fluxible 1.4.0

• Gas concentration can now be transformed in volumetric concentration (e. g., mmol/l) before fitting a model and calculating the slope, accounting better for temperature change inside the chamber. The rest of the workflow has been adapted to support this pathway. The previous workflow (i. e., calculating the flux using the average air temperature during the measurement) is still available and unchanged.
• flux_conc: new function to transform fractional gas concentration in volumetric concentration before fitting a model.
• flux_flag_count: added a row with total number of fluxes, to facilitate reporting.
• flux_fitting (bug fix): last point of the measurement before the end cut was also cut. The fix can change the results if gas concentration data points are very spaced. The previous results can be obtained by cutting one extra second at the end of the measurements.

fluxible 1.3.7

• flux_plot: argument arrange_col allows to customize the order of the facets

fluxible 1.3.6

• fixed the use of case_when() to avoid warnings with dplyr 1.2.0.

fluxible 1.3.5

• added minimum version of rlang 0.4.0 in DESCRIPTION to avoid issues with as_label().

fluxible 1.3.4

• flux_fitting, bug fix: when using cut_direction = "from_start", the focus window is now start + start_cut to start + end_cut. Previously was doing start + start_cut to start + start_cut + end_cut
• flux_plot, bug fix: slopes and flags were displayed at the wrong location on the plot when using start_cut, with no effect on the output data.

fluxible 1.3.3

• citation: paper published!

fluxible 1.3.2

• flux_plot: fixed a bug, which makes it now much faster

fluxible 1.3.1

• Vignettes and readme: reference and small fixes

fluxible 1.3.0

• flux_match: checks that the two inputs have different column names
• flux_plot: dots in legend and lines bigger
• flux_fitting: exp_zhao18 now default model
• various fixes and code improvements

fluxible 1.2.13

• flux_fitting: cut_direction allows to cut from both sides, or start, or end

fluxible 1.2.12

• flux_drygas: does the wet air correction
• flux_units: added mmol/mol as a possible concentration unit
• flux_diff: calculates the difference between fluxes (GPP, transpiration, etc)

fluxible 1.2.11

• flux_calc: fixed bug when atm_pressure is a variable

fluxible 1.2.10

• flux_lrc: output is now in long format (fluxes in same column, additional column indicating PAR correction), which makes it easier to handle with flux_gpp.

fluxible 1.2.9

• flux_plot: output = "longpdf" exports a single page pdf (default width 29.7 cm and as long as needed). This method is considerably faster than pdfpages, because it bypasses facet_wrap_paginate, but is a bit less aesthetic.

fluxible 1.2.8

• flux_plot: f_facetid argument allows to display more information in the facet IDs when plotting

fluxible 1.2.7

• flux_match: fixed_length is deprecated. flux_match will detect whether end_col or measurement_length are provided.

fluxible 1.2.6

• flux_calc: gas concentration unit can be ppm, ppb or ppt. The conversion coefficient is integrated in flux_units

fluxible 1.2.5

• flux_calc: atm_pressure is averaged like temp_air_col if it is a variable with more than one value per flux measurement

fluxible 1.2.4

• flux_units: new function returning a conversion factor to transform fluxes into the desired unit
• flux_calc: flux_unit argument now takes units in the form amount/surface/time

fluxible 1.2.3

• flux_lrc: new function to standardize CO2 fluxes with PAR values

fluxible 1.2.2

• flux_calc:
  • chamber_volume and tube_volume are deprecated, use setup_volume instead
  • cols_nest = "all" allows to nest all the columns, to keep raw data
• flux_match:
  • ratio_threshold is deprecated, use ratio_threshold in flux_quality() instead
  • f_conc is no longer needed, deprecated
• flux_quality: ratio_threshold default value is now 0.5, was 0 previously, which does not make sense

fluxible 1.2.1

• flux_quality: new no_slope quality flag for when the model could not be fitted to the data.
• flux_match: startcrop argument is deprecated as flux_fitting(start_cut) has a similar function.

fluxible 1.2.0

• flux_calc
  • variables in cols_ave, cols_med and and cols_cum gets suffix added so it is possible to provide a variable to several of those arguments.
  • cols_nest: new argument for variable to keep in a nested tibble after flux calculation.

fluxible 1.1.2

• flux_flag_count: does not need the cut argument anymore, so it can also be used after calculating fluxes to provide a table with the number of measurements for each quality flag.

fluxible 1.1.1

• flux_gep: deprecated, renamed into flux_gpp (does exactly the same).
• Fixed equations in documentation.

fluxible 1.1.0

fluxible 1.0.5

• flux_quality: fluxes with bad fit are now flagged as zero if their linear slope is below the minimal detectable slope (calculated as \(2 \times \text{instrument error} / \text{length of flux}\)) instead of discard.

fluxible 1.0.4

• flux_fitting:
  • exp_hm to use the HM model (Pedersen et al., 2010; Hutchinson and Mosier, 1981).
  • returns the linear slope besides the chosen method.
• flux_quality:
  • kappamax = TRUE to apply the kappamax method (Hüppi et al., 2018) on any of the exponential fits.
  • g-factor in the output shows the ratio of slope over the linear slope.
  • force_linear and force_exp to force the use of the linear or exponential slope (kappamax method).
• flux_match: option to feed a column with the end time instead of a fixed measurement length, in case fluxes do not all have the same length
• flux_calc:
  • cols_sum columns for which the values will be summed for each flux.
  • cols_med columns for which the median will be provided for each flux.

fluxible 1.0.3

• stupeflux: a wrap function to directly process raw gas concentration data into ecosystem gas fluxes.
• flux_fitting: if optim returns non-finite values, the slope is NA and the function does not crash anymore.
• flux_fitting: new model exp_tz. Same as exp_zhao18 except the user defines t_zero.

fluxible 1.0.2

• flux_gep: fluxes presents in the dataset that are neither NEE nor ER (soilR, LRC or other) are not lost anymore.

fluxible 1.0.1

• flux_quality: added force_zero argument to force a flux to be replaced by zero.

fluxible 0.1.3

• Error corrected in flux_gep: the columns in the cols_keep argument are filled for GEP flux with values from NEE flux, and NA if missing, but not values from ER fluxes.

fluxible 0.1.2

• flux_gep allows to keep all columns without naming them.
• Order of columns in the output of flux_match is more logical (f_start before f_end…).

fluxible 0.1.1

• Vignettes temporarily back in Rmd until quarto_render bug is fixed (https://github.com/r-lib/pkgdown/issues/2830)

fluxible 0.1.0

• Added a vignette describing how to prepare the data for fluxible.
• flux_plot now adds a vertical line showing where t_zero is.
• flux_plot: scale_x_datetime arguments are now past as a list.
• Functions now recycle users column names instead of renaming them. Columns created by fluxible functions have the suffixf_`.

fluxible 0.0.6

• Correction in flux_quality: zero and discard flags were inverted when using the linear fit.

fluxible 0.0.5

• flux_plot: fixed the blurriness of quality flags.

fluxible 0.0.4

• flux_gep function to calculate GEP.

fluxible 0.0.3

• All plots are colored the same (colors code for raw concentration data points and fit and slope in black).
• Legend for line types in plots.
• Plot subtitles indicating the fit type.

fluxible 0.0.2

• flux_calc allows to choose units.
• flux_calc allows plot area as a variable.
• flux_fitting with exponential model works when concentration data are missing in the middle of the measurement.