README.md

Data Loader

Python utility to extract metadata from OpenSlide images and post them to a RESTful interface

Installation:

• Tested on python 3.5.0.
• pip install -r requirements.txt

Make sure you have LD_LIBRARY_PATH set up

Usage:

python dataLoader.py -i <inputCSVFile> -o <RESTinterface> -a <API key>

Input.csv

This is the format of input.csv

Id, study_id, File
test1,default,/data/images/CMU-1.svs
test2,default,/data/images/CMU-2.svs

where

• Id is the case_id of the image
• study_id is the study_id
• File is the file location on disk.

Issues

ImportError: libopenjp2.so.7: cannot open shared object file.

Run

export LD_LIBRARY_PATH=/usr/local/lib to fix this.