* using log directory ‘/srv/hornik/tmp/CRAN/iwaqr.Rcheck’ * using R Under development (unstable) (2024-02-15 r85925) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 17.0.6 (5) Debian flang-new version 17.0.6 (5) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘iwaqr/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘iwaqr’ version ‘1.8.4’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/3s] WARNING Maintainer: ‘Wajdi Ali, ’ The display-name part of the maintainer field should be enclosed in "" New submission Possibly misspelled words in DESCRIPTION: Doneen (7:143) USSL (7:114) ggplot (7:248) ggthemes (7:260) The Title field should be in title case. Current version is: ‘IRRIGATION WATER QUALITY ASSESSMENT AND VISUALIZATIONS’ In title case that is: ‘IRRIGATION WATER QUALITY ASSESSMENT and VISUALIZATIONS’ The Description field should not start with the package name, 'This package' or similar. * 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 ‘iwaqr’ can be installed ... [1s/1s] 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 R files for non-ASCII characters ... WARNING Found the following files with non-ASCII characters: plot_Riverside.R plot_USSL.R plot_Wilcox.R Portable packages must use only ASCII characters in their R code, except perhaps in comments. Use \uxxxx escapes for other characters. * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... WARNING '::' or ':::' import not declared from: ‘scales’ * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [3s/3s] NOTE plot_DoneenH: no visible global function definition for ‘ggplot’ plot_DoneenH: no visible global function definition for ‘aes’ plot_DoneenH: no visible binding for global variable ‘tc’ plot_DoneenH: no visible global function definition for ‘geom_point’ plot_DoneenH: no visible global function definition for ‘geom_line’ plot_DoneenH: no visible binding for global variable ‘x’ plot_DoneenH: no visible binding for global variable ‘y_normalized’ plot_DoneenH: no visible global function definition for ‘labs’ plot_DoneenH: no visible global function definition for ‘theme_few’ plot_DoneenH: no visible global function definition for ‘theme’ plot_DoneenH: no visible global function definition for ‘element_text’ plot_DoneenH: no visible global function definition for ‘margin’ plot_DoneenH: no visible global function definition for ‘scale_x_continuous’ plot_DoneenH: no visible global function definition for ‘scale_y_continuous’ plot_DoneenH: no visible global function definition for ‘geom_vline’ plot_DoneenH: no visible global function definition for ‘annotate’ plot_DoneenH: no visible global function definition for ‘geom_text_repel’ plot_DoneenH: no visible global function definition for ‘scale_color_manual’ plot_DoneenL: no visible global function definition for ‘ggplot’ plot_DoneenL: no visible global function definition for ‘aes’ plot_DoneenL: no visible binding for global variable ‘tc’ plot_DoneenL: no visible global function definition for ‘geom_point’ plot_DoneenL: no visible global function definition for ‘geom_line’ plot_DoneenL: no visible binding for global variable ‘x’ plot_DoneenL: no visible binding for global variable ‘y_normalized’ plot_DoneenL: no visible global function definition for ‘labs’ plot_DoneenL: no visible global function definition for ‘theme_few’ plot_DoneenL: no visible global function definition for ‘theme’ plot_DoneenL: no visible global function definition for ‘element_text’ plot_DoneenL: no visible global function definition for ‘margin’ plot_DoneenL: no visible global function definition for ‘scale_x_continuous’ plot_DoneenL: no visible global function definition for ‘scale_y_continuous’ plot_DoneenL: no visible global function definition for ‘geom_vline’ plot_DoneenL: no visible global function definition for ‘annotate’ plot_DoneenL: no visible global function definition for ‘geom_text_repel’ plot_DoneenL: no visible global function definition for ‘scale_color_manual’ plot_DoneenM: no visible global function definition for ‘ggplot’ plot_DoneenM: no visible global function definition for ‘aes’ plot_DoneenM: no visible binding for global variable ‘tc’ plot_DoneenM: no visible global function definition for ‘geom_point’ plot_DoneenM: no visible global function definition for ‘labs’ plot_DoneenM: no visible global function definition for ‘theme_few’ plot_DoneenM: no visible global function definition for ‘theme’ plot_DoneenM: no visible global function definition for ‘element_text’ plot_DoneenM: no visible global function definition for ‘margin’ plot_DoneenM: no visible global function definition for ‘scale_x_continuous’ plot_DoneenM: no visible global function definition for ‘scale_y_continuous’ plot_DoneenM: no visible global function definition for ‘geom_vline’ plot_DoneenM: no visible global function definition for ‘geom_line’ plot_DoneenM: no visible binding for global variable ‘x’ plot_DoneenM: no visible binding for global variable ‘y_normalized’ plot_DoneenM: no visible global function definition for ‘annotate’ plot_DoneenM: no visible global function definition for ‘geom_text_repel’ plot_DoneenM: no visible global function definition for ‘scale_color_manual’ plot_Riverside: no visible global function definition for ‘ggplot’ plot_Riverside: no visible global function definition for ‘aes’ plot_Riverside: no visible binding for global variable ‘EC’ plot_Riverside: no visible global function definition for ‘geom_point’ plot_Riverside: no visible global function definition for ‘geom_line’ plot_Riverside: no visible binding for global variable ‘SAR1’ plot_Riverside: no visible binding for global variable ‘SAR2’ plot_Riverside: no visible binding for global variable ‘SAR3’ plot_Riverside: no visible global function definition for ‘labs’ plot_Riverside: no visible global function definition for ‘theme_few’ plot_Riverside: no visible global function definition for ‘theme’ plot_Riverside: no visible global function definition for ‘element_text’ plot_Riverside: no visible global function definition for ‘margin’ plot_Riverside: no visible global function definition for ‘scale_x_continuous’ plot_Riverside: no visible global function definition for ‘annotation_logticks’ plot_Riverside: no visible global function definition for ‘scale_y_continuous’ plot_Riverside: no visible global function definition for ‘geom_vline’ plot_Riverside: no visible global function definition for ‘geom_hline’ plot_Riverside: no visible global function definition for ‘geom_rect’ plot_Riverside: no visible global function definition for ‘annotate’ plot_Riverside: no visible global function definition for ‘geom_text_repel’ plot_Riverside: no visible global function definition for ‘scale_color_manual’ plot_USSL: no visible global function definition for ‘ggplot’ plot_USSL: no visible global function definition for ‘aes’ plot_USSL: no visible binding for global variable ‘EC’ plot_USSL: no visible global function definition for ‘geom_point’ plot_USSL: no visible global function definition for ‘geom_line’ plot_USSL: no visible binding for global variable ‘SAR1’ plot_USSL: no visible binding for global variable ‘SAR2’ plot_USSL: no visible binding for global variable ‘SAR3’ plot_USSL: no visible global function definition for ‘labs’ plot_USSL: no visible global function definition for ‘theme_few’ plot_USSL: no visible global function definition for ‘theme’ plot_USSL: no visible global function definition for ‘element_text’ plot_USSL: no visible global function definition for ‘margin’ plot_USSL: no visible global function definition for ‘scale_x_continuous’ plot_USSL: no visible global function definition for ‘annotation_logticks’ plot_USSL: no visible global function definition for ‘scale_y_continuous’ plot_USSL: no visible global function definition for ‘geom_vline’ plot_USSL: no visible global function definition for ‘geom_hline’ plot_USSL: no visible global function definition for ‘geom_rect’ plot_USSL: no visible global function definition for ‘annotate’ plot_USSL: no visible global function definition for ‘geom_text_repel’ plot_USSL: no visible global function definition for ‘scale_color_manual’ plot_Wilcox: no visible global function definition for ‘ggplot’ plot_Wilcox: no visible global function definition for ‘aes’ plot_Wilcox: no visible binding for global variable ‘EC’ plot_Wilcox: no visible binding for global variable ‘Na_percent’ plot_Wilcox: no visible global function definition for ‘geom_point’ plot_Wilcox: no visible global function definition for ‘annotate’ plot_Wilcox: no visible global function definition for ‘geom_segment’ plot_Wilcox: no visible global function definition for ‘labs’ plot_Wilcox: no visible global function definition for ‘theme_few’ plot_Wilcox: no visible global function definition for ‘theme’ plot_Wilcox: no visible global function definition for ‘element_text’ plot_Wilcox: no visible global function definition for ‘margin’ plot_Wilcox: no visible global function definition for ‘scale_x_continuous’ plot_Wilcox: no visible global function definition for ‘scale_y_continuous’ plot_Wilcox: no visible global function definition for ‘geom_text_repel’ plot_Wilcox: no visible global function definition for ‘scale_color_manual’ Undefined global functions or variables: EC Na_percent SAR1 SAR2 SAR3 aes annotate annotation_logticks element_text geom_hline geom_line geom_point geom_rect geom_segment geom_text_repel geom_vline ggplot labs margin scale_color_manual scale_x_continuous scale_y_continuous tc theme theme_few x y_normalized * checking Rd files ... [0s/0s] OK * checking Rd metadata ... OK * checking Rd line widths ... NOTE Rd file 'plot_DoneenH.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) Rd file 'plot_DoneenL.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) Rd file 'plot_DoneenM.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) Rd file 'plot_Riverside.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) Rd file 'plot_USSL.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) Rd file 'plot_Wilcox.Rd': \examples lines wider than 100 characters: df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) These lines will be truncated in the PDF manual. * checking Rd cross-references ... OK * checking for missing documentation entries ... WARNING Undocumented code objects: ‘CC’ ‘calculate_tc’ All user-level objects in a package should have documentation entries. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... WARNING Undocumented arguments in Rd file 'calculate_Napercent.Rd' ‘df’ ‘convert_units’ Undocumented arguments in Rd file 'calculate_PI.Rd' ‘df’ ‘convert_units’ Undocumented arguments in Rd file 'calculate_sar.Rd' ‘df’ ‘convert_units’ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [0s/0s] ERROR Running examples in ‘iwaqr-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot_DoneenH > ### Title: Plot Doneen diagram (High permeability) for all rows > ### Aliases: plot_DoneenH > > ### ** Examples > > df <- data.frame(EC = c(1000, 2000, 3000), Na_percent = c(20, 30, 40), Color = c("red", "green", "blue")) > plot_Wilcox(df, "EC", "Na_percent", "Label", "Group") Error in ggplot(plot_data, aes(x = EC, y = Na_percent)) : could not find function "ggplot" Calls: plot_Wilcox Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [1s/1s] OK * checking PDF version of manual ... [3s/2s] OK * checking HTML version of manual ... [0s/0s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR, 5 WARNINGs, 2 NOTEs