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Page History
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file_location: Location of the image on file system
/uAIMDataLoader
Node application that converts Aperio and binary masks to GeoJSON objects and stores them in a Mongo database
HTTP Verb | QueryEndpoint | Query Parameters(Input) | Output(Description) |
|---|---|---|---|
POST | /submitMaskOrder | Case_id, Execution_id, Height, Width, X, Y, Type(optional) | {“jobId”: 12} |
GET | /job/:id | None | {“status”:”incomplete”} |
Example of /uAIMDataLoader
Example curl cURL command (Aperio):
| Code Block |
|---|
$ curl localhost:6000/submitMaskOrder -F mask=@1.png -F case_id=cbtc_test_11 -F execution_id=ganesh:test2 -F width=1743 -F height=2017 -F x=0 -F y=0 |
Example curl cURL command (binary mask):
| Code Block |
|---|
$ curl localhost:6000/submitMaskOrder -F mask=@1.xml -F case_id=cbtc_test_11 -F execution_id=ganesh:test2 -F width=1743 -F height=2017 -F x=0 -F y=0 -F type= maskfile |
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HTTP Verb | QueryEndpoint | Query Parameters(Input) | Output(Description) | Questions |
|---|---|---|---|---|
GET | /fileLocation | case_id | Get file location of image | Used by caMicroscope viewer to give the image location to it's its backend server |
| /mpp | case_id | Get mpp-x, mpp-y of the image | Used by the viewer to adjust the scales | |
| /metadata | case_id | Get all metadata of the image(width, height, mpp etc.) | Used by dynamic services to get width, height and file location of image | |
| /md5 | case_id | Get MD5 of the image file | Used to check the MD5 to make sure that the image was loaded successfully | |
| POST | /json | metdata | metadata of the image in JSON format | Stored in Mongo(db: Camicroscope, collection: ImageData) |
Example of /ImageData
POST
| Code Block |
|---|
$ curl -H "Content-Type: application/json" -X POST -d '{"case_id": "TCGA-01-0001", "width": 30000, "height": 31000}' http://localhost:9099/Camicroscope/ImageData/json
|
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| Code Block |
|---|
$ curl http://localhost:9099/Camicroscope/ImageData/fileLocation |
/MarkupData
Bindaas
HTTP Verb | QueryEndpoint | Query Parameters(Input) | Output(Description) | Questions |
|---|---|---|---|---|
GET | /multipleMarkups | Case_id, x1,y1,x2,y2,footprint,algorithms | GeoJSON | Need explanation x1,y1,x2,y2 are different than what is in caMicroscope demo (had x, y, width, height) |
| N/A | /executionIds | case_id | List of execution IDs available for case | Need explanation. How would one get these execution IDs for a specific slide? Need to explain the difference between a caseID and an executionID–also any of the query modifiers. |
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| Code Block | ||||
|---|---|---|---|---|
| ||||
$ curl -H "Content-Type: application/json" -X POST -d \
'{
"type": "order",
"data": {
},
"options" : {
"attempts": 5,
"priority": "high"
}
}' http://localhost:3000/job
|
will output:
{"message": "job created", "id": 3}
This ID can be used to query the status of the job
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