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retrieving URLs for TCGA tissue images from SPARQL endpoint
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| // SPARQL query composition at http://agalpha.mathbiol.org/repositories/tcga#query/r/TCGA-CM-4743-01A-01_URL | |
| label='TCGA-CM-4743-01A-0' // example of a label | |
| url = 'http://agalpha.mathbiol.org/download?file=query.json&accept=application%2Fsparql-results%2Bjson&path=%2Frepositories%2Ftcga%3Fquery%3Dselect%2520distinct%2520%253Fo%2520%253Fu%250Awhere%2520%257B%250A%2509%253Ft%2520a%2520%253Chttp%253A%252F%252Fpurl.org%252Ftcga%252Fcore%2523platform%253E.%250A%2520%2520%2509%253Ft%2520%253Chttp%253A%252F%252Fwww.w3.org%252F2000%252F01%252Frdf-schema%2523label%253E%2520%2522tissue_images%2522.%250A%2520%2520%2509%253Fo%2520%253Chttp%253A%252F%252Fpurl.org%252Ftcga%252Fcore%2523platform%253E%2520%253Ft.%250A%2520%2520%2509%253Fo%2520rdfs%253Alabel%2520%253FL.%250A%2520%2520%2509filter%2520REGEX(%253FL%252C%72'+label+'1%27)%250A%2520%2520%2520%2520%253Fo%2520tcga%253Aurl%2520%253Fu%250A%257D%26infer%3Dfalse' | |
| $.getJSON(url,function(x){ | |
| y=x.results.bindings.map(function(xi){return xi.u.value}); | |
| console.log('done:',y) | |
| }) | |
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the result should be y =
[
"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/coad/bcr/intgen.org/tissue_images/slide_images/intgen.org_COAD.tissue_images.Level_1.116.4.0/TCGA-CM-4743-01A-01-BS1.d11d0a14-b3a7-4e66-8dc1-dade356b9171.svs",
"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/coad/bcr/intgen.org/tissue_images/slide_images/intgen.org_COAD.tissue_images.Level_1.116.4.0/TCGA-CM-4743-01A-01-TS1.549e7f47-bb93-43d1-8835-9db9564a1d8a.svs"
]