* using log directory ‘/srv/hornik/tmp/CRAN_pretest/AeRobiology.Rcheck’ * using R Under development (unstable) (2026-02-09 r89390) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 21.1.8 (1+b1) Debian flang version 21.1.8 (1+b1) * running under: Debian GNU/Linux forky/sid * using session charset: UTF-8 * current time: 2026-02-10 16:14:09 UTC * checking for file ‘AeRobiology/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘AeRobiology’ version ‘2.0.2’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/5s] NOTE Maintainer: ‘Jose Oteros ’ Found the following (possibly) invalid URLs: URL: https://link.springer.com/article/10.1007%2Fs10453-014-9345-3 (moved to https://link.springer.com/article/10.1007/s10453-014-9345-3) From: inst/doc/my-vignette.html Status: 301 Message: Moved Permanently URL: https://www.ncbi.nlm.nih.gov/pubmed/18247462 (moved to https://pubmed.ncbi.nlm.nih.gov/18247462/) From: inst/doc/my-vignette.html Status: 301 Message: Moved Permanently URL: https://www.ncbi.nlm.nih.gov/pubmed/27874202 (moved to https://pubmed.ncbi.nlm.nih.gov/27874202/) From: inst/doc/my-vignette.html Status: 301 Message: Moved Permanently For content that is 'Moved Permanently', please change http to https, add trailing slashes, or replace the old by the new URL. * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking serialization versions ... OK * checking whether package ‘AeRobiology’ can be installed ... [7s/7s] OK * checking package directory ... OK * checking for future file timestamps ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * 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 ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] 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 ... [11s/11s] NOTE Found if() conditions comparing class() to string: File ‘AeRobiology/R/analyse_trend.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(split) != "logical") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(quantil) != "numeric") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(significant) != "numeric") ... File ‘AeRobiology/R/analyse_trend.R’: if (class(modelobject) != "lm") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(export.result) != "logical") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(th.day) != "numeric" | th.day < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(perc) != "numeric" | perc < 0 | perc > 100) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(reduction) != "logical") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(red.level) != "numeric" | red.level < 0 | red.level > 1) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(man) != "numeric" | man < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(th.ma) != "numeric" | th.ma < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(plot) != "logical") ... File ‘AeRobiology/R/calculate_ps.R’: if (class(n.clinical) != "numeric" | n.clinical < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(window.clinical) != "numeric" | window.clinical < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(window.grains) != "numeric" | window.grains < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(th.pollen) != "numeric" | th.pollen < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(th.sum) != "numeric" | th.sum < 0) ... File ‘AeRobiology/R/calculate_ps.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/interpollen.R’: if (class(maxdays) != "numeric") ... File ‘AeRobiology/R/interpollen.R’: if (class(maxdays) != "numeric" | maxdays%%1 != 0 | maxdays <= 0) ... File ‘AeRobiology/R/interpollen.R’: if (class(method) != "character") ... File ‘AeRobiology/R/interpollen.R’: if (class(factor) != "numeric") ... File ‘AeRobiology/R/interpollen.R’: if (class(ndays) != "numeric" | ndays%%1 != 0) ... File ‘AeRobiology/R/interpollen.R’: if (class(spar) != "numeric" | spar <= 0 | spar > 1) ... File ‘AeRobiology/R/interpollen.R’: if (class(data) != "data.frame" & !is.null(data)) ... File ‘AeRobiology/R/interpollen.R’: if (class(data2) != "data.frame" & !is.null(data2)) ... File ‘AeRobiology/R/interpollen.R’: if (class(data3) != "data.frame" & !is.null(data3)) ... File ‘AeRobiology/R/interpollen.R’: if (class(data4) != "data.frame" & !is.null(data4)) ... File ‘AeRobiology/R/interpollen.R’: if (class(data5) != "data.frame" & !is.null(data5)) ... File ‘AeRobiology/R/interpollen.R’: if (class(regresion) == "data.frame") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(n.types) != "numeric") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(y.start) != "numeric" & !is.null(y.start)) ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(y.end) != "numeric" & !is.null(y.end)) ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(col.bar) != "character") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/iplot_abundance.R’: if (class(exclude) != "character" & !is.null(exclude)) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(n.types) != "numeric") ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(th.day) != "numeric" | th.day < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(perc) != "numeric" | perc < 0 | perc > 100) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(reduction) != "logical") ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(red.level) != "numeric" | red.level < 0 | red.level > 1) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(man) != "numeric" | man < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(th.ma) != "numeric" | th.ma < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(n.clinical) != "numeric" | n.clinical < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(window.clinical) != "numeric" | window.clinical < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(window.grains) != "numeric" | window.grains < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(th.pollen) != "numeric" | th.pollen < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(th.sum) != "numeric" | th.sum < 0) ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/iplot_pheno.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/iplot_pollen.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/iplot_pollen.R’: if (class(year) != "numeric") ... File ‘AeRobiology/R/iplot_pollen.R’: if (class(data[, 1]) != "Date" & !is.POSIXt(data[, 1])) ... File ‘AeRobiology/R/iplot_years.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/iplot_years.R’: if (class(pollen) != "character") ... File ‘AeRobiology/R/plot_heathour.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/plot_heathour.R’: if (class(locations) != "logical") ... File ‘AeRobiology/R/plot_heathour.R’: if (class(low.col) != "character") ... File ‘AeRobiology/R/plot_heathour.R’: if (class(mid.col) != "character") ... File ‘AeRobiology/R/plot_heathour.R’: if (class(high.col) != "character") ... File ‘AeRobiology/R/plot_hour.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/plot_hour.R’: if (class(locations) != "logical") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(pollen) != "character") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(axisname) != "character") ... File ‘AeRobiology/R/plot_normsummary.R’: if (class(color.plot) != "character") ... File ‘AeRobiology/R/plot_ps.R’: if (class(axisname) != "expression" & class(axisname) != "character") ... File ‘AeRobiology/R/plot_ps.R’: if (class(fill.col) != "character") ... File ‘AeRobiology/R/plot_ps.R’: if (class(data) != "data.frame" & !is.null(data)) ... File ‘AeRobiology/R/plot_ps.R’: if (class(pollen.type) != "character") ... File ‘AeRobiology/R/plot_ps.R’: if (class(year) != "numeric") ... File ‘AeRobiology/R/plot_ps.R’: if (class(days) != "numeric") ... File ‘AeRobiology/R/plot_summary.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/plot_summary.R’: if (class(pollen) != "character") ... File ‘AeRobiology/R/plot_summary.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/plot_summary.R’: if (class(axisname) != "character") ... File ‘AeRobiology/R/plot_trend.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/plot_trend.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/plot_trend.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/plot_trend.R’: if (class(modelobject) != "lm") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(data) != "data.frame") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(n.types) != "numeric") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(start.month) != "numeric" | ((start.month %in% c(1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12)) == FALSE)) ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(y.start) != "numeric" & !is.null(y.start)) ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(y.end) != "numeric" & !is.null(y.end)) ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(perc1) != "numeric" | perc1 < 0 | perc1 > 100) ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(perc2) != "numeric" | perc2 < 0 | perc2 > 100) ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(th.pollen) != "numeric") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(n.classes) != "numeric") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(classes) != "numeric") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(interpolation) != "logical") ... File ‘AeRobiology/R/pollen_calendar.R’: if (class(export.plot) != "logical") ... File ‘AeRobiology/R/quality_control.R’: if (class(data) != "data.frame" & !is.null(data)) ... File ‘AeRobiology/R/quality_control.R’: if (class(int.window) != "numeric" | int.window%%1 != 0) ... File ‘AeRobiology/R/quality_control.R’: if (class(perc.miss) != "numeric") ... Use inherits() (or maybe is()) instead. * checking Rd files ... [0s/0s] OK * checking Rd metadata ... OK * checking Rd line widths ... OK * 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 ... [0s/0s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [19s/19s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [2s/2s] OK Running ‘testthat.R’ [1s/1s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [55s/56s] OK * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [2s/2s] OK * checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘table_AeRobiology’ * checking for detritus in the temp directory ... OK * DONE Status: 3 NOTEs