mmg-toolbox 0.6.3

Repository for useful python data analysis functions for the Diamond Magnetic Materials Group

mmg_toolbox

Repository for useful python data analysis functions for the Diamond Magnetic Materials Group

Source	https://github.com/DiamondLightSource/mmg_toolbox
PyPI	pip install mmg_toolbox
Documentation	https://diamondlightsource.github.io/mmg_toolbox
Releases	https://github.com/DiamondLightSource/mmg_toolbox/releases

Installation

Requires: Python >=3.10, Numpy, h5py, matplotlib, hdfmap, nexus2srs

python -m pip install mmg_toolbox

@DLS

mmg_toolbox is available via the module system:

$ module load mmg
(python)$ dataviewer
# OR
(python)$ create_notebooks

Usage - Read a NeXus scan file

Read data from a NeXus scan file in a python prompt or script

from mmg_toolbox import data_file_reader
scan = data_file_reader('12345.nxs', beamline='i16')
print(scan)  # print a metadata string

scan.plot.plot()  # plot defaults
scan.plot.show()

Usage - DataViewer

Start the dataviewer from a terminal

$ dataviewer

Or, to open the data viewer in the current folder:

$ dataviewer .

Or, to open the file viewer for a specific file:

dataviewer path/to/file.nxs

Usage - Scripting

mmg_toolbox contains many useful tools for data analysis in python scripts, for example:

import matplotlib.pyplot as plt
from mmg_toolbox import Experiment

exp = Experiment('/path/to/files')

# list scans
all_scans = exp.all_scan_numbers()  # {scan_number: filename}
print('\n'.join(exp.scans_str(*all_scans)))

exp.plot(1108746, 1108747, 1108748)

scans = exp.scans(*range(-10, 0))
for scan in scans:
    scan.plot()
    axes, signal = scan.eval('axes, signal')

create_notebooks

the create_notebooks script is included as a simple way to get started and create some default scripts in your working directory. By default you will be prompted to provide a beamline and a directory or visit ID. The script can then start a Jupyter Lab instance in that directory.

command
$ create_notebooks	interactively create scripts and start jupyter
$ create_notebooks -b i10-1 .	create i10-1 specific scripts in the current directory
$ create_notebooks --help	additional options

Dataviewer

mmg_toolbox contains a tkinter based dataviewer for viewing data in NeXus files. Various plotting and processing capabilities are available.

Feedback

mmg_toolbox is still under development, so if you have any feedback, found any bugs or have any feature requests - please do let me know!