Open Peer-Review Reproducible Publication with Org and GRASS

From: Ken Mankoff <mankoff@gmail.com>
To: Org Mode <emacs-orgmode@gnu.org>,
	'grass-user grass-user' <grass-user@lists.osgeo.org>
Subject: Open Peer-Review Reproducible Publication with Org and GRASS
Date: Fri, 03 Jun 2016 10:19:07 -0400	[thread overview]
Message-ID: <m2lh2m4ap0.fsf@gmail.com> (raw)

Hi Org and GRASS lists,

I just wanted to let these two lists know that I've just posted a paper written in Org and using GRASS (text-mode) and Python for the analysis. My goal was to create not just an open access publication, but a fully reproducible publication. This is an early announcement, and the paper may not pass peer review.

The Supplemental Material is the Org file with all the code to generate the document, beginning with downloading the 3rd party data that is input to our analysis, the GRASS code to perform the analysis, and the Python code to regenerate the figures.

I don't think I did a great job on the reproducible part because I have a highly customized .emacs, etc. All the information necessary to replicate the work should be in the Supplemental Material, but it might not be easy to do so. Anyway, I think it is a step in the right direction.

To make it easier to reproduce... including my emacs.org seems overkill. Including a Virtual Machine that contains everything, including my ~/.emacs.d/ and all the software and data seems like the right thing to do, but journals don't want to host a 20 GB VM with the publication.

Thanks to people on these two lists who have developed the software and helped me use it.

   -k.

http://www.the-cryosphere-discuss.net/tc-2016-113/
_______________________________________________
grass-user mailing list
grass-user@lists.osgeo.org
http://lists.osgeo.org/mailman/listinfo/grass-user