.newViewer$,
- this.parcellationSelected$,
+ this.actions$.pipe(
+ ofType(NEWVIEWER)
+ ),
+ this.actions$.pipe(
+ ofType(SELECT_PARCELLATION)
+ ),
+ this.actions$.pipe(
+ ofType(GENERAL_ACTION_TYPES.APPLY_STATE)
+ )
).pipe(
- map(({selectParcellation}) => selectParcellation),
+ withLatestFrom(this.store$.pipe(
+ select('viewerState'),
+ select('parcellationSelected')
+ )),
+ map(([_, parcellation]) => parcellation),
+ filter(v => !!v)
)
private updatedParcellation$ = this.store$.pipe(
@@ -198,35 +201,12 @@ export class UseEffects implements OnDestroy {
* side effect of selecting a parcellation means deselecting all regions
*/
@Effect()
- public onParcellationSelected$ = this.newParcellationSelected$.pipe(
+ public onParcellationSelected$ = this.parcellationSelected$.pipe(
map(() => ({
type: SELECT_REGIONS,
selectRegions: [],
})),
)
-
- /**
- * calculating propagating ngId from worker thread
- */
- @Effect()
- public updateParcellation$ = fromEvent(worker, 'message').pipe(
- filter((message: MessageEvent) => message && message.data && message.data.type === 'UPDATE_PARCELLATION_REGIONS'),
- map(({data}) => data.parcellation),
- withLatestFrom(this.newParcellationSelected$),
- filter(([ propagatedP, selectedP ]: [any, any]) => {
- /**
- * TODO
- * use id
- * but jubrain may have same id for different template spaces
- */
- return propagatedP.name === selectedP.name
- }),
- map(([ propagatedP, _ ]) => propagatedP),
- map(parcellation => ({
- type: UPDATE_PARCELLATION,
- updatedParcellation: parcellation,
- })),
- )
}
export const getGetRegionFromLabelIndexId = ({ parcellation }) => {
diff --git a/src/services/state/viewerState.store.ts b/src/services/state/viewerState.store.ts
index 606ac579f63d2866c6b7d9779e4ec78726b773e7..45f6313d5ab9ddfe3657715f6cbf7da7801aebae 100644
--- a/src/services/state/viewerState.store.ts
+++ b/src/services/state/viewerState.store.ts
@@ -88,15 +88,10 @@ export const getStateStore = ({ state = defaultState } = {}) => (prevState: Part
case NEWVIEWER: {
const { selectParcellation: parcellation } = action
- // const parcellation = propagateNgId( selectParcellation ): parcellation
- const { regions, ...parcellationWORegions } = parcellation
return {
...prevState,
templateSelected : action.selectTemplate,
- parcellationSelected : {
- ...parcellationWORegions,
- regions: null,
- },
+ parcellationSelected : parcellation,
// taken care of by effect.ts
// regionsSelected : [],
landmarksSelected : [],
@@ -117,25 +112,14 @@ export const getStateStore = ({ state = defaultState } = {}) => (prevState: Part
}
}
case SELECT_PARCELLATION : {
- const { selectParcellation: sParcellation } = action
- const { regions, ...sParcellationWORegions } = sParcellation
+ const { selectParcellation } = action
return {
...prevState,
- parcellationSelected: sParcellationWORegions,
+ parcellationSelected: selectParcellation,
// taken care of by effect.ts
// regionsSelected: []
}
}
- case UPDATE_PARCELLATION: {
- const { updatedParcellation } = action
- return {
- ...prevState,
- parcellationSelected: {
- ...updatedParcellation,
- updated: true,
- },
- }
- }
case SELECT_REGIONS: {
const { selectRegions } = action
return {
@@ -225,7 +209,6 @@ export const FETCHED_TEMPLATE = 'FETCHED_TEMPLATE'
export const CHANGE_NAVIGATION = 'CHANGE_NAVIGATION'
export const SELECT_PARCELLATION = `SELECT_PARCELLATION`
-export const UPDATE_PARCELLATION = `UPDATE_PARCELLATION`
export const DESELECT_REGIONS = `DESELECT_REGIONS`
export const SELECT_REGIONS = `SELECT_REGIONS`
diff --git a/src/services/stateStore.service.ts b/src/services/stateStore.service.ts
index 7b490020bf309499cd51f81669cc2f4bc11a957c..45aee75b421a35e660d3060cdd5082ec3150afae 100644
--- a/src/services/stateStore.service.ts
+++ b/src/services/stateStore.service.ts
@@ -216,8 +216,3 @@ export const defaultRootState: IavRootStoreInterface = {
viewerConfigState: viewerConfigDefaultState,
viewerState: viewerDefaultState,
}
-
-// export const getInitialState = (): IavRootStoreInterface => {
-// const search = new URLSearchParams( window.location.search )
-// cvtSearchParamToState(search, defaultRootState)
-// }
diff --git a/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.spec.ts b/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.spec.ts
new file mode 100644
index 0000000000000000000000000000000000000000..d0fe83f9512cfb7b595fe059b67646823e0f6012
--- /dev/null
+++ b/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.spec.ts
@@ -0,0 +1,472 @@
+import { regionsEqual, FilterDataEntriesByRegion } from './filterDataEntriesByRegion.pipe'
+
+const cytoPmapHoc1 = {
+ "formats": [
+ "NIFTI"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Amunts, K., Malikovic, A., Mohlberg, H., Schormann, T., & Zilles, K. (2000). Brodmann’s Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable? NeuroImage, 11(1), 66–84. ",
+ "doi": "10.1006/nimg.1999.0516"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "imaging"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [
+ {
+ "name": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/referencespace/v1.0.0/dafcffc5-4826-4bf1-8ff6-46b8a31ff8e2"
+ },
+ {
+ "name": "MNI Colin 27",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992"
+ }
+ ],
+ "methods": [
+ "silver staining",
+ "magnetic resonance imaging (MRI)",
+ "probability mapping",
+ "cytoarchitectonic mapping"
+ ],
+ "custodians": [
+ "Amunts, Katrin"
+ ],
+ "project": [
+ "JuBrain: cytoarchitectonic probabilistic maps of the human brain"
+ ],
+ "description": "This dataset contains the distinct architectonic Area hOc1 (V1, 17, CalcS) in the individual, single subject template of the MNI Colin 27 as well as the MNI ICBM 152 2009c nonlinear asymmetric reference space. As part of the JuBrain cytoarchitectonic atlas, the area was identified using cytoarchitectonic analysis on cell-body-stained histological sections of 10 human postmortem brains obtained from the body donor program of the University of Düsseldorf. The results of the cytoarchitectonic analysis were then mapped to both reference spaces, where each voxel was assigned the probability to belong to Area hOc1 (V1, 17, CalcS). The probability map of Area hOc1 (V1, 17, CalcS) are provided in the NifTi format for each brain reference space and hemisphere. The JuBrain atlas relies on a modular, flexible and adaptive framework containing workflows to create the probabilistic brain maps for these structures. Note that methodological improvements and integration of new brain structures may lead to small deviations in earlier released datasets.",
+ "parcellationAtlas": [
+ {
+ "name": "Jülich Cytoarchitechtonic Brain Atlas (human)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/94c1125b-b87e-45e4-901c-00daee7f2579",
+ "id": [
+ "deec923ec31a82f89a9c7c76a6fefd6b",
+ "e2d45e028b6da0f6d9fdb9491a4de80a"
+ ]
+ }
+ ],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area hOc1 (V1, 17, CalcS)",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/5151ab8f-d8cb-4e67-a449-afe2a41fb007"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Probabilistic cytoarchitectonic map of Area hOc1 (V1, 17, CalcS) (v2.4)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/5c669b77-c981-424a-858d-fe9f527dbc07",
+ "contributors": [
+ "Zilles, Karl",
+ "Schormann, Thorsten",
+ "Mohlberg, Hartmut",
+ "Malikovic, Aleksandar",
+ "Amunts, Katrin"
+ ],
+ "id": "5c669b77-c981-424a-858d-fe9f527dbc07",
+ "kgReference": [
+ "10.25493/MXJ6-6DH"
+ ],
+ "publications": [
+ {
+ "name": "Brodmann's Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable?",
+ "cite": "Amunts, K., Malikovic, A., Mohlberg, H., Schormann, T., & Zilles, K. (2000). Brodmann’s Areas 17 and 18 Brought into Stereotaxic Space—Where and How Variable? NeuroImage, 11(1), 66–84. ",
+ "doi": "10.1006/nimg.1999.0516"
+ }
+ ]
+} as any
+
+const receptorhoc1 = {
+ "formats": [
+ "xlsx, tif, txt"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Eickhoff, S. B., Schleicher, A., Scheperjans, F., Palomero-Gallagher, N., & Zilles, K. (2007). Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex. NeuroImage, 34(4), 1317–1330. ",
+ "doi": "10.1016/j.neuroimage.2006.11.016"
+ },
+ {
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [],
+ "methods": [
+ "receptor autoradiography plot",
+ "receptor density fingerprint analysis",
+ "receptor density profile analysis",
+ "autoradiography with [³H] SCH23390",
+ "autoradiography with [³H] ketanserin",
+ "autoradiography with [³H] 8-OH-DPAT",
+ "autoradiography with [³H] UK-14,304",
+ "autoradiography with [³H] epibatidine",
+ "autoradiography with [³H] 4-DAMP",
+ "autoradiography with [³H] oxotremorine-M",
+ "autoradiography with [³H] flumazenil",
+ "autoradiography with [³H] CGP 54626",
+ "autoradiography with [³H] prazosin",
+ "autoradiography with [³H] muscimol",
+ "autoradiography with [³H]LY 341 495",
+ "autoradiography with [³H] pirenzepine",
+ "autoradiography with [³H] MK-801",
+ "autoradiography with [³H] kainate",
+ "autoradiography with [³H] AMPA"
+ ],
+ "custodians": [
+ "Palomero-Gallagher, Nicola",
+ "Zilles, Karl"
+ ],
+ "project": [
+ "Quantitative Receptor data"
+ ],
+ "description": "This dataset contains the densities (in fmol/mg protein) of 16 receptors for classical neurotransmitters in Area hOc1 using quantitative in vitro autoradiography. The receptor density measurements can be provided in three ways: (fp) as density fingerprints (average across samples; mean density and standard deviation for each of the 16 receptors), (pr) as laminar density profiles (exemplary data from one sample; average course of the density from the pial surface to the border between layer VI and the white matter for each receptor), and (ar) as color-coded autoradiographs (exemplary data from one sample; laminar density distribution patterns for each receptor labeling). \nThis dataset contains the following receptor density measurements based on the labeling of these receptor binding sites: \n\nAMPA (glutamate; labelled with [³H]AMPA): fp, pr, ar\n\nkainate (glutamate; [³H]kainate): fp, pr, ar\n\nNMDA (glutamate; [³H]MK-801): fp, pr, ar\n\nmGluR2/3 (glutamate; [³H] LY 341 495): pr, ar\n\nGABA<sub>A</sub> (GABA; [³H]muscimol): fp, pr, ar\n\nGABA<sub>B</sub> (GABA; [³H] CGP54626): fp, pr, ar\n\nGABA<sub>A</sub> associated benzodiazepine binding sites (BZ; [³H]flumazenil): fp, pr, ar\n\nmuscarinic Mâ‚ (acetylcholine; [³H]pirenzepine): fp, pr, ar\n\nmuscarinic Mâ‚‚ (acetylcholine; [³H]oxotremorine-M): fp, pr, ar\n\nmuscarinic M₃ (acetylcholine; [³H]4-DAMP): fp, pr, ar\n\nnicotinic α₄β₂ (acetylcholine; [³H]epibatidine): fp, pr, ar\n\nα₠(noradrenalin; [³H]prazosin): fp, pr, ar\n\nα₂ (noradrenalin; [³H]UK-14,304): fp, pr, ar\n\n5-HTâ‚<sub>A</sub> (serotonin; [³H]8-OH-DPAT): fp, pr, ar\n\n5-HTâ‚‚ (serotonin; [³H]ketanserin): fp, pr, ar\n\nDâ‚ (dopamine; [³H]SCH23390): fp, pr, ar\n\nWhich sample was used for which receptor density measurement is stated in metadata files accompanying the main data repository. For methodological details, see Zilles et al. (2002), and in Palomero-Gallagher and Zilles (2018).\n\nZilles, K. et al. (2002). Quantitative analysis of cyto- and receptorarchitecture of the human brain, pp. 573-602. In: Brain Mapping: The Methods, 2nd edition (A.W. Toga and J.C. Mazziotta, eds.). San Diego, Academic Press.\n\nPalomero-Gallagher N, Zilles K. (2018) Cyto- and receptorarchitectonic mapping of the human brain. In: Handbook of Clinical Neurology 150: 355-387",
+ "parcellationAtlas": [],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area hOc1",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/b851eb9d-9502-45e9-8dd8-2861f0e6da3f"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Density measurements of different receptors for Area hOc1",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/e715e1f7-2079-45c4-a67f-f76b102acfce",
+ "contributors": [
+ "Scheperjans, Filip",
+ "Schleicher, Axel",
+ "Eickhoff, Simon B.",
+ "Friederici, Angela D.",
+ "Amunts, Katrin",
+ "Palomero-Gallagher, Nicola",
+ "Bacha-Trams, Maraike",
+ "Zilles, Karl"
+ ],
+ "id": "0616d1e97b8be75de526bc265d9af540",
+ "kgReference": [
+ "10.25493/P8SD-JMH"
+ ],
+ "publications": [
+ {
+ "name": "Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex",
+ "cite": "Eickhoff, S. B., Schleicher, A., Scheperjans, F., Palomero-Gallagher, N., & Zilles, K. (2007). Analysis of neurotransmitter receptor distribution patterns in the cerebral cortex. NeuroImage, 34(4), 1317–1330. ",
+ "doi": "10.1016/j.neuroimage.2006.11.016"
+ },
+ {
+ "name": "Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints",
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ]
+} as any
+
+const receptor44d = {
+ "formats": [
+ "xlsx, tif, txt"
+ ],
+ "datasetDOI": [
+ {
+ "cite": "Amunts, K., Lenzen, M., Friederici, A. D., Schleicher, A., Morosan, P., Palomero-Gallagher, N., & Zilles, K. (2010). Broca’s Region: Novel Organizational Principles and Multiple Receptor Mapping. PLoS Biology, 8(9), e1000489. ",
+ "doi": "10.1371/journal.pbio.1000489"
+ },
+ {
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ],
+ "activity": [
+ {
+ "protocols": [
+ "brain mapping"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ },
+ {
+ "protocols": [
+ "histology"
+ ],
+ "preparation": [
+ "Ex vivo"
+ ]
+ }
+ ],
+ "referenceSpaces": [],
+ "methods": [
+ "receptor autoradiography plot",
+ "receptor density fingerprint analysis",
+ "receptor density profile analysis",
+ "autoradiography with [³H] SCH23390",
+ "autoradiography with [³H] ketanserin",
+ "autoradiography with [³H] 8-OH-DPAT",
+ "autoradiography with [³H] UK-14,304",
+ "autoradiography with [³H] epibatidine",
+ "autoradiography with [³H] 4-DAMP",
+ "autoradiography with [³H] oxotremorine-M",
+ "autoradiography with [³H] flumazenil",
+ "autoradiography with [³H] CGP 54626",
+ "autoradiography with [³H] prazosin",
+ "autoradiography with [³H] muscimol",
+ "autoradiography with [³H]LY 341 495",
+ "autoradiography with [³H] pirenzepine",
+ "autoradiography with [³H] MK-801",
+ "autoradiography with [³H] kainate",
+ "autoradiography with [³H] AMPA"
+ ],
+ "custodians": [
+ "Palomero-Gallagher, Nicola",
+ "Zilles, Karl"
+ ],
+ "project": [
+ "Quantitative Receptor data"
+ ],
+ "description": "This dataset contains the densities (in fmol/mg protein) of 16 receptors for classical neurotransmitters in Area 44d using quantitative in vitro autoradiography. The receptor density measurements can be provided in three ways: (fp) as density fingerprints (average across samples; mean density and standard deviation for each of the 16 receptors), (pr) as laminar density profiles (exemplary data from one sample; average course of the density from the pial surface to the border between layer VI and the white matter for each receptor), and (ar) as color-coded autoradiographs (exemplary data from one sample; laminar density distribution patterns for each receptor labeling). \nThis dataset contains the following receptor density measurements based on the labeling of these receptor binding sites: \n\nAMPA (glutamate; labelled with [³H]AMPA): fp, pr, ar\n\nkainate (glutamate; [³H]kainate): fp, pr, ar\n\nNMDA (glutamate; [³H]MK-801): fp, pr, ar\n\nmGluR2/3 (glutamate; [³H] LY 341 495): pr, ar\n\nGABA<sub>A</sub> (GABA; [³H]muscimol): fp, pr, ar\n\nGABA<sub>B</sub> (GABA; [³H] CGP54626): fp, pr, ar\n\nGABA<sub>A</sub> associated benzodiazepine binding sites (BZ; [³H]flumazenil): fp, pr, ar\n\nmuscarinic Mâ‚ (acetylcholine; [³H]pirenzepine): fp, pr, ar\n\nmuscarinic Mâ‚‚ (acetylcholine; [³H]oxotremorine-M): fp, pr, ar\n\nmuscarinic M₃ (acetylcholine; [³H]4-DAMP): fp, pr, ar\n\nnicotinic α₄β₂ (acetylcholine; [³H]epibatidine): fp, pr, ar\n\nα₠(noradrenalin; [³H]prazosin): fp, pr, ar\n\nα₂ (noradrenalin; [³H]UK-14,304): fp, pr, ar\n\n5-HTâ‚<sub>A</sub> (serotonin; [³H]8-OH-DPAT): fp, pr, ar\n\n5-HTâ‚‚ (serotonin; [³H]ketanserin): fp, pr, ar\n\nDâ‚ (dopamine; [³H]SCH23390): fp, pr, ar\n\nWhich sample was used for which receptor density measurement is stated in metadata files accompanying the main data repository. For methodological details, see Zilles et al. (2002), and in Palomero-Gallagher and Zilles (2018).\n\nZilles, K. et al. (2002). Quantitative analysis of cyto- and receptorarchitecture of the human brain, pp. 573-602. In: Brain Mapping: The Methods, 2nd edition (A.W. Toga and J.C. Mazziotta, eds.). San Diego, Academic Press.\n\nPalomero-Gallagher N, Zilles K. (2018) Cyto- and receptorarchitectonic mapping of the human brain. In: Handbook of Clinical Neurology 150: 355-387",
+ "parcellationAtlas": [],
+ "licenseInfo": [
+ {
+ "name": "Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International",
+ "url": "https://creativecommons.org/licenses/by-nc-sa/4.0/"
+ }
+ ],
+ "embargoStatus": [
+ "Free"
+ ],
+ "license": [],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area 44d",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "name": "Density measurements of different receptors for Area 44d",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/cb875c0d-97f4-4dbc-a9ce-472d8ba58c99",
+ "contributors": [
+ "Morosan, Patricia",
+ "Schleicher, Axel",
+ "Lenzen, Marianne",
+ "Friederici, Angela D.",
+ "Amunts, Katrin",
+ "Palomero-Gallagher, Nicola",
+ "Bacha-Trams, Maraike",
+ "Zilles, Karl"
+ ],
+ "id": "31397abd7aebcf13bf3b1d5eb2e2d400",
+ "kgReference": [
+ "10.25493/YQCR-1DQ"
+ ],
+ "publications": [
+ {
+ "name": "Broca's Region: Novel Organizational Principles and Multiple Receptor Mapping",
+ "cite": "Amunts, K., Lenzen, M., Friederici, A. D., Schleicher, A., Morosan, P., Palomero-Gallagher, N., & Zilles, K. (2010). Broca’s Region: Novel Organizational Principles and Multiple Receptor Mapping. PLoS Biology, 8(9), e1000489. ",
+ "doi": "10.1371/journal.pbio.1000489"
+ },
+ {
+ "name": "Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints",
+ "cite": "Zilles, K., Bacha-Trams, M., Palomero-Gallagher, N., Amunts, K., & Friederici, A. D. (2015). Common molecular basis of the sentence comprehension network revealed by neurotransmitter receptor fingerprints. Cortex, 63, 79–89. ",
+ "doi": "10.1016/j.cortex.2014.07.007"
+ }
+ ]
+} as any
+
+const mni152JuBrain = [
+ cytoPmapHoc1,
+ receptorhoc1,
+ receptor44d
+]
+
+describe('filterDataEntriesByRegion.pipe', () => {
+
+ describe('regionsEqual', () => {
+ it('should return true when fullId is equal', () => {
+ const region1 = {
+ "referenceSpaces": [
+ {
+ "name": "MNI Colin 27",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/referencespace/v1.0.0/7f39f7be-445b-47c0-9791-e971c0b6d992"
+ }
+ ],
+ "project": [
+ "JuBrain: cytoarchitectonic probabilistic maps of the human brain"
+ ],
+ "parcellationAtlas": [
+ {
+ "name": "Jülich Cytoarchitechtonic Brain Atlas (human)",
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationatlas/v1.0.0/94c1125b-b87e-45e4-901c-00daee7f2579",
+ "id": [
+ "deec923ec31a82f89a9c7c76a6fefd6b",
+ "e2d45e028b6da0f6d9fdb9491a4de80a"
+ ]
+ }
+ ],
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "CA1 (Hippocampus)",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/bfc0beb7-310c-4c57-b810-2adc464bd02c"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/1bbe0651-f646-4366-84f1-d37dc3c39bb3",
+ "id": "ca2d24694a35504816e7aefa30754f80",
+ "kgReference": [
+ "10.25493/W4WK-QSK"
+ ],
+ "preview": false
+ }
+
+ const { parcellationRegion } = region1
+ regionsEqual(parcellationRegion[0], {})
+ })
+
+ it('should return true when there is a related area', () => {
+
+ const region1 = {
+ "parcellationRegion": [
+ {
+ "species": [],
+ "name": "Area 4p",
+ "alias": null,
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/parcellationregion/v1.0.0/861ab96a-c4b5-4ba6-bd40-1e80d4680f89"
+ }
+ ],
+ "species": [
+ "Homo sapiens"
+ ],
+ "fullId": "https://nexus.humanbrainproject.org/v0/data/minds/core/dataset/v1.0.0/b3cac84d-2146-4750-a5f1-174076f82292",
+ "id": "ef2de94a2b532b91031ecf65300283cb",
+ "kgReference": [
+ "10.25493/J5JR-YH0"
+ ],
+ "preview": true
+ }
+ })
+ })
+
+ describe('FilterDataEntriesByRegion', () => {
+ const pipe = new FilterDataEntriesByRegion()
+ it('if selectedRegions is an empty array, should return original dataentries', () => {
+ expect(
+ pipe.transform(mni152JuBrain, [], [])
+ ).toEqual(mni152JuBrain)
+ })
+
+ it('if selectedRegions include area 44, should return receptor data', () => {
+ const selectedRegions = [
+ {
+ "name": "Area 44 (IFG) - left hemisphere",
+ "rgb": [
+ 54,
+ 74,
+ 75
+ ],
+ "labelIndex": 2,
+ "ngId": "jubrain mni152 v18 left",
+ "children": [],
+ "position": [
+ -54134365,
+ 11216664,
+ 15641040
+ ],
+ "relatedAreas": [
+ {
+ "name": "Area 44v",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "7e5e7aa8-28b8-445b-8980-2a6f3fa645b3"
+ }
+ }
+ },
+ {
+ "name": "Area 44d",
+ "fullId": {
+ "kg": {
+ "kgSchema": "minds/core/parcellationregion/v1.0.0",
+ "kgId": "8aeae833-81c8-4e27-a8d6-deee339d6052"
+ }
+ }
+ }
+ ],
+ }
+ ]
+ expect(
+ pipe.transform(mni152JuBrain, selectedRegions, [])
+ ).toEqual([receptor44d])
+ })
+ })
+})
\ No newline at end of file
diff --git a/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.ts b/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.ts
index b666190984e62679cf2ace4b082e6c1333f5c04e..d976cba7a58f733ac321420e21af3ec9f7ea3073 100644
--- a/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.ts
+++ b/src/ui/databrowserModule/util/filterDataEntriesByRegion.pipe.ts
@@ -1,9 +1,19 @@
import { Pipe, PipeTransform } from "@angular/core";
import { IDataEntry } from "src/services/stateStore.service";
+import { getIdFromFullId } from "common/util"
-const isSubRegion = (high, low) => (high.id && low.id && high.id === low.id) || high.name === low.name
+export const regionsEqual = (r1, r2) => {
+ const { fullId: r1FId, relatedAreas: rA1 = [] } = r1
+ const { fullId: r2FId, relatedAreas: rA2 = [] } = r2
+ const region2Aliases = new Set([getIdFromFullId(r2FId), ...rA2.map(({ fullId }) => getIdFromFullId(fullId))])
+ const region1Aliases = new Set([getIdFromFullId(r1FId), ...rA1.map(({ fullId }) => getIdFromFullId(fullId))])
+ return region1Aliases.has(getIdFromFullId(r2FId))
+ || region2Aliases.has(getIdFromFullId(r1FId))
+}
+
+const isSubRegion = (high, low) => regionsEqual(high, low)
? true
- : high.children && high.children.some
+ : high.children && Array.isArray(high.children)
? high.children.some(r => isSubRegion(r, low))
: false
@@ -18,29 +28,6 @@ export class FilterDataEntriesByRegion implements PipeTransform {
public transform(dataentries: IDataEntry[], selectedRegions: any[], flattenedAllRegions: any[]) {
return dataentries && selectedRegions && selectedRegions.length > 0
? dataentries
- .map(de => {
- /**
- * translate parcellationRegion to region representation
- */
- const newParcellationRegion = de.parcellationRegion.map(({name, id, ...rest}) => {
-
- const found = flattenedAllRegions.find(r => {
- /**
- * TODO replace pseudo id with real uuid
- */
- return (r.id && id && r.id === id)
- || r.name === name
- || r.relatedAreas && r.relatedAreas.length && r.relatedAreas.some(syn => syn === name)
- })
- return found
- ? { name, id, ...rest, ...found }
- : { name, id, ...rest }
- })
- return {
- ...de,
- parcellationRegion: newParcellationRegion,
- }
- })
.filter(de => filterSubSelect(de, selectedRegions))
: dataentries
}
diff --git a/src/ui/nehubaContainer/nehubaViewer/nehubaViewer.component.ts b/src/ui/nehubaContainer/nehubaViewer/nehubaViewer.component.ts
index ad488c9ea3fa810464f6ed72d0c6f3c57f0a3f65..1cb264cde6a2c183fdf807ac0f26a5053dce9b81 100644
--- a/src/ui/nehubaContainer/nehubaViewer/nehubaViewer.component.ts
+++ b/src/ui/nehubaContainer/nehubaViewer/nehubaViewer.component.ts
@@ -1,5 +1,5 @@
import { Component, ElementRef, EventEmitter, NgZone, OnDestroy, OnInit, Output, Renderer2 } from "@angular/core";
-import { fromEvent, Subject, Subscription } from 'rxjs'
+import { fromEvent, Subscription, ReplaySubject } from 'rxjs'
import { pipeFromArray } from "rxjs/internal/util/pipe";
import { debounceTime, filter, map, scan } from "rxjs/operators";
import { AtlasViewerConstantsServices } from "src/atlasViewer/atlasViewer.constantService.service";
@@ -109,6 +109,11 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
public ondestroySubscriptions: Subscription[] = []
+ private createNehubaPromiseRs: Function
+ private createNehubaPromise = new Promise(rs => {
+ this.createNehubaPromiseRs = rs
+ })
+
constructor(
private rd: Renderer2,
public elementRef: ElementRef,
@@ -143,6 +148,10 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
this.layersChangedHandler = this.nehubaViewer.ngviewer.layerManager.layersChanged.add(() => this.layersChanged.emit(null))
this.nehubaViewer.ngviewer.registerDisposer(this.layersChangedHandler)
})
+ .then(() => {
+ // all mutation to this.nehubaViewer should await createNehubaPromise
+ this.createNehubaPromiseRs()
+ })
.catch(e => this.errorEmitter.emit(e))
this.ondestroySubscriptions.push(
@@ -258,20 +267,16 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
}
set ngIds(val: string[]) {
-
- if (this.nehubaViewer) {
- this._ngIds.forEach(id => {
- const oldlayer = this.nehubaViewer.ngviewer.layerManager.getLayerByName(id)
- if (oldlayer) {oldlayer.setVisible(false) } else { this.log.warn('could not find old layer', id) }
+ this.createNehubaPromise
+ .then(() => {
+ this._ngIds.forEach(id => {
+ const oldlayer = this.nehubaViewer.ngviewer.layerManager.getLayerByName(id)
+ if (oldlayer) {oldlayer.setVisible(false) } else { this.log.warn('could not find old layer', id) }
+ })
+ this._ngIds = val
+ this.loadNewParcellation()
+ this.showAllSeg()
})
- }
-
- this._ngIds = val
-
- if (this.nehubaViewer) {
- this.loadNewParcellation()
- this.showAllSeg()
- }
}
public spatialLandmarkSelectionChanged(labels: number[]) {
@@ -312,7 +317,7 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
this._multiNgIdColorMap = val
}
- private loadMeshes$: Subject<{labelIndicies: number[], layer: { name: string }}> = new Subject()
+ private loadMeshes$: ReplaySubject<{labelIndicies: number[], layer: { name: string }}> = new ReplaySubject()
private loadMeshes(labelIndicies: number[], { name }) {
this.loadMeshes$.next({
labelIndicies,
@@ -386,6 +391,7 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
this.subscriptions.push(
this.loadMeshes$.pipe(
scan(scanFn, []),
+ debounceTime(100)
).subscribe(layersLabelIndex => {
let totalMeshes = 0
for (const layerLayerIndex of layersLabelIndex) {
@@ -708,7 +714,7 @@ export class NehubaViewerUnit implements OnInit, OnDestroy {
this.setNavigationState(this.initNav)
}
- if (this.initRegions) {
+ if (this.initRegions && this.initRegions.length > 0) {
this.hideAllSeg()
this.showSegs(this.initRegions)
}
diff --git a/src/ui/viewerStateController/regionSearch/regionSearch.component.ts b/src/ui/viewerStateController/regionSearch/regionSearch.component.ts
index 01fb37ceb42e8522275cf26f86377ad180c18bfa..a5c3b12a235d91ec21c7ec569b6ab5b1685e6c3d 100644
--- a/src/ui/viewerStateController/regionSearch/regionSearch.component.ts
+++ b/src/ui/viewerStateController/regionSearch/regionSearch.component.ts
@@ -12,7 +12,7 @@ import { VIEWERSTATE_CONTROLLER_ACTION_TYPES } from "../viewerState.base";
import { LoggingService } from "src/services/logging.service";
const filterRegionBasedOnText = searchTerm => region => region.name.toLowerCase().includes(searchTerm.toLowerCase())
- || (region.relatedAreas && region.relatedAreas.some(relatedArea => relatedArea.toLowerCase().includes(searchTerm.toLowerCase())))
+ || (region.relatedAreas && region.relatedAreas.some(relatedArea => relatedArea.name && relatedArea.name.toLowerCase().includes(searchTerm.toLowerCase())))
const compareFn = (it, item) => it.name === item.name
@@ -60,7 +60,7 @@ export class RegionTextSearchAutocomplete {
map(parcellationSelected => {
try {
const returnArray = []
- const ngIdMap = getMultiNgIdsRegionsLabelIndexMap(parcellationSelected, { ngId: 'root', relatedAreas: [] })
+ const ngIdMap = getMultiNgIdsRegionsLabelIndexMap(parcellationSelected, { ngId: 'root', relatedAreas: [], fullId: null })
for (const [ngId, labelIndexMap] of ngIdMap) {
for (const [labelIndex, region] of labelIndexMap) {
returnArray.push({
diff --git a/src/ui/viewerStateController/viewerState.base.ts b/src/ui/viewerStateController/viewerState.base.ts
index be61afdff357ddf3c02af888ef5a881ad79b4fd3..db5527bbbd227f6fe0d3a1fae96ab65e095564e5 100644
--- a/src/ui/viewerStateController/viewerState.base.ts
+++ b/src/ui/viewerStateController/viewerState.base.ts
@@ -2,7 +2,7 @@ import { OnInit, TemplateRef, ViewChild } from "@angular/core";
import { MatBottomSheet, MatBottomSheetRef, MatSelectChange } from "@angular/material";
import { select, Store } from "@ngrx/store";
import { Observable, Subscription } from "rxjs";
-import { distinctUntilChanged, filter, shareReplay } from "rxjs/operators";
+import { distinctUntilChanged, filter, shareReplay, tap } from "rxjs/operators";
import { DialogService } from "src/services/dialogService.service";
import { RegionSelection } from "src/services/state/userConfigState.store";
import { IavRootStoreInterface, SELECT_REGIONS, USER_CONFIG_ACTION_TYPES } from "src/services/stateStore.service";
@@ -78,6 +78,7 @@ export class ViewerStateBase implements OnInit {
this.availableTemplates$ = viewerState$.pipe(
select('fetchedTemplates'),
distinctUntilChanged(),
+ tap(() => console.log('available templates'))
)
this.availableParcellations$ = this.templateSelected$.pipe(
@@ -155,13 +156,7 @@ export class ViewerStateBase implements OnInit {
})
}
- public displayActiveParcellation(parcellation: any) {
- return `<div class="d-flex"><small>Parcellation</small> <small class = "flex-grow-1 mute-text">${parcellation ? '(' + parcellation.name + ')' : ''}</small> <span class = "fas fa-caret-down"></span></div>`
- }
-
- public displayActiveTemplate(template: any) {
- return `<div class="d-flex"><small>Template</small> <small class = "flex-grow-1 mute-text">${template ? '(' + template.name + ')' : ''}</small> <span class = "fas fa-caret-down"></span></div>`
- }
+ public trackByFn = ({ name }) => name
public loadSelection(_event: MouseEvent) {
this.focused = true
diff --git a/src/ui/viewerStateController/viewerStateCFull/viewerState.template.html b/src/ui/viewerStateController/viewerStateCFull/viewerState.template.html
index 5f72c5990590ccc7a949b14f8937a737b9b9fb3e..32675891bf3eb5ad67fefe2b83d80e78bf176157 100644
--- a/src/ui/viewerStateController/viewerStateCFull/viewerState.template.html
+++ b/src/ui/viewerStateController/viewerStateCFull/viewerState.template.html
@@ -14,7 +14,7 @@
(selectionChange)="handleTemplateChange($event)"
(openedChange)="focused = $event">
<mat-option
- *ngFor="let template of (availableTemplates$ | async)"
+ *ngFor="let template of (availableTemplates$ | async); trackBy: trackByFn"
[value]="template.name">
{{ template.name }}
</mat-option>
diff --git a/src/util/worker.js b/src/util/worker.js
index f5313880e961c533e72b8429bdf2e46d73e9fa27..a46c50fccc19223a9f2fadd1c317eddea9b2d141 100644
--- a/src/util/worker.js
+++ b/src/util/worker.js
@@ -2,7 +2,7 @@ const validTypes = [
'GET_LANDMARKS_VTK',
'GET_USERLANDMARKS_VTK',
'BUILD_REGION_SELECTION_TREE',
- 'PROPAGATE_NG_ID'
+ 'PROPAGATE_PARC_REGION_ATTR'
]
const validOutType = [
@@ -246,21 +246,30 @@ const rebuildSelectedRegion = (payload) => {
rebuiltSomeSelectedRegions: someActiveTreeBranch
})
}
+const recursivePropagateAttri = (region, inheritAttrsOpts) => {
-const propagateNgId = (parcellation) => {
- const recursivePropagateNgId = (region, {ngId}) => {
- return {
- ngId,
- ...region,
- ...( region.children && region.children.map
- ? {
- children: region.children.map(c => recursivePropagateNgId(c, { ngId: region.ngId || ngId }))
- }
- : {} )
- }
+ const inheritAttrs = Object.keys(inheritAttrsOpts)
+
+ const returnRegion = {
+ ...region
+ }
+ const newInhAttrsOpts = {}
+ for (const attr of inheritAttrs){
+ returnRegion[attr] = returnRegion[attr] || inheritAttrsOpts[attr]
+ newInhAttrsOpts[attr] = returnRegion[attr] || inheritAttrsOpts[attr]
}
- const regions = parcellation.regions && parcellation.regions.map
- ? parcellation.regions.map(r => recursivePropagateNgId(r, { ngId: parcellation.ngId }))
+ returnRegion.children = returnRegion.children && Array.isArray(returnRegion.children)
+ ? returnRegion.children.map(c => recursivePropagateAttri(c, newInhAttrsOpts))
+ : null
+ return returnRegion
+}
+
+const propagateAttri = (parcellation, inheritAttrsOpts) => {
+ const inheritAttrs = Object.keys(inheritAttrsOpts)
+ if (inheritAttrs.indexOf('children') >= 0) throw new Error(`children attr cannot be inherited`)
+
+ const regions = Array.isArray(parcellation.regions)
+ ? parcellation.regions.map(r => recursivePropagateAttri(r, inheritAttrsOpts))
: []
return {
@@ -269,12 +278,11 @@ const propagateNgId = (parcellation) => {
}
}
-const processPropagateNgId = (payload) => {
- const { parcellation } = payload
- const p = parcellation.ngId
- ? parcellation
- : propagateNgId(parcellation)
+const processParcRegionAttr = (payload) => {
+ const { parcellation, inheritAttrsOpts } = payload
+ const p = propagateAttri(parcellation, inheritAttrsOpts)
postMessage({
+ ...payload,
type: 'UPDATE_PARCELLATION_REGIONS',
parcellation: p
})
@@ -293,8 +301,8 @@ onmessage = (message) => {
case 'BUILD_REGION_SELECTION_TREE':
rebuildSelectedRegion(message.data)
return
- case 'PROPAGATE_NG_ID':
- processPropagateNgId(message.data)
+ case 'PROPAGATE_PARC_REGION_ATTR':
+ processParcRegionAttr(message.data)
return
default:
console.warn('unhandled worker action', message)
diff --git a/tsconfig-aot.json b/tsconfig-aot.json
index 3a4115d6cfbc48fe643b9e85be53edab3f03ff25..7e541551de2f10d6e188764fe44de55db26581f5 100644
--- a/tsconfig-aot.json
+++ b/tsconfig-aot.json
@@ -8,7 +8,8 @@
"baseUrl": ".",
"paths": {
"third_party/*" : ["third_party/*"],
- "src/*" : ["src/*"]
+ "src/*" : ["src/*"],
+ "common/*": ["common/*"]
}
},
"angularCompilerOptions":{
diff --git a/tsconfig.json b/tsconfig.json
index f8617eab74953284b4d1a3f9ed6e234b455c10ab..59ee73b188970995b9fc4b12331823aa5ffef17c 100644
--- a/tsconfig.json
+++ b/tsconfig.json
@@ -8,7 +8,8 @@
"baseUrl": ".",
"paths": {
"third_party/*" : ["third_party/*"],
- "src/*" : ["src/*"]
+ "src/*" : ["src/*"],
+ "common/*": ["common/*"]
}
}
}
\ No newline at end of file
diff --git a/webpack.common.js b/webpack.common.js
index 9f680d8ef445b10c2a672197ea510f1dba6033c8..b432b1d516e6e026f7ea57cb6207a13507866848 100644
--- a/webpack.common.js
+++ b/webpack.common.js
@@ -31,7 +31,8 @@ module.exports = {
],
alias : {
"third_party" : path.resolve(__dirname,'third_party'),
- "src" : path.resolve(__dirname,'src')
+ "src" : path.resolve(__dirname,'src'),
+ "common": path.resolve(__dirname, 'common')
}
},
}
\ No newline at end of file