* using log directory ‘/srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck’ * using R Under development (unstable) (2025-08-21 r88668) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 19.1.7 (3+b1) Debian flang-new version 19.1.7 (3+b1) * running under: Debian GNU/Linux forky/sid * using session charset: UTF-8 * checking for file ‘CTxCC/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘CTxCC’ version ‘0.3.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/4s] OK * 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 ‘CTxCC’ can be installed ... [3s/3s] WARNING Found the following significant warnings: Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:34: unexpected section header '\references' Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:37: unexpected section header '\author' Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:43: unexpected section header '\note' Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:49: unexpected section header '\seealso' Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:52: unexpected section header '\examples' Warning: /srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00_pkg_src/CTxCC/man/CTXoptim.Rd:75: unexpected END_OF_INPUT ' See ‘/srv/hornik/tmp/CRAN_pretest/CTxCC.Rcheck/00install.out’ for details. * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... NOTE Maintainer field differs from that derived from Authors@R Maintainer: ‘Dr. Diana Barraza-Barraza ’ Authors@R: ‘Diana Barraza-Barraza ’ * 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 ... WARNING 'library' or 'require' calls not declared from: ‘dplyr’ ‘ggplot2’ 'library' or 'require' calls in package code: ‘dplyr’ ‘ggplot2’ Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [5s/5s] NOTE contributionplot: no visible global function definition for ‘%>%’ contributionplot: no visible global function definition for ‘arrange’ contributionplot: no visible global function definition for ‘desc’ contributionplot: no visible binding for global variable ‘contribution’ contributionplot: no visible global function definition for ‘mutate’ contributionplot: no visible binding for global variable ‘percentage’ contributionplot: no visible global function definition for ‘colorRampPalette’ contributionplot: no visible global function definition for ‘ggplot’ contributionplot: no visible global function definition for ‘aes’ contributionplot: no visible binding for global variable ‘variables’ contributionplot: no visible global function definition for ‘geom_col’ contributionplot: no visible global function definition for ‘geom_line’ contributionplot: no visible binding for global variable ‘ScaledSecondaryValue’ contributionplot: no visible global function definition for ‘geom_point’ contributionplot: no visible binding for global variable ‘Label’ contributionplot: no visible global function definition for ‘geom_text’ contributionplot: no visible global function definition for ‘scale_y_continuous’ contributionplot: no visible global function definition for ‘sec_axis’ contributionplot: no visible global function definition for ‘expansion’ contributionplot: no visible global function definition for ‘scale_shape_manual’ contributionplot: no visible global function definition for ‘scale_color_manual’ contributionplot: no visible global function definition for ‘labs’ contributionplot: no visible global function definition for ‘scale_fill_manual’ contributionplot: no visible global function definition for ‘theme_minimal’ contributionplot: no visible global function definition for ‘theme’ contributionplot: no visible global function definition for ‘element_text’ Undefined global functions or variables: %>% Label ScaledSecondaryValue aes arrange colorRampPalette contribution desc element_text expansion geom_col geom_line geom_point geom_text ggplot labs mutate percentage scale_color_manual scale_fill_manual scale_shape_manual scale_y_continuous sec_axis theme theme_minimal variables Consider adding importFrom("grDevices", "colorRampPalette") to your NAMESPACE file. * checking Rd files ... [0s/0s] WARNING prepare_Rd: ./man/CTXoptim.Rd:34: unexpected section header '\references' prepare_Rd: ./man/CTXoptim.Rd:37: unexpected section header '\author' prepare_Rd: ./man/CTXoptim.Rd:43: unexpected section header '\note' prepare_Rd: ./man/CTXoptim.Rd:49: unexpected section header '\seealso' prepare_Rd: ./man/CTXoptim.Rd:52: unexpected section header '\examples' prepare_Rd: ./man/CTXoptim.Rd:75: unexpected END_OF_INPUT ' ' checkRd: (-1) CTXoptim.Rd:27: Escaped LaTeX specials: \_ checkRd: (-1) CTXoptim.Rd:34-36: Lost braces 34 | \references{ | ^ checkRd: (-1) CTXoptim.Rd:37-42: Lost braces 37 | \author{ | ^ checkRd: (-1) CTXoptim.Rd:43-45: Lost braces 43 | \note{ | ^ checkRd: (-1) CTXoptim.Rd:49-51: Lost braces 49 | \seealso{ | ^ checkRd: (-1) CTXoptim.Rd:52-65: Lost braces 52 | \examples{ | ^ prepare_Rd: contributionplot.Rd:21-23: Dropping empty section \details prepare_Rd: contributionplot.Rd:36-38: Dropping empty section \note prepare_Rd: contributionplot.Rd:42-44: Dropping empty section \seealso * 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 ... WARNING Codoc mismatches from Rd file 'CTXoptim.Rd': CTXoptim Code: function(delta, R, alpha) Docs: function(x) Argument names in code not in docs: delta R alpha Argument names in docs not in code: x Mismatches in argument names: Position: 1 Code: delta Docs: x * checking Rd \usage sections ... WARNING Undocumented arguments in Rd file 'CTXoptim.Rd' ‘x’ Documented arguments not in \usage in Rd file 'CTXoptim.Rd': ‘delta’ ‘R’ ‘alpha’ 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 examples ... [3s/3s] OK * checking PDF version of manual ... [3s/3s] 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: 5 WARNINGs, 2 NOTEs