Calling ISIS programs from Python
The kalasiris library is a Python library to wrap functions and functionality for the Integrated Software for Imagers and Spectrometers (ISIS).
- Free software: Apache Software License 2.0
- Documentation: https://kalasiris.readthedocs.io.
This is a very early development version, be warned!
- Primarily a very lightweight wrapper around Python's subprocess module to allow easy calling of ISIS programs in the shell from within Python.
- Calling compatibility with pysis (but not return types)
- Guaranteed to work with ISIS 3.6.0+, probably works with ISIS 3+
- Only guaranteed to work with Python 3.6.0+
This library really only works if you already have ISIS installed and working properly. Quirks of working with where and how ISIS is loaded in your environment and how to use kalasiris with it, can be found in the documentation.
Are you new to Python? Or you just don't want to mess with sophisticated Python installation procedures? Or you don't want to commit to installing something when you don't know if it will be worth it? Or you just want to write something 'real quick' in Python and just need to call some ISIS programs now?
We've got you covered.
Just go into the kalasiris directory, and copy the kalasiris.py
file into the same directory where your program is. It doesn't
depend on anything that isn't already part of Python, so you can
just use it like so:
from kalasiris import cam2map fromcube = 'something.cub' tocube = 'something_mapped.cub' cam2map(fromcube, to=mapfile)
Easy! Assuming you have a something.cub file that can be
map-projected.
Just grabbing this one file gets you the ability to call ISIS
programs from your Python programs. There are other parts of this
package that provide helper functions (like cubenormDialect),
classes (like Histogram), and syntactic sugar (the _k functions).
You don't get them by just grabbing kalasiris.py as described
above.
If you want all of the kalasiris library, but still don't want to
go through some formal installation process, you can clone this repo,
and then move (or copy) the whole kalasiris/ directory (instead
of just the kalasiris.py file inside of it) to your project, and
then do the same thing as above, but now you can do more fun things
like this:
import kalasiris as isis img = 'PSP_010502_2090_RED5_0.IMG' hicube = 'PSP_010502_2090_RED5_0.cub' histfile = 'PSP_010502_2090_RED5_0.hist' isis.hi2isis(img, to=hicube) InsID = isis.getkey_k(hicub, 'Instrument', 'InstrumentId') print(InsID) # prints HIRISE isis.hist(hicube, to=histfile) h = isis.Histogram(histfile) print(h) # prints the hist file header info print(h['Std Deviation']) # prints 166.739 print(h[1]) # prints the second row of the histogram: # HistRow(DN=3924.0, Pixels=1.0, CumulativePixels=2.0, Percent=4.88281e-05, CumulativePercent=9.76563e-05) print(h[1][3]) print(h[1].Percent) # both of the above print 4.88281e-05
You can see that you now have access to things like the Histogram class,
the getkey_k() _k function, and much more.
Read the documentation for more: https://kalasiris.readthedocs.io
Eventually have some instructions here once they've been tested.
How is this different from pysis?
Folks got a lot of use out of pysis, but it hasn't had a release or commits in some time, and due to its implementation and strict checking, it is not compatible with recent versions of ISIS. The main kalasiris implementation can fit in one file and is very lightweight.
Naturally, this means that working with kalasiris is perhaps less forgiving, but we think it is more nimble.
There is also some compatibility with pysis calling syntax, see the documenation for more information.
This repository layout was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.
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