read_CIE_csv() to also support reading of trichromatic
coordinates into chroma_spct objects.qtuv_m_s.e.irrad() adding support for collections of
simulated spectral irradiance for multiple altitudes.spct_CRI(), spct_CCT(), and
spct_SSI().read_qtuv_txt() not to add by default
variables angle and date to the returned source_spct object. Support
addition on user request of variables sun.elevation, zenith.angle,
time, and ozone.du, and for backwards compatibility, but deprecated, date
and angle, individually and in any combination.read_qtuv_txt() to handle text/HTML files from Quick TUV saved with
embedded new line escapes (`"\n") instead of actual new lines. This seems to
be a change in the output from the on-line Quick TUV calculator and/or in how
web browsers handle it.qtuv_s.e.irrad() to directly obtain simulated spectral
irradiance from the Quick TUV calculator.qtuv_m_s.e.irrad() to directly obtain collections of simulated
spectral irradiance for multiple values of arguments for input parameters.read_CIE_csv() to read the CSV and JSON files from CIE,
recently published at the CIE Datasets page.mspct2fdata() and spct2fdata() to export spectra as fdata
objects for use with package 'fda.usc', and functions fdata2spct() and
fdata2mspct() to import the 'fdata' objects with functional data analysis
results back into objects of one of the classes from package 'photobiology'.
Currently classes source_spct, response_spct, filter_spct, and
reflector_spct and the matching 'mspct' collections are recognized
automatically in both directions.read_spectrapen_csv() supporting PSI's SpectraPen spectrometer.mspct2colorSpec() which affected also
as.colorSpec.generic_mspct(). Attempts to convert collections containing
spectra with inconsistent wavelength vectors would fail.tidyr::gather_().read_cid_spectravue_csv() supporting data import from
measurements CSV files output by CID Bio-Science's SpectraVue CI-710s leaf
spectrometer.read_foreign2mspct() to apply an import function to a
list of files.spct_CRI(), spct_CCT() and spct_SSI()
implemented as wrappers to functions in package 'colorSpec' that accept
source_spct objects as arguments. CRI, CCT and SSI are quantities used to
describe light used for illumination, photography, cinematography and video.na and ... to read_csi_data().read_wasatch_csv() supporting data import from long
form CSV spectrum files saved by Wasatch's Enlighten program.
Metadata parsed and added to spectral object. Session and JSON files
not yet supported.read_fmi2mspct() adding flexibility to cope with variation
in date and time formats used in headers of spectra.read_oo_pidata() that was preventing reading of Ocean
Optics "Raspberry Pi" Flame files with a sequence header line at the
top.read_oo_pidata().read_oo_jazdata().Revise read_fmi_dat() to extract date from file header and save the file
header to the spectral object as a comment. Add read_fmi2mspct() for
reading spectral irradiance. Bug fix: decoding of dates in fmi import
functions for daily data not always returned POSIXct objects triggering
errors in downstream code.
Add read_yoctopuce_csv() to read CSV files from YoctoPuce modules. Add
read_qtuv_txt() to read spectral data output files from the on-line
Quick TUV calculator. Add read_tuv_usrout2mspct() wrapper of
read_tuv_usrout() and subset2mspct(). Revise read_tuv_usrout()
with new formal parameter ozone.du and fix a bug in the setting of
"where.measured" attribute. Revise all read functions so that they
store the header of the imported file as a vector of character strings
to attribute "file.header".
Implement class coercion methods ("as." methods) to complement earlier functions, tracking 'photobiology' 0.9.20. Move coercion methods from and to matrix objects to 'photobiology' 0.9.20. Update to track API changes in 'colorSpec' 0.7-3. Translate vignette to Rmarkdown.
Add function read_FReD_csv() (read files flower reflectance database).
Add function read_ASTER_txt() (read files ASTER materials reflectance
database). Revise function read_licor_prn() to accept transmittance
and reflectance spectra in addition to energy and photon irradiance
spectra. Improve handling of 'label' by using only the base name of
files and appending user supplied label text. Change location of
external data used in vignettes.
Fix CITATION file. Add function read_uvspec_disort(), rename
read_libradtran_vesa() to read_uvspec_disort_vesa().
Edit read_licor_prn() to work around a bug in readr::read_table() that
results in missread data (wrong numbers). Add read_csi_dat() to read
data saved from modern Campbell Scientific loggers.
Make compatible with upcoming version of package 'lubridate' (pull
request by vspinu NA). Add function read_avaspec_xls() which can
import spectral data from Excel files exported from Avantes software.
Fix code to avoid partial matches of function parameter names (tz ->
tzone).
Fix LaTeX error in vignette.
Replace a couple of NA returned by read functions with empty spectral objects. Improve handling of strict.range to avoid spurious warnings.
Add functions mspct2matrix() and matrix2mspct for conversion of
collections of spectra into R matrices and vice-versa.
Fix bug introduced when attempting to make the package pass CRAN checks without triggering a note.
Fix for compatibility with 'dplyr' (> 0.4.3). Add functions to exchange
data with package 'colorSpec': colorSpec2spct(),
colorSpec2chroma_spct(), colorSpec2mspct(), spct2colorSpec(),
chroma_spct2colorSpec(), and mspct2colorSpec(). Add or revise
functions to exchange data with package 'hyperSpec': spct2hyperSpec(),
mspct2hyperSpec(), hyperSpec2spct() and hyperSpec2mspct(). Add
import function for raw counts from Ocean Optics instruments accessed
through server running on a Raspberry Pi board: read_oo_pidata().
Add 'readr::locale' support to all functions that could make use of it. Add 'label' parameter to all file import functions. Add function read_oo_ssdata() for reading SpectraSuite files containing raw counts. Add function read_libradtran_vesa() for reading libRadtran output file with multiple solar spectrum simulations (as preprocessed by Vesa's script). Add metadata as consistently as possible to the objects returned by all the file import functions. Update dependencies. Edit the user Guide. WARNING: from version 0.4.4 the time zone (tz) is by default "UTC" for decoding dates and times in files imported. In most cases you will need to pass the tz (or the locale) where the file was created as an argument to the functions!
Update for compatibility with 'lubridate' (>= 1.5.6) Add function
read_oo_jazdata() to read Jaz files containing raw counts. Add
preliminary versions of functions to exchange data with package
'hyperSpec': mspct2hyperSpec() and hyperSpec2mspct(). Add
preliminary version of function to import data from package 'pavo':
rspec2mspct().
Fix bug in read_fmi_cum(). Update dependencies.
Update vignette. Fix docs.
This is a major update, not backwards compatible, as names and formal parameters of all functions have changed. Trimming is no longer supported (should be done as a separate operation).
The functions for Ocean Optics files now read the number of pixels from the file header, and hopefully will better adjust to different instruments and settings.
Functions for reading multiple spectra now return collections of spectra. (Functions that saved the spectral objects constructed from the data read from text files on disk back to disk as R data files have been removed.)
New functions for reading daily spectral exposure data from files returned by models from FMI have been added.
New function for reading .csv file from Avantes' AvaSpec spectrometers added.
Add "use.hinges" argument to functions, and default to not adding
hinges when trimming input.
Remove dependency on data.table.
Corrected some bugs in read_licor_files().
Added function to read spectral irradiance files generated by the Jaz spectrometer from Ocean Optics.
Functions names shortened.
Expanded the User Guide.
Edited read_licor_prn_files() drastically. The new version is functionally equivalent but formal arguments have changed. In addition it is now implemented by calling read_licor_prn_file().
New functions read_licor_prn_file(), read_macam_dta_file(),
read_ooss_txt_file() and read_tuv_file() returning source.spct
objects.
Function read_xlsx() removed as there are other packages available for
Excel file import.
Added function read.xlsx() for reading data from Excel workbook files
saved as .xlsx (zipped XML format).
Added parameter unit.out and cleaned code.
First version containing only one function for importing data measured with a LI-COR LI-1800 spectroradiometer from .PRN text files produced by the PC1800 MS-DOS program from LI-COR.