save-the-babies

General utilities for reading fetal cardiotocography data from https://physionet.org/content/ctu-uhb-ctgdb/1.0.0/

Read Waveform files from Physionet.org

Get the wavefrm data from the physionet archive:

wget --recursive --no-parent https://physionet.org/physiobank/database/ctu-uhb-ctgdb/

Read them into python:

python read_physionet.py --files physiobank/database/ctu-uhb-ctgdb/ --title 1001

Convert pdf's to individual pngs

brew install ghostscript

gs -dNOPAUSE -sDEVICE=png16m -r256 -sOutputFile=myData/page%03d.png myData.pdf

(you may need to type quit once the GS prompt is returned)

Clip out part of a png and use the same crop bounds for all additional pngs in a path

python clip_bounds.py --file myData/page0004.png --path myData/

When the image is displayed, the mouse is used to interact with the region of interest. Click on the top left and hold/darg to bottom right. Release. Press 'c' if oyu want to crop the window. Press 'r' to redo. Everything in the --path will be corpped accordingly to the same window.

Output cropped images are stored in myData/clipped/ (or whatever your specified top level path is above).