* using log directory ‘/srv/hornik/tmp/CRAN/rQSAR.Rcheck’ * using R Under development (unstable) (2024-03-25 r86192) * 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 ‘rQSAR/DESCRIPTION’ ... OK * this is package ‘rQSAR’ version ‘1.0.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/3s] NOTE Maintainer: ‘Oche Ambrose George ’ New submission Possibly misspelled words in DESCRIPTION: MLR (2:48, 8:396) QSAR (2:8, 8:60, 8:348) rQSAR (8:280) * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'rcdk', 'ggplot2', 'caret', 'pls', 'randomForest', 'tibble', 'gridExtra', 'leaps', 'corrplot', 'dplyr' 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 executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘rQSAR’ can be installed ... [8s/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 ... [3s/2s] OK * checking whether the package can be loaded with stated dependencies ... [2s/2s] OK * checking whether the package can be unloaded cleanly ... [3s/2s] OK * checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK * checking whether the namespace can be unloaded cleanly ... [3s/2s] OK * checking loading without being on the library search path ... [3s/2s] 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/10s] NOTE build_qsar_models: no visible global function definition for ‘createFolds’ correlation_plots : : no visible global function definition for ‘ggplot’ correlation_plots : : no visible global function definition for ‘aes’ correlation_plots : : no visible binding for global variable ‘Predicted’ correlation_plots : : no visible binding for global variable ‘Actual’ correlation_plots : : no visible global function definition for ‘geom_point’ correlation_plots : : no visible global function definition for ‘geom_smooth’ correlation_plots : : no visible global function definition for ‘labs’ correlation_plots : : no visible global function definition for ‘theme_minimal’ generate_descriptors_from_sdf: no visible global function definition for ‘load.molecules’ generate_descriptors_from_sdf: no visible global function definition for ‘get.desc.names’ generate_descriptors_from_sdf: no visible global function definition for ‘eval.desc’ residual_plots : : no visible global function definition for ‘ggplot’ residual_plots : : no visible global function definition for ‘aes’ residual_plots : : no visible binding for global variable ‘Predicted’ residual_plots : : no visible binding for global variable ‘Residuals’ residual_plots : : no visible global function definition for ‘geom_point’ residual_plots : : no visible global function definition for ‘geom_hline’ residual_plots : : no visible global function definition for ‘labs’ residual_plots : : no visible global function definition for ‘theme_minimal’ Undefined global functions or variables: Actual Predicted Residuals aes createFolds eval.desc geom_hline geom_point geom_smooth get.desc.names ggplot labs load.molecules theme_minimal * 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... NONE * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [3s/2s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘QSAR_Tutorials.Rmd’ using rmarkdown Quitting from lines 35-42 [unnamed-chunk-1] (QSAR_Tutorials.Rmd) Error: processing vignette 'QSAR_Tutorials.Rmd' failed with diagnostics: D:/QSAR DATA/rQSAR/inst/sample.sdf: Does not exist --- failed re-building ‘QSAR_Tutorials.Rmd’ SUMMARY: processing the following file failed: ‘QSAR_Tutorials.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [2s/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, 3 NOTEs