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cwepr.io.txt_file module

Importer for simple text and CSV files.

Despite its obvious limitations (normally no metadata, limited resolution, large files) text or CSV files are an often-encountered exchange format and can serve as an easy way to import data from otherwise not supported file formats, as nearly every software to record data allows to export these data as simple text or CSV files.

You may have a look as well at the importers provided by the ASpecD package for similar situations, particularly aspecd.io.TxtImporter.

class cwepr.io.txt_file.TxtImporter(source='')

Bases: aspecd.io.TxtImporter

Importer for text files with various delimiters and separators.

Automatically detects the extension of a file. Therefore, the importer should be given explicitly in the recipe if it is different from “.txt”.

Due to the inherent lacking of metadata in text files despite their widespread use, the importer adds three values as metadata in order to get the axis label for the magnetic field axis correctly:

• Unit of the first axis: mT

• Quantity of the fist axis: magnetic field

• Quantity of the second axis: intensity

parameters

Parameters controlling the import

skiprowsint

Number of rows to skip in text file (e.g., header lines)

delimiterstr

The string used to separate values.

Default: None (meaning: whitespace)

commentsstr | list

Characters or list of characters indicating the start of a comment.

Default: #

separatorstr

Character used as decimal separator.

Default: None (meaning: dot)

Type

dict

Examples

For convenience, a series of examples in recipe style (for details of the recipe-driven data analysis, see aspecd.tasks) is given below for how to make use of this class. The examples focus each on a single aspect.

The most general and simple case, using only default values:

datasets:
  - eprdata.txt

However, you can control the import in quite some detail, with respect to delimiter, decimal separator, rows to skip from the top, and comment character. A full example setting each of these parameters may look as follows:

datasets:
  - source: eprdata.txt
    importer_parameters:
        delimiter: '\t'
        separator: ','
        skiprows: 3
        comments: '%'

Here, the delimiter between columns is the tabulator, the decimal separator the comma, the first three lines are skipped by default as well as every line starting with a percent character, as this is interpreted as comment.

A frequent use case is importing simulations that were carried out with EasySpin. A MATLAB excerpt for saving the simulated spectrum might look as follows:

[B_sim_iso, Spc_sim_iso] = garlic(Sys, Exp);

data = [B_sim_iso', Spc_sim_iso'];
writematrix(data, 'Simulated-spectrum')

Read in the simulated spectrum with:

datasets:
  - source: Simulated-spectrum.txt
    id: simulation
    importer: TxtImporter
    importer_parameters:
        delimiter: ','

Changed in version 0.5: Renamed from CsvImporter to TxtImporter and generalised handling of text files. Now inherits from aspecd.io.TxtImporter.

class cwepr.io.txt_file.CsvImporter(source='')

Bases: cwepr.io.txt_file.TxtImporter

Simple importer for csv files containing EPR data.

The delimiter defaults to the comma, as the name implies, but you can set the delimiter as well as other parameters explicitly. See TxtImporter for details.

Due to the inherent lacking of metadata in text files despite their widespread use, the importer adds three values as metadata in order to get the axis label for the magnetic field axis correctly:

• Unit of the first axis: mT

• Quantity of the fist axis: magnetic field

• Quantity of the second axis: intensity

Changed in version 0.5: Renamed from CsvImporter to TxtImporter and generalised handling of text files. Now inherits from TxtImporter.