diff --git a/deploy/datasets/index.js b/deploy/datasets/index.js index 0e884865bde8479f96771220ec0d6e75d06e9e3c..f286bf4440153eced78be31fe5b0237b411bba6f 100644 --- a/deploy/datasets/index.js +++ b/deploy/datasets/index.js @@ -3,6 +3,8 @@ const path = require('path') const fs = require('fs') const datasetsRouter = express.Router() const { init, getDatasets, getPreview } = require('./query') +const url = require('url') +const qs = require('querystring') const bodyParser = require('body-parser') datasetsRouter.use(bodyParser.urlencoded({ extended: false })) @@ -56,7 +58,10 @@ datasetsRouter.get('/parcellationName/:parcellationName', (req, res, next) => { datasetsRouter.get('/preview/:datasetName', (req, res, next) => { const { datasetName } = req.params - getPreview({ datasetName }) + const ref = url.parse(req.headers.referer) + const { templateSelected, parcellationSelected } = qs.parse(ref.query) + + getPreview({ datasetName, templateSelected }) .then(preview => { if (preview) { res.status(200).json(preview) diff --git a/deploy/datasets/query.js b/deploy/datasets/query.js index 96a2236607c9c6b559ce5faa8afe22a6ee47701a..17ee2c7b7832b51017d247ea667c9ccffe57d91d 100644 --- a/deploy/datasets/query.js +++ b/deploy/datasets/query.js @@ -189,7 +189,7 @@ exports.init = async () => { exports.getDatasets = ({ templateName, parcellationName, user }) => getDs({ user }) .then(json => filter(json, {templateName, parcellationName})) -exports.getPreview = ({ datasetName }) => getPreviewFile({ datasetName }) +exports.getPreview = ({ datasetName, templateSelected }) => getPreviewFile({ datasetName, templateSelected }) /** * TODO diff --git a/deploy/datasets/supplements/data/pmapJuBrainV17Preview.json b/deploy/datasets/supplements/data/pmapJuBrainV17Preview.json new file mode 100644 index 0000000000000000000000000000000000000000..b75b00c83a118e77f837d3c76282e328ffb7819e --- /dev/null +++ b/deploy/datasets/supplements/data/pmapJuBrainV17Preview.json @@ -0,0 +1,3599 @@ +[ + [ + "Probabilistic cytoarchitectonic map of Area Fp2 (FPole) (v2.4)", + [ + { + "filename": "Area Fp2 (FPole) [v2.4, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Fp2 (FPole) [v2.4, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/FrontalPole_Fp2_l_N10_nlin2MNI152ASYM2009C_2.4_publicP_b8d8440ba6ff4ee72e8184b4a71d44d2.nii.gz" + }, + { + "filename": "Area Fp2 (FPole) [v2.4, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Fp2 (FPole) [v2.4, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/FrontalPole_Fp2_l_N10_nlin2Stdcolin27_2.4_publicP_15ceb771b7ce41cf5db287ca4d09ef13.nii.gz" + }, + { + "filename": "Area Fp2 (FPole) [v2.4, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Fp2 (FPole) [v2.4, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/FrontalPole_Fp2_r_N10_nlin2MNI152ASYM2009C_2.4_publicP_78d77928de1e288d9fc00d23eee7de12.nii.gz" + }, + { + "filename": "Area Fp2 (FPole) [v2.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Fp2 (FPole) [v2.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/FrontalPole_Fp2_r_N10_nlin2Stdcolin27_2.4_publicP_8590239cbabdbb022a92cf2d783b5525.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area Fp1 (FPole) (v2.4)", + [ + { + "filename": "Area Fp1 (FPole) [v2.4, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Fp1 (FPole) [v2.4, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/FrontalPole_Fp1_l_N10_nlin2MNI152ASYM2009C_2.4_publicP_21db93ae699b350d3f7fe2e9637a09d3.nii.gz" + }, + { + "filename": "Area Fp1 (FPole) [v2.4, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Fp1 (FPole) [v2.4, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/FrontalPole_Fp1_l_N10_nlin2Stdcolin27_2.4_publicP_649d51f8daede7444548e13722b688ef.nii.gz" + }, + { + "filename": "Area Fp1 (FPole) [v2.4, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Fp1 (FPole) [v2.4, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/FrontalPole_Fp1_r_N10_nlin2MNI152ASYM2009C_2.4_publicP_640c94e1dcb94d8921a6e6236ea90243.nii.gz" + }, + { + "filename": "Area Fp1 (FPole) [v2.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Fp1 (FPole) [v2.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/FrontalPole_Fp1_r_N10_nlin2Stdcolin27_2.4_publicP_aaf0923c7315332fd3c14bbe15360aca.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area hIP1 (IPS) (v6.1)", + [ + { + "filename": "Area hIP1 (IPS) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP1 (IPS) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP1_l_N10_nlin2MNI152ASYM2009C_6.1_publicP_5c0b00a1393dc8c54505db7207f1097c.nii.gz" + }, + { + "filename": "Area hIP1 (IPS) [v6.1, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP1 (IPS) [v6.1, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP1_l_N10_nlin2Stdcolin27_6.1_publicP_828db42625a675c3a954c6be2e2b3b88.nii.gz" + }, + { + "filename": "Area hIP1 (IPS) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP1 (IPS) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP1_r_N10_nlin2MNI152ASYM2009C_6.1_publicP_a411667d98b0ebc9b772565131414de1.nii.gz" + }, + { + "filename": "Area hIP1 (IPS) [v6.1, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP1 (IPS) [v6.1, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP1_r_N10_nlin2Stdcolin27_6.1_publicP_667c85bcddc6c019b2bdd45fc499737a.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area hIP2 (IPS) (v6.1)", + [ + { + "filename": "Area hIP2 (IPS) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP2 (IPS) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP2_l_N10_nlin2MNI152ASYM2009C_6.1_publicP_1ae25994cd5faa62178a54a4110cac1e.nii.gz" + }, + { + "filename": "Area hIP2 (IPS) [v6.1, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP2 (IPS) [v6.1, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP2_l_N10_nlin2Stdcolin27_6.1_publicP_1c0b051794d33c3042124e8ff29838a0.nii.gz" + }, + { + "filename": "Area hIP2 (IPS) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP2 (IPS) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP2_r_N10_nlin2MNI152ASYM2009C_6.1_publicP_fff0207eaabf4a9e3e019f94a7782922.nii.gz" + }, + { + "filename": "Area hIP2 (IPS) [v6.1, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP2 (IPS) [v6.1, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP2_r_N10_nlin2Stdcolin27_6.1_publicP_ddcac02713410823e3545a59be530553.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area hIP3 (IPS) (v8.4)", + [ + { + "filename": "Area hIP3 (IPS) [v8.4, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP3 (IPS) [v8.4, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP3_l_N10_nlin2MNI152ASYM2009C_8.4_publicP_b125d0e714a3b435ecb517fb1af63842.nii.gz" + }, + { + "filename": "Area hIP3 (IPS) [v8.4, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP3 (IPS) [v8.4, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP3_l_N10_nlin2Stdcolin27_8.4_publicP_5894ab3681e1b909971d902f17707d8a.nii.gz" + }, + { + "filename": "Area hIP3 (IPS) [v8.4, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hIP3 (IPS) [v8.4, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/AIPS_IP3_r_N10_nlin2MNI152ASYM2009C_8.4_publicP_2d3134fd35e30da41ab4395a8f120b31.nii.gz" + }, + { + "filename": "Area hIP3 (IPS) [v8.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hIP3 (IPS) [v8.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/AIPS_IP3_r_N10_nlin2Stdcolin27_8.4_publicP_c74eb8ebcf63468f544e4086d2b21348.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of CM (Amygdala) (v6.4)", + [ + { + "filename": "CM (Amygdala) [v6.4, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "CM (Amygdala) [v6.4, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Amygdala_CM_l_N10_nlin2MNI152ASYM2009C_6.4_publicP_7f0156fe3f198f6502765e260d0fc906.nii.gz" + }, + { + "filename": "CM (Amygdala) [v6.4, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "CM (Amygdala) [v6.4, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Amygdala_CM_l_N10_nlin2Stdcolin27_6.4_publicP_8d55f13bab6c2faa29a1d3754369254a.nii.gz" + }, + { + "filename": "CM (Amygdala) [v6.4, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "CM (Amygdala) [v6.4, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Amygdala_CM_r_N10_nlin2MNI152ASYM2009C_6.4_publicP_eb34fb429d4eb1a6d86d0afda626e456.nii.gz" + }, + { + "filename": "CM (Amygdala) [v6.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "CM (Amygdala) [v6.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Amygdala_CM_r_N10_nlin2Stdcolin27_6.4_publicP_77b53c30c9eeccd49eacfeabf1b1749b.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area Id6 (Insula) (v3.1)", + [ + { + "filename": "Area Id6 (Insula) [v3.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Id6 (Insula) [v3.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Insula_Id6_l_N10_nlin2MNI152ASYM2009C_3.1_publicDOI_f9be3b6ea62c4a0e9ee3b360c504be5b.nii.gz" + }, + { + "filename": "Area Id6 (Insula) [v3.1, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Id6 (Insula) [v3.1, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Insula_Id6_l_N10_nlin2Stdcolin27_3.1_publicDOI_faf17b46bcdda12944790fc12f5f91ff.nii.gz" + }, + { + "filename": "Area Id6 (Insula) [v3.1, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Id6 (Insula) [v3.1, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Insula_Id6_r_N10_nlin2MNI152ASYM2009C_3.1_publicDOI_dc6814386bbab79325bc1bfb4ca9aa1e.nii.gz" + }, + { + "filename": "Area Id6 (Insula) [v3.1, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Id6 (Insula) [v3.1, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Insula_Id6_r_N10_nlin2Stdcolin27_3.1_publicDOI_13a51145c04f8ff160009f50c312b834.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area Id7 (Insula) (v6.1)", + [ + { + "filename": "Area Id7 (Insula) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Id7 (Insula) [v6.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Insula_Id7_l_N10_nlin2MNI152ASYM2009C_6.1_publicDOI_ff4f0b96f9355bd5e924191a126e7faa.nii.gz" + }, + { + "filename": "Area Id7 (Insula) [v6.1, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Id7 (Insula) [v6.1, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Insula_Id7_l_N10_nlin2Stdcolin27_6.1_publicDOI_f2f17c06c0a643ce49d98b126a619601.nii.gz" + }, + { + "filename": "Area Id7 (Insula) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Id7 (Insula) [v6.1, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Insula_Id7_r_N10_nlin2MNI152ASYM2009C_6.1_publicDOI_02b5d10dbbb00b886a864301521bdd9c.nii.gz" + }, + { + "filename": "Area Id7 (Insula) [v6.1, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area Id7 (Insula) [v6.1, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Insula_Id7_r_N10_nlin2Stdcolin27_6.1_publicDOI_683c76c33eaea809fcf576f4e8dcbbb3.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of IF (Amygdala) (v6.4)", + [ + { + "filename": "IF (Amygdala) [v6.4, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "IF (Amygdala) [v6.4, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Amygdala_IF_l_N10_nlin2MNI152ASYM2009C_6.4_publicP_7ed573bb867fd5b59b89ff3fe66f934a.nii.gz" + }, + { + "filename": "IF (Amygdala) [v6.4, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "IF (Amygdala) [v6.4, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Amygdala_IF_l_N10_nlin2Stdcolin27_6.4_publicP_84f75af1298ba054b19f5c5b437cd279.nii.gz" + }, + { + "filename": "IF (Amygdala) [v6.4, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "IF (Amygdala) [v6.4, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Amygdala_IF_r_N10_nlin2MNI152ASYM2009C_6.4_publicP_74b5ee9c4204b0512afa6ce3199a033a.nii.gz" + }, + { + "filename": "IF (Amygdala) [v6.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "IF (Amygdala) [v6.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Amygdala_IF_r_N10_nlin2Stdcolin27_6.4_publicP_547c4687931539b4eab1883219f1eeed.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area Ig1 (Insula) (v13.1)", + [ + { + "filename": "Area Ig1 (Insula) [v13.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area Ig1 (Insula) [v13.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": 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"https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Visual_hOc5_r_N10_nlin2MNI152ASYM2009C_2.4_publicP_f5d20a1ad3db354a5b9a6f13beb905b6.nii.gz" + }, + { + "filename": "Area hOc5 (LOC) [v2.4, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hOc5 (LOC) [v2.4, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Visual_hOc5_r_N10_nlin2Stdcolin27_2.4_publicP_7542c361d311176986f0dbab9561b2f6.nii.gz" + } + ] + ], + [ + "Probabilistic cytoarchitectonic map of Area hOc6 (POS) (v7.1)", + [ + { + "filename": "Area hOc6 (POS) [v7.1, ICBM 2009c Asymmetric, left hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hOc6 (POS) [v7.1, ICBM 2009c Asymmetric, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Visual_hOc6_l_N10_nlin2MNI152ASYM2009C_7.1_publicP_768ea7470e377af487c4bab30b5e3f5a.nii.gz" + }, + { + "filename": "Area hOc6 (POS) [v7.1, Colin 27, left hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hOc6 (POS) [v7.1, Colin 27, left hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Visual_hOc6_l_N10_nlin2Stdcolin27_7.1_publicP_be904a3989a71a4a202110ff3c6bc446.nii.gz" + }, + { + "filename": "Area hOc6 (POS) [v7.1, ICBM 2009c Asymmetric, right hemisphere]", + "templateSpace": "MNI 152 ICBM 2009c Nonlinear Asymmetric", + "name": "Area hOc6 (POS) [v7.1, ICBM 2009c Asymmetric, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/icbm152casym/pmaps/Visual_hOc6_r_N10_nlin2MNI152ASYM2009C_7.1_publicP_abac2ae4767d3c4a3dbf7d9558d9f789.nii.gz" + }, + { + "filename": "Area hOc6 (POS) [v7.1, Colin 27, right hemisphere]", + "templateSpace": "MNI Colin 27", + "name": "Area hOc6 (POS) [v7.1, Colin 27, right hemisphere]", + "mimetype": "application/nifti", + "url": "https://neuroglancer.humanbrainproject.eu/precomputed/JuBrain/17/colin27/pmaps/Visual_hOc6_r_N10_nlin2Stdcolin27_7.1_publicP_d39518619b83c18a818916c2d96bca68.nii.gz" + } + ] + ] +] \ No newline at end of file diff --git a/deploy/datasets/supplements/previewFile.js b/deploy/datasets/supplements/previewFile.js index dcdf4db88c076e45b4f11cf10c82eba348b82238..ea178530c1ed118387393dd8754f325b2ff521a2 100644 --- a/deploy/datasets/supplements/previewFile.js +++ b/deploy/datasets/supplements/previewFile.js @@ -3,6 +3,7 @@ const path = require('path') const DISABLE_RECEPTOR_PREVIEW = process.env.DISABLE_RECEPTOR_PREVIEW const DISABLE_JUBRAIN_PMAP = process.env.DISABLE_JUBRAIN_PMAP +const DISABLE_JUBRAIN_PMAP_V17 = process.env.DISABLE_JUBRAIN_PMAP_V17 const DISABLE_DWM_PMAP = process.env.DISABLE_DWM_PMAP const HOSTNAME = process.env.HOSTNAME || 'http://localhost:3000' @@ -22,7 +23,8 @@ const readFile = (filename) => new Promise((resolve) => { Promise.all([ DISABLE_RECEPTOR_PREVIEW ? Promise.resolve([]) : readFile('receptorPreview.json'), DISABLE_JUBRAIN_PMAP ? Promise.resolve([]) : readFile('pmapJubrainPreview.json'), - DISABLE_DWM_PMAP ? Promise.resolve([]) : readFile('pmapDWMPreview.json') + DISABLE_DWM_PMAP ? Promise.resolve([]) : readFile('pmapDWMPreview.json'), + DISABLE_JUBRAIN_PMAP_V17 ? Promise.resolve([]) : readFile('pmapJuBrainV17Preview.json') ]) .then(arrOfA => arrOfA.reduce((acc, item) => acc.concat(item), [])) .then(iterable => { @@ -33,8 +35,13 @@ Promise.all([ console.error('preview file error', e) }) -exports.getPreviewFile = ({ datasetName }) => Promise.resolve( +exports.getPreviewFile = ({ datasetName, templateSelected }) => Promise.resolve( previewMap.get(datasetName) + .filter(({ templateSpace }) => { + if (!templateSpace) return true + if (!templateSelected) return true + return templateSpace === templateSelected + }) .map(file => { return { ...file, diff --git a/src/atlasViewer/atlasViewer.component.ts b/src/atlasViewer/atlasViewer.component.ts index 4da6ccceeb0dc86bf906afde651fc022e53da50d..076bae1eb49f57fed3e111c5bfb9cdc4ae3ba927 100644 --- a/src/atlasViewer/atlasViewer.component.ts +++ b/src/atlasViewer/atlasViewer.component.ts @@ -22,6 +22,12 @@ import { TabsetComponent } from "ngx-bootstrap/tabs"; import { ToastService } from "src/services/toastService.service"; import { ZipFileDownloadService } from "src/services/zipFileDownload.service"; +/** + * TODO + * check against auxlillary mesh indicies, to only filter out aux indicies + */ +const filterFn = (segment) => typeof segment.segment !== 'string' + @Component({ selector: 'atlas-viewer', templateUrl: './atlasViewer.template.html', @@ -201,9 +207,14 @@ export class AtlasViewer implements OnDestroy, OnInit, AfterViewInit { this.onhoverLandmark$ ).pipe( map(([segments, onhoverLandmark]) => onhoverLandmark ? null : segments ), - map(segments => !segments || segments.length === 0 - ? null - : segments.map(s => s.segment) ) + map(segments => { + if (!segments) + return null + const filteredSeg = segments.filter(filterFn) + return filteredSeg.length > 0 + ? segments.map(s => s.segment) + : null + }) ) this.selectedParcellation$ = this.store.pipe( diff --git a/src/res/ext/MNI152.json b/src/res/ext/MNI152.json index 27912d35bd460dab1bf551b01fd4bfde1a299fac..ce4f53cd9e80e58fc067858c4799181931f923c3 100644 --- a/src/res/ext/MNI152.json +++ b/src/res/ext/MNI152.json @@ -1 +1,6920 @@ -{"name":"MNI 152 ICBM 2009c Nonlinear Asymmetric","type":"template","species":"Human","useTheme":"dark","ngId":"mni152","nehubaConfigURL":"nehubaConfig/MNI152NehubaConfig","parcellations":[{"name":"JuBrain Cytoarchitectonic Atlas","ngId":"jubrain v17 left","properties":{"version":"1.0","description":"not yet","publications":[]},"regions":[{"name":"telencephalon","status":null,"labelIndex":null,"synonyms":[],"rgb":null,"children":[{"name":"cerebral nuclei","status":null,"labelIndex":null,"synonyms":[],"rgb":null,"children":[{"name":"basal forebrain","status":null,"labelIndex":null,"synonyms":[],"rgb":null,"children":[{"name":"magnocellular group within septum","status":null,"labelIndex":null,"synonyms":[],"rgb":null,"children":[{"name":"Ch 123 (Basal Forebrain)","arealabel":"Ch-123","status":"publicP","labelIndex":null,"synonyms":[],"rgb":[124,233,167],"children":[{"name":"Ch 123 (Basal Forebrain) - 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right hemisphere", + "rgb": [ + 89, + 201, + 99 + ], + "ngId": "jubrain colin v17 right", + "labelIndex": 240, + "children": [], + "position": [ + 15388967, + -58303395, + -36586280 + ] + } + ] + }, + { + "name": "Ventral Dentate Nucleus (Cerebellum)", + "arealabel": "Ventral-Dentate-Nucleus", + "status": "publicP", + "labelIndex": null, + "synonyms": [], + "rgb": [ + 39, + 129, + 9 + ], + "children": [ + { + "name": "Ventral Dentate Nucleus (Cerebellum) - left hemisphere", + "rgb": [ + 39, + 129, + 9 + ], + "labelIndex": 241, + "ngId": "jubrain colin v17 left", + "children": [], + "position": [ + -13112867, + -56176072, + -29957111 + ] + }, + { + "name": "Ventral Dentate Nucleus (Cerebellum) - right hemisphere", + "rgb": [ + 39, + 129, + 9 + ], + "ngId": "jubrain colin v17 right", + "labelIndex": 241, + "children": [], + "position": [ + 12107011, + -55974170, + -31385609 + ] + } + ] + } + ] + }, + { + "name": "fastigial nucleus", + "status": null, + "labelIndex": null, + "synonyms": [], + "rgb": null, + "children": [ + { + "name": "Fastigial Nucleus (Cerebellum)", + "arealabel": "Fastigial-Nucleus", + "status": "publicP", + "labelIndex": null, + "synonyms": [], + "rgb": [ + 200, + 100, + 10 + ], + "children": [ + { + "name": "Fastigial Nucleus (Cerebellum) - left hemisphere", + "rgb": [ + 200, + 100, + 10 + ], + "labelIndex": 219, + "ngId": "jubrain colin v17 left", + "children": [], + "position": [ + -3828877, + -53149733, + -29013369 + ] + }, + { + "name": "Fastigial Nucleus (Cerebellum) - right hemisphere", + "rgb": [ + 200, + 100, + 10 + ], + "ngId": "jubrain colin v17 right", + "labelIndex": 219, + "children": [], + "position": [ + 3011287, + -53069977, + -29040632 + ] + } + ] + } + ] + }, + { + "name": "emboliform nucleus", + "status": null, + "labelIndex": null, + "synonyms": [], + "rgb": null, + "children": [ + { + "name": "Interposed Nucleus (Cerebellum)", + "arealabel": "Interposed-Nucleus", + "status": "publicP", + "labelIndex": null, + "synonyms": [], + "rgb": [ + 170, + 29, + 10 + ], + "children": [ + { + "name": "Interposed Nucleus (Cerebellum) - left hemisphere", + "rgb": [ + 170, + 29, + 10 + ], + "labelIndex": 251, + "ngId": "jubrain colin v17 left", + "children": [], + "position": [ + -8457921, + -55262376, + -30235149 + ] + }, + { + "name": "Interposed Nucleus (Cerebellum) - right hemisphere", + "rgb": [ + 170, + 29, + 10 + ], + "ngId": "jubrain colin v17 right", + "labelIndex": 251, + "children": [], + "position": [ + 7917989, + -54201058, + -31489418 + ] + } + ] + } + ] + } + ] + } + ] + } + ] + } + ] + } + ], + "properties": { + "name": "MNI Colin 27", + "description": "This is a stereotaxic average of 27 T1-weighted MRI scans of the same individual. In 1998, a new atlas with much higher definition than MNI305s was created at the MNI. One individual (CJH) was scanned 27 times and the images linearly registered to create an average with high SNR and structure definition (Holmes et al., 1998). This average was linearly registered to the average 305. Ironically, this dataset was not originally intended for use as a stereotaxic template but as the sub- strate for an ROI parcellation scheme to be used with ANIMAL non-linear spatial normalization (Collins et al., 1995), i.e. it was intended for the purpose of segmentation, NOT stereotaxy. As a single brain atlas, it did not capture anatomical variability and was, to some degree, a reversion to the Talairach approach. However, the high definition proved too attractive to the community and, after non-linear mapping to fit the MNI305 space, it has been adopted by many groups as a stereotaxic template (e.g., AFNI, Cox,; Brainstorm, Tadel et al., 2011; SPM, Litvak et al., 2011; Fieldtrip, Oostenveld et al., 2011)." + } +} \ No newline at end of file diff --git a/src/services/effect/effect.ts b/src/services/effect/effect.ts index 833f723056c6670744d9fb9333d0c6b1d5e54927..c8c7340f128af994e0eba0408d6ccb7c3c7761cb 100644 --- a/src/services/effect/effect.ts +++ b/src/services/effect/effect.ts @@ -69,7 +69,7 @@ export class UseEffects implements OnDestroy{ const { selectRegionIds } = action const { ngId: defaultNgId } = parcellation - const regionsSelected = (<any[]>selectRegionIds) + const selectRegions = (<any[]>selectRegionIds) .map(labelIndexId => getNgIdLabelIndexFromId({ labelIndexId })) .map(({ ngId, labelIndex }) => { return { @@ -90,10 +90,9 @@ export class UseEffects implements OnDestroy{ if (!v) console.log(`SELECT_REGIONS_WITH_ID, some ids cannot be parsed intto label index`) return !!v }) - console.log('regionsselectd', regionsSelected) return { type: SELECT_REGIONS, - regionsSelected + selectRegions } }) ) diff --git a/src/services/stateStore.service.ts b/src/services/stateStore.service.ts index 1cd3fad865f1bf35841b04d87f4ebd8b77a677fd..e6639b7e1b6ab1c255887ca51ddffa9f10fed3e4 100644 --- a/src/services/stateStore.service.ts +++ b/src/services/stateStore.service.ts @@ -151,6 +151,5 @@ export function recursiveFindRegionWithLabelIndexId({ regions, labelIndexId, inh const fr2 = fr1.reduce((acc, curr) => acc.concat(...curr), []) const found = fr2.find(r => r.ngId === ngId && Number(r.labelIndex) === Number(labelIndex)) if (found) return found - debugger return null } diff --git a/src/ui/databrowserModule/databrowser/databrowser.style.css b/src/ui/databrowserModule/databrowser/databrowser.style.css index 03c84492265b2bd08506129d0c16e782c60788e7..cbed0d7d4ce53d523971d02ff5bf1f3d6323de87 100644 --- a/src/ui/databrowserModule/databrowser/databrowser.style.css +++ b/src/ui/databrowserModule/databrowser/databrowser.style.css @@ -221,4 +221,10 @@ radio-list display: inline-block; border-radius: 50%; background-color:white; +} + +div[regionTagsContainer] +{ + max-height: 4em; + overflow:hidden; } \ No newline at end of file