This file:

https://bitbucket.org/krizeklab/ant-chip/src/master/src/makeAnnotsXml.py

contains code for generating a Quickload site annotations "annots.xml" file for this article:

• The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form

by Prof. Beth Krizek at University of South Carolina

This paper describes how Dr. Krizek has been using IGB to analyze ChIP-Seq and RNA-Seq data sets she made from Arabidopsis plants to identify targets and gene networks controlled by AINTEGUMENTA, a DNA-binding protein that regulates floral development.

However, this annots.xml includes other data sets not relevant to the paper.

So we now need to prepare a new annots.xml file that shows just the data sets relevant to the paper and not the others.

For this task, let's add a new parameter setting to the script that allows us to produce two different annots.xml files – one that includes only the data sets relevant to the paper and another that includes ALL the data sets.

Lastly, also let us also figure out how to use ansible to deploy the files remotely to a BioViz server. Specifically, identify a set of ansible commands that can transfer a Quickload site for this data set to a BioViz host. Put these into a playbook and add the playbook to the repository for future reference and future use.

Note: The deadline for this task is end-of-day Jan 31, 2020. First priority is to modify the script as noted above. So do that first. Second priority is to develop the ansible playbook.