Emily Boudreaux
131161e1bd
the new general purpose index design introduced a bug in the loader related to the byte position of the byteStart field. This has been resolved. Further, I have updated the save to ascii format to provide an explicit warning that the ascii version is only for debugging purposes and not meant to be used directly.
opatIO python module
This module defines a set of tools to build, write, and read OPAT files. The OPAT fileformat is a custom file format designed to efficiently store opacity information for a variety of compositions.
Installation
You can install this module with pip
git clone <repo>
cd 4DSSE/utils/opat
pip install .
General Usage
The general way that this module is mean to be used is to first build a schema for the opaticy table and then save that to disk. The module will handle all the byte aligment and lookup table construction for you.
A simple example might look like the following
from opatio import OpatIO
opacityFile = OpatIO()
opacityFile.set_comment("This is a sample opacity file")
opaticyFile.set_source("OPLIB")
# some code to get a logR, logT, and logKappa table
# where logKappa is of size (n,m) if logR is size n and
# logT is size m
opacityFile.add_table(X, Z, logR, logT, logKappa)
opacityFile.save("opacity.opat")
You can also read opat files which have been generated with the loadOpat function
from opatio import loadOpat
opacityFile = loadOpat("opacity.opat")
print(opacityFile.header)
print(opaticyFile.tables[0])
Problems
If you have problems feel free to either submit an issue to the root github repo (tagged as utils/opatio) or email Emily Boudreaux at emily.boudreaux@dartmouth.edu