lastlegion/dataloader repository overview

⁠caMicroscope-DataManager

Contains the backend data management infrastructure for caMicroscope. Encapsulates:

• MongoDB
• Bindaas
• DataLoader API

⁠Running container

make sure you're logged in using docker login with your dockerhub credentials and have access to this private repository

• docker pull lastlegion/dataloader
• docker run -itd -p <API_PORT>:3000 -p <BINDAAS_PORT>:9099 -v <IMAGE_DIRECTORY>:/data/images lastlegion/dataloader

where <API_PORT> and <BINDAAS_PORT> are arbitrary port numbers on the host machine <IMAGE_DIRECTORY> is the directory that'll store all the images on the host machine

⁠Dataloader API

Following examples assume <API_PORT>==32799

⁠POST /submitData

curl -v -F case_id=TCGA-02-0001 -F upload=@TCGA-02-0001-01Z-00-DX1.83fce43e-42ac-4dcd-b156-2908e75f2e47.svs http://localhost:32799/submitData Return type: json On success returns: {"status":"success"}

⁠GET /subjectIdExists

curl localhost:32799/subjectIdExists?SubjectUID=TCGA-02-0001 Returns an array with subjectID and file path. Empty array if subject Id doesnt exist

⁠GET /getMD5ForImage

curl localhost:32799/getMD5ForImage?imageFileName=TCGA-02-0001-01Z-00-DX1.83fce43e-42ac-4dcd-b156-2908e75f2e47.svs Returns an array with MD5 of the image [{"md5sum":"418a0724b0a2113bcd2956bacae105b7"}]