* using log directory 'd:/RCompile/CRANincoming/R-devel/FluxSeparator.Rcheck'
* using R Under development (unstable) (2025-04-22 r88173 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'FluxSeparator/DESCRIPTION' ... OK
* this is package 'FluxSeparator' version '1.0.1'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [12s] NOTE
Maintainer: 'Jonas Stage Sø <Jonassoe@biology.sdu.dk>'

New submission

Possibly misspelled words in DESCRIPTION:
  Ebullitive (2:52)
  FluxSeparator (2:8)
  ebullitive (12:42)

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following (possibly) invalid DOIs:
  DOI: https://doi.org/10.5281/zenodo.8297154
    From: inst/CITATION
    Status: 404
    Message: Not Found

The Title field starts with the package name.
* checking package namespace information ... OK
* checking package dependencies ... INFO
Depends: includes the non-default packages:
  'broom', 'devtools', 'dplyr', 'ggplot2', 'ggpubr', 'HMR',
  'lubridate', 'purrr', 'readr', 'stringr', 'tidyr', 'TTR'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'FluxSeparator' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... NOTE
Authors@R field gives persons with duplicated ORCID identifiers:
  https://orcid.org/0000-0002-9760-2571
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... WARNING
Found the following file with non-ASCII characters:
  R/ignored.R
Portable packages must use only ASCII characters in their R code and
NAMESPACE directives, except perhaps in comments.
Use \uxxxx escapes for other characters.
Function 'tools::showNonASCIIfile' can help in finding non-ASCII
characters in files.
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [15s] NOTE
diffusive_flux: no visible binding for global variable 'PumpCycle'
diffusive_flux: no visible binding for global variable
  'obs_in_PumpCycle'
diffusive_flux: no visible global function definition for 'runMean'
diffusive_flux: no visible binding for global variable
  'concentration_raw'
diffusive_flux: no visible binding for global variable
  'concentration_smooth'
diffusive_flux: no visible binding for global variable 'concentration'
diffusive_flux: no visible binding for '<<-' assignment to
  'running_var_diff'
diffusive_flux: no visible binding for global variable '.'
diffusive_flux: no visible binding for global variable 'run_var5'
diffusive_flux: no visible binding for global variable 'datetime'
diffusive_flux: no visible binding for global variable 'time_diff'
diffusive_flux: no visible binding for global variable 'gruppering'
diffusive_flux: no visible binding for global variable
  'running_var_diff'
diffusive_flux: no visible binding for '<<-' assignment to
  'bubbles_diff'
diffusive_flux: no visible binding for global variable 'min_grp'
diffusive_flux: no visible binding for '<<-' assignment to 'dif_check'
diffusive_flux: no visible binding for global variable 'model'
diffusive_flux: no visible binding for global variable 'term'
diffusive_flux: no visible binding for global variable 'model_summary'
diffusive_flux: no visible binding for global variable 'datetime_start'
diffusive_flux: no visible binding for global variable 'datetime_end'
diffusive_flux: no visible binding for global variable 'start_value'
diffusive_flux: no visible binding for global variable
  'n_obs_included_in_lm'
diffusive_flux: no visible binding for global variable 'estimate'
diffusive_flux: no visible binding for global variable 'std.error'
diffusive_flux: no visible binding for global variable
  'slope_concentration_hr'
diffusive_flux: no visible binding for global variable
  'slope_standard_error'
diffusive_flux: no visible binding for global variable 'p.value'
diffusive_flux: no visible binding for global variable 'temp'
diffusive_flux: no visible binding for global variable 'r2'
diffusive_flux: no visible global function definition for 'write_csv'
diffusive_flux: no visible global function definition for 'separate'
diffusive_flux: no visible binding for global variable 'Series'
diffusive_flux: no visible binding for global variable 'f0'
diffusive_flux: no visible binding for global variable 'f0.up95'
diffusive_flux: no visible global function definition for
  'parse_number'
diffusive_flux: no visible binding for global variable 'Method'
diffusive_flux: no visible binding for global variable 'f0.se'
diffusive_flux: no visible binding for global variable 'f0.p'
diffusive_flux: no visible binding for global variable 'f0.lo95'
diffusive_flux: no visible binding for global variable 'method'
diffusive_flux: no visible binding for global variable 'hmr_slope'
diffusive_flux: no visible binding for global variable 'dif_check'
diffusive_flux: no visible binding for global variable 'plot_number'
ebullitive_flux: no visible binding for global variable 'PumpCycle'
ebullitive_flux: no visible binding for global variable 'sensor'
ebullitive_flux: no visible binding for global variable
  'obs_in_PumpCycle'
ebullitive_flux: no visible global function definition for 'runMean'
ebullitive_flux: no visible binding for global variable
  'concentration_raw'
ebullitive_flux: no visible binding for global variable
  'concentration_smooth'
ebullitive_flux: no visible binding for global variable 'datetime'
ebullitive_flux: no visible binding for global variable 'concentration'
ebullitive_flux: no visible binding for global variable 'run_var5'
ebullitive_flux: no visible binding for global variable 'time_diff'
ebullitive_flux: no visible binding for global variable 'gruppering'
ebullitive_flux: no visible binding for global variable
  'PumpCycle_Timediff'
ebullitive_flux: no visible binding for global variable 'tempC'
ebullitive_flux: no visible binding for global variable
  'PumpCycle_Timediff_hr'
ebullitive_flux: no visible binding for global variable
  'top_concentration'
ebullitive_flux: no visible binding for global variable
  'min_concentration'
ebullitive_flux: no visible binding for global variable
  'concentration_diff'
ebullitive_flux: no visible binding for global variable 'min_datetime'
ebullitive_flux: no visible binding for global variable 'max_datetime'
ebullitive_flux: no visible binding for global variable 'sum_bobler'
ebullitive_flux: no visible binding for global variable 'n_bobler'
ebullitive_flux: no visible binding for global variable 'temp'
ebullitive_flux: no visible binding for global variable 'n_bubbles'
ebullitive_flux: no visible binding for global variable
  'pumpcycle_duration_hr'
ebullitive_flux: no visible binding for global variable
  'sum_bubbles_concentration'
ebullitive_flux: no visible binding for global variable
  'datetime_start'
ebullitive_flux: no visible binding for global variable 'datetime_end'
ebullitive_flux: no visible binding for global variable
  'concentration_per_time'
ebullitive_flux: no visible binding for global variable 'plot_number'
ebullitive_flux: no visible binding for global variable
  'datetime_bubbles'
read_CH4_files: no visible binding for global variable 'model_coef'
read_CH4_files: no visible binding for global variable 'path'
read_CH4_files: no visible global function definition for 'col_double'
read_CH4_files: no visible global function definition for
  'col_character'
read_CH4_files: no visible binding for global variable 'datetime'
read_CH4_files: no visible binding for global variable 'tempC'
read_CH4_files: no visible binding for global variable 'RH'
read_CH4_files: no visible binding for global variable 'abs_H'
read_CH4_files: no visible binding for global variable 'g'
read_CH4_files: no visible binding for global variable 'S'
read_CH4_files: no visible binding for global variable 'CH4smV'
read_CH4_files: no visible binding for global variable 'V0'
read_CH4_files: no visible binding for global variable 'a'
read_CH4_files: no visible binding for global variable 'RsR0'
read_CH4_files: no visible binding for global variable 'b'
read_CH4_files: no visible binding for global variable 'K'
read_CH4_files: no visible binding for global variable 'K33_RH'
read_CH4_files: no visible binding for global variable '.'
read_CH4_files: no visible binding for global variable 'pred_CH4'
read_CH4_files: no visible binding for global variable 'sensor'
Undefined global functions or variables:
  . CH4smV K K33_RH Method PumpCycle PumpCycle_Timediff
  PumpCycle_Timediff_hr RH RsR0 S Series V0 a abs_H b col_character
  col_double concentration concentration_diff concentration_per_time
  concentration_raw concentration_smooth datetime datetime_bubbles
  datetime_end datetime_start dif_check estimate f0 f0.lo95 f0.p f0.se
  f0.up95 g gruppering hmr_slope max_datetime method min_concentration
  min_datetime min_grp model model_coef model_summary n_bobler
  n_bubbles n_obs_included_in_lm obs_in_PumpCycle p.value parse_number
  path plot_number pred_CH4 pumpcycle_duration_hr r2 runMean run_var5
  running_var_diff sensor separate slope_concentration_hr
  slope_standard_error start_value std.error sum_bobler
  sum_bubbles_concentration temp tempC term time_diff top_concentration
  write_csv

Found the following calls to data() loading into the global environment:
File 'FluxSeparator/R/DIY_sensor_data.R':
  data(DIY_sensor_data)
See section 'Good practice' in '?data'.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'diffusive_flux.Rd':
  \examples lines wider than 100 characters:
       diffusive_flux(cutoff_start_value = 450) # 450 would be good for CO2, while 5 could be good for CH4

Rd file 'ppm_to_umol.Rd':
  \examples lines wider than 100 characters:
      diffusive_flux(cutoff_start_value = 5) %>%  # 450 would be good for CO2, while 5 could be good for CH4

These lines will be truncated in the PDF manual.
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking examples ... OK
* checking PDF version of manual ... [20s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 WARNING, 4 NOTEs