pyIMD 0.0.8

Installation

If you download the portable for your operating system there is no need for any installation and you can use pyIMD directly trough the user interface.

• Download the latest in one portable for WINDOWS, UNIX, OSX x64 systems

Otherwise, to install this module from source, type on your terminal:

>>> git clone https://git.bsse.ethz.ch/cunya/pyIMD
>>> cd pyIMD
>>> pip install .

Example data

Example data files can be found in this repo. We provide example data of the various devices used (Cytomass and Nanonis) in various formats.

• Go to Example_data.

• Go to Example_scripts.

Usage

To use this module in a Python script, write:

>>> from pyIMD.imd import InertialMassDetermination

Set path to files either absolute or relative to where you run the script from, i.e. using the provided show case data:

>>> file_path1 = "/pyIMD/examples/data/show_case/0190110_ShowCase_PLL_B.txt"
>>> file_path2 = "/pyIMD/examples/data/show_case/20190110_ShowCase_PLL_A.txt"
>>> file_path3 = "/pyIMD/examples/data/show_case/20190110_ShowCase_PLL_LongTerm.txt"
>>> imd.create_pyimd_project(file_path1, file_path2, file_path3, '\t', 23, 'PLL', figure_width=16.5, figure_height=20,
                     initial_parameter_guess=[60.0, 2.0, 0.0, 0.0], cell_position=9.5, figure_format='pdf')
>>> imd.run_intertial_mass_determination()

List default settings for calculation:

>>> imd.print_pyimd_project()

Change settings for calculation and figure output the following way before calling run_intertial_mass_determination():

>>> imd.settings.spring_constant = 4

More info and examples can be found in the online Documentation

Note

Use tab completion to access the object’s attributes (e.g. to get the calculated mass):

>>> mass = imd.calculated_cell_mass

Known Issues

In a IPython notebook the progress bar works not properly but has no effect on the calculations. In a IPython notebook the calculation speed is much slower.

Contribute

Please do contribute! Issues and pull requests are welcome. Thank you for your help improving software one changelog at a time!