API Reference

hesseflux provides functions used in the processing and post-processing of the Eddy covariance flux data

It was developed for the ICOS ecosystem site FR-Hes.

The post-processing functionality for Eddy flux data is similar to the R-package REddyProc and includes basically the steps described in Papale et al. (Biogeosciences, 2006) plus some extensions such as the daytime method of flux partitioning (Lasslop et al., Global Change Biology 2010).

copyright

Copyright 2009-2022 Matthias Cuntz, see AUTHORS.rst for details.

license

MIT License, see LICENSE for details.

Subpackages

const

Purpose

functions

Purpose

argsort(a, *args, **kwargs)

Wrapper for numpy.argsort, numpy.ma.argsort, and using sorted for Python iterables.

ascii2ascii(edate[, full, en, fr, us, eng, YY])

Convert date notations between ascii DD.MM.YYYY hh:mm:ss, English YYYY-MM-DD hh:mm:ss, American MM/DD/YYYY hh:mm:ss, and French DD/MM/YYYY hh:mm:ss.

date2dec([calendar, units, excelerr, yr, ...])

Convert scalar and array_like with calendar dates into decimal dates.

dec2date(indata[, calendar, refdate, units, ...])

Converts scale and array_like with decimal dates into calendar dates.

division(a, b[, otherwise, prec])

Divide two arrays, return otherwise if division by 0.

esat(T[, liquid, formula])

Calculates the saturation vapour pressure of water and/or ice.

fgui

fgui : GUI dialogs to choose files and directories using Tkinter.

fread(infile[, nc, cname, skip, cskip, ...])

Read numbers into array with floats from a file.

fsread(infile[, nc, cname, snc, sname, ...])

Read from a file numbers into 2D float array as well as characters into 2D string array.

gapfill(dfin[, flag, date, timeformat, ...])

Fills gaps in flux data from Eddy covariance measurements with Marginal Distribution Sampling (MDS) according to Reichstein et al. (Global Change Biology, 2005).

mad(datin[, z, deriv, nozero])

Median absolute deviation test, either on raw values, or on 1st or 2nd derivatives.

madspikes(dfin[, flag, isday, colhead, ...])

Spike detection for using a moving median absolute difference filter.

nee2gpp(dfin[, flag, isday, date, ...])

Calculate photosynthesis (GPP) and ecosystem respiration (RECO) from Eddy covariance CO2 flux data.

sread(infile[, nc, cname, skip, cskip, ...])

Read strings into string array from a file.

ustarfilter(dfin[, flag, isday, date, ...])

Flag Eddy Covariance data using a threshold of friction velocity (u*) below which u* correlates with a reduction in CO2 flux.

logtools

Purpose
History

  • Written 2017 by Matthias Cuntz (mc (at) macu (dot) de)

  • v2.0, format and docu useable with PyPI, Apr 2020, Matthias Cuntz

  • v2.0.1, more requirements for readthedocs, coveralls, etc., May 2020, Matthias Cuntz

  • v2.0.2, finished setup with all dependencies, setting passwords, etc., May 2020, Matthias Cuntz

  • v2.1, use en instead of eng and bugfix for Excel dates in date routines, Jul 2020, Matthias Cuntz

  • v2.2, seasonout in ustarfilter, flag gross fluxes if partitioning was not possible, Aug 2020, Matthias Cuntz

  • v3.0, include subpackages in const, functions, logtools in setup.py, Sep 2020, Matthias Cuntz

  • v3.1, support cftime>v1.3.0 and added eddy2nc, Feb 2021, Matthias Cuntz

  • v3.2, return also mean of values for error estimates, Jun 2021, Matthias Cuntz

  • v3.2.1, code refactoring, Feb 2022, Matthias Cuntz

  • v4.0, moved to pyproject.toml structure and github pages for documentation, Aug 2022, Matthias Cuntz