photobiologyPlants 0.4.2

The changes from version 0.4.1 the previous CRAN version are:

  • (Code breaking!) Some data objects have been renamed and consequently old scripts may need minor edits.
  • (Data changed!) Increase wavelength resolution of the spectral data.
  • Add spectral absorbance data for the photoreceptor pigments cryptochrome 1, cryptochrome 3, phototropin 1, phototropin 2 and ZTL protein.
  • Add spectral absorbance data for eight carotenoids and chlorophyll a and chlorophyll b.
  • Add spectral fluorescence emission data for chlorophyll a and chlorophyll b.
  • Fix bug in Jalter leaf optical properties data object.
  • Rebuild data objects with ‘photobiology’ 0.9.28.
  • Translate vignette to R markdown and update it.

Documentation web site at http://docs.r4photobiology.info/photobiologyplants/.

The updated package has been submitted to CRAN.

Please raise issues concerning bugs or enhancements to this package through Bitbucket at https://bitbucket.org/aphalo/photobiologyplants/issues

ggspectra 0.3.3.1

This update includes a fix for a bug affecting autoplot() methods in the case of plotting multiple spectra in the same plot. It also includes improvements to the easy of use through the addition new or enhancements to existing convenience methods and functions. The required version of ‘photobiology’ is now 0.9.28 or higher.

The changes from version 0.3.2, the current CRAN release, are:

  • Make autotitle() the recommended method and deprecate the use of ggtitle_spct(), which remains available for backwards compatibility.
  • Enhance autotitle() to optionally set the caption in addition to title and subtitle of a plot.
  • Add support for setting of the plot caption controlled with the annotations argument of autoplot() methods.
  • Add convenience functions to make easier to modify default arguments used by autoplot() methods through R options: set_annotations_default() and set_w.band_default().
  • Add support for simultaneously adding and removing annotations from the current default by accepting lists of character vectors in addition to character vectors as argument for parameter annotations in autoplot() methods.
  • Add support in multiplot() function for adding a title to the composite figure.
  • Track changes in ‘photobiology’ (>= 0.9.28) adding support for using the "how.measured" attribute in plot titles, subtitles and captions.
  • Use a compute panel function instead of a compute group function in stat_wb_label(), stat_wb_box() and stat_wl_strip(), solving a bug affecting autoplot() methods when called with multiple spectra.

The justification for renaming the ggtitle_spct() function to autotitle() is that the new name is consistent with autoplot() and autolayer() in taking an R object of a specific class as first argument and automatically extracting the information from it.

Documentation web site at https://docs.r4photobiology.info/ggspectra/.

NOTE: The updated package is on its way to CRAN.

Please raise issues concerning bugs or enhancements to this package through Bitbucket at https://bitbucket.org/aphalo/ggspectra/issues

photobiology 0.9.28

Changes from version 0.9.27, the most recent CRAN release, are:

  • Fix bug in getTimeUnit() method. This method would fail for "source_spct" objects containing spectral fluence data (a recent enhancement) and cause failure of the print() method for these same objects.
  • Add setHowMeasured() and getHowMeasured() methods, adding support for a new metadata attribute.

Documentation web site at http://docs.r4photobiology.info/photobiology/ includes all help pages, with output from all examples, and vignettes in HTML format.
NOTE: The updated package is on its way to CRAN.

Please raise issues concerning bugs or enhancements to this package through Bitbucket https://bitbucket.org/aphalo/photobiology/issues

photobiology 0.9.27

This update is in part the result of comparing the values returned by functions sun_angles() and day_night() to those returned by equivalent functions from other R packages and to the online NOAA Solar Calculator (considered the best implementation of Meuus astronomical algirithms, which are currently the most precise available). To see the whole story as it develops, please, have a look at my post describing these tests.

Changes from version 0.9.26, the most recent CRAN release, are:

  • Improve performance of sun_angles() and day_night() and implement Meuus algorithm for julian day. End result is slightly slower performance but higher precision and broader range of dates that are handled correctly.
  • Make sure functions work correctly when a tibble is passed as argument to parameter geocode. In addition tolerate address column being a factor.
  • Values returned by sun_angles() and day_night() have changed very slightly as a result of the improved julian day calculation.

Documentation web site at http://docs.r4photobiology.info/photobiology/ includes all help pages, with output from all examples, and vignettes in HTML format.
NOTE: The updated package is on its way to CRAN.

Please raise issues concerning bugs or enhancements to this package through Bitbucket https://bitbucket.org/aphalo/photobiology/issues