ooacquire 0.1.5

Improvements aiming at continuing the expansion of the support of different Ocean Optics spectrometers and of  additional calibration methods.

  • Support use of irradiance calibrations supplied by Ocean Optics
  • Add pre-built calibrations and methods for two Flame-S instruments.

Documentation website is at http://docs.r4photobiology.info/ooacquire/.

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

NOTE: This package is NOT available through CRAN.  In addition, this version of package ‘ooacquire’ depends on versions of packages ‘photobiology’, ‘photobiologyWavebands’, ‘ggspectra’, and ‘ggplot2’ not yet available through CRAN.

This version of the package is available through the r4photobiology repository  and through Bitbucket.

INSTALLATION:

  1. from the binary or source packages from the CRAN-compatible repository at http://r.r4photobiology.info/
  2. from sources retrieved from the Git repository at Bitbucket.

devtools::install_github("tidyverse/ggplot2")

devtools::install_bitbucket("aphalo/ooacquire", ref = "0.1.5")

devtools::install_bitbucket("aphalo/photobiology")  # only if not automatically installed/updated

devtools::install_bitbucket("aphalo/photobiologyWavebands")  # only if not automatically installed/updated

devtools::install_bitbucket("aphalo/ggspectra")  # only if not automatically installed/updated

ooacquire 0.1.4.9003

Fix “breaking” bug causing fatal errors after package ‘Rcpp’ was updated, and many non-breaking but important bugs.

Several improvements aiming at continuing the expanding the support to different Ocean Optics spectrometers, and to the documentation.

  •  Fix serious bug that triggered a fatal error with current version of ‘Rcpp’.
  • Add functions choose_sr_interactive() and choose_ch_interactive() and revise acq_irrad_interactive() and acq_fraction_interactive() to make use of them.
  •  Add fields to the instrument descriptor to store the numeric coefficients in addition to functions for non-linearity and wavelength calibrations.
  • Add pre-built calibrations and methods for our Jaz instrument.
  • Update and expand the vignettes and examples.

This version of the package is available through the r4photobiology repository  and through Bitbucket.

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

R 3.4.0 released

R 3.4.0 was released some days ago. A compatibility update to RStudio is also available.

The repositories at this site and obviously also at CRAN now contain package binary distributions for R 3.4.x and R 3.3.x.

One major change in this release is that the JIT (just in time) compiler is enabled by default. I have not done any benchmarking yet.

I have written a page explaining how to upgrade your R installation.

The code examples in my book Learn R …as you learnt your mother tongue continue to work as expected. However not all the package updates for R 3.4.0 are yet in CRAN. In package ‘gganimate’ function gg_animate() has been renamed gganimate().

The code examples in our book R for Photobiology: Theory and recipes for common calculations run without problems. Due to recent updates to the packages in my R for Photobiology Suite, used in the book examples, fewer warnings than earlier are triggered.