mrterry / yoink

tools for digitizing scientific plots

Yoink

Yoink is a tool for extracting data from scientific figures.

I'm often faced with this problem: I have a scientific publication with data that I want to use, however the raw data is not available. It is only provided in rasterized images. The figures are of good quality: the line plots provide axes with labels and ticks; the pseudocolor (false-color) images have axes and a colorbar. In theory all the needed information is there, it is just not particularly convenient.

Yoink provides scripts to yoink the data out of rasterized images as well as a set of backend independent matplotlib widgets that assist in doing so.

Yoink does not require exotic dependencies, only python 2.7, numpy, scipy, and matplotlib. (planned) If scikit-image is available, yoink can guess the cropping and rotation of a figure.

The easiest way to use yoink is to use the executables yoink_cmap and yoink_points (planned).

$ yoink_cmap wacky_figure.png -o output.txt

yoink's Issues

Cannot add sets with '+'

On line 35 of the yoink script, get an unsupported operand type error when trying to add image_choices and line_choices with +

travis integration is broken

It is.

Not able to build documentation

On building documentation I am getting this error. Please help me on this.

writing output... [ 9%] index

Exception occurred:
  File "/usr/local/lib/python2.7/dist-packages/sphinxcontrib/youtube/youtube.py", line 17, in get_video_id
    return urlparse.parse_qs(urlparse.urlparse(url).query)['v'][0]
KeyError: 'v'
The full traceback has been saved in /tmp/sphinx-err-HSrIk4.log, if you want to report the issue to the developers.
Please also report this if it was a user error, so that a better error message can be provided next time.
A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks!
make: *** [html] Error 1

Installing yoink

Hello! I really like this project and it could be very helpful for my needs. I am not sure how to build, install and run this though. The website containing the doc as cited in the setup.py (http://yoinkery.com/) seems down. Also, does this run under python 3.3 as listed in the classifiers of setup.py?