* using log directory 'd:/RCompile/CRANincoming/R-devel/MLSP.Rcheck' * using R Under development (unstable) (2025-09-15 r88837 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 'MLSP/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'MLSP' version '0.1.0' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Pengyuan Chen ' New submission * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'MLSP' can be installed ... WARNING Found the following significant warnings: Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/cubist_preprocess.Rd:24: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/cubist_preprocess.Rd:28: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/cubist_preprocess.Rd:46: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/cubist_preprocess.Rd:50: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/cubist_preprocess.Rd:54: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/lasso_preprocess.Rd:24: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/lasso_preprocess.Rd:28: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/lasso_preprocess.Rd:46: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/lasso_preprocess.Rd:50: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/lasso_preprocess.Rd:54: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/ml_f.Rd:22: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/ml_f.Rd:26: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/ml_f.Rd:40: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/ml_f.Rd:44: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/ml_f.Rd:50: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/pcr_preprocess.Rd:24: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/pcr_preprocess.Rd:28: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/pcr_preprocess.Rd:46: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/pcr_preprocess.Rd:50: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/pcr_preprocess.Rd:54: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/plsr_preprocess.Rd:24: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/plsr_preprocess.Rd:28: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/plsr_preprocess.Rd:46: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/plsr_preprocess.Rd:50: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/plsr_preprocess.Rd:54: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/results.Rd:16: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/results.Rd:20: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/results.Rd:34: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/results.Rd:38: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/results.Rd:43: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/rf_preprocess.Rd:24: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/rf_preprocess.Rd:28: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/rf_preprocess.Rd:46: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/rf_preprocess.Rd:50: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/rf_preprocess.Rd:54: unexpected END_OF_INPUT ' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/sg.Rd:14: unexpected section header '\details' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/sg.Rd:18: unexpected section header '\value' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/sg.Rd:22: unexpected section header '\references' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/sg.Rd:26: unexpected section header '\examples' Warning: D:/temp/2025_09_16_01_40_17_31991/RtmpqeKijj/R.INSTALLf7882de522ed/MLSP/man/sg.Rd:32: unexpected END_OF_INPUT ' See 'd:/RCompile/CRANincoming/R-devel/MLSP.Rcheck/00install.out' for details. * checking installed package size ... OK * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... NOTE Non-standard file/directory found at top level: 'MLSP.Rproj' * 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 ... 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 ... NOTE cubist_preprocess: no visible global function definition for 'cubist' cubist_preprocess: no visible global function definition for 'predict' lasso_preprocess: no visible global function definition for 'cv.glmnet' lasso_preprocess: no visible global function definition for 'glmnet' lasso_preprocess: no visible global function definition for 'predict' merge_of_lab_and_spectrum: no visible global function definition for 'aggregate' ml_f: no visible binding for global variable 'spectral_data' ml_f: no visible binding for global variable 'lab_data_in_vector' msd.comp: no visible global function definition for 'cor' msd.comp: no visible global function definition for 'lm' msd.comp: no visible global function definition for 'coefficients' msd.comp: no visible global function definition for 'var' msd.comp: no visible global function definition for 'sd' msd.comp: no visible global function definition for 'quantile' pcr_preprocess: no visible global function definition for 'pcr' pcr_preprocess: no visible global function definition for 'predict' plsr_preprocess: no visible global function definition for 'plsr' plsr_preprocess: no visible global function definition for 'predict' rf_preprocess: no visible global function definition for 'randomForest' rf_preprocess: no visible global function definition for 'predict' sg.c.11.0: no visible binding for global variable 'sgolayfilt' sg.c.11.1: no visible binding for global variable 'sgolayfilt' sg.c.11.2: no visible binding for global variable 'sgolayfilt' sg.c.5.0: no visible binding for global variable 'sgolayfilt' sg.c.5.1: no visible binding for global variable 'sgolayfilt' sg.c.5.2: no visible binding for global variable 'sgolayfilt' sg.c.7.0: no visible binding for global variable 'sgolayfilt' sg.c.7.1: no visible binding for global variable 'sgolayfilt' sg.c.7.2: no visible binding for global variable 'sgolayfilt' sg.c.9.0: no visible binding for global variable 'sgolayfilt' sg.c.9.1: no visible binding for global variable 'sgolayfilt' sg.c.9.2: no visible binding for global variable 'sgolayfilt' sg.l.11.0: no visible binding for global variable 'sgolayfilt' sg.l.11.1: no visible binding for global variable 'sgolayfilt' sg.l.3.0: no visible binding for global variable 'sgolayfilt' sg.l.3.1: no visible binding for global variable 'sgolayfilt' sg.l.5.0: no visible binding for global variable 'sgolayfilt' sg.l.5.1: no visible binding for global variable 'sgolayfilt' sg.l.7.0: no visible binding for global variable 'sgolayfilt' sg.l.7.1: no visible binding for global variable 'sgolayfilt' sg.l.9.0: no visible binding for global variable 'sgolayfilt' sg.l.9.1: no visible binding for global variable 'sgolayfilt' sg.q.11.0: no visible binding for global variable 'sgolayfilt' sg.q.11.1: no visible binding for global variable 'sgolayfilt' sg.q.11.2: no visible binding for global variable 'sgolayfilt' sg.q.3.0: no visible binding for global variable 'sgolayfilt' sg.q.3.1: no visible binding for global variable 'sgolayfilt' sg.q.3.2: no visible binding for global variable 'sgolayfilt' sg.q.5.0: no visible binding for global variable 'sgolayfilt' sg.q.5.1: no visible binding for global variable 'sgolayfilt' sg.q.5.2: no visible binding for global variable 'sgolayfilt' sg.q.7.0: no visible binding for global variable 'sgolayfilt' sg.q.7.1: no visible binding for global variable 'sgolayfilt' sg.q.7.2: no visible binding for global variable 'sgolayfilt' sg.q.9.0: no visible binding for global variable 'sgolayfilt' sg.q.9.1: no visible binding for global variable 'sgolayfilt' sg.q.9.2: no visible binding for global variable 'sgolayfilt' snv : : no visible global function definition for 'sd' Undefined global functions or variables: aggregate coefficients cor cubist cv.glmnet glmnet lab_data_in_vector lm pcr plsr predict quantile randomForest sd sgolayfilt spectral_data var Consider adding importFrom("stats", "aggregate", "coefficients", "cor", "lm", "predict", "quantile", "sd", "var") to your NAMESPACE file. * checking Rd files ... WARNING prepare_Rd: ./man/cubist_preprocess.Rd:24: unexpected section header '\details' prepare_Rd: ./man/cubist_preprocess.Rd:28: unexpected section header '\value' prepare_Rd: ./man/cubist_preprocess.Rd:46: unexpected section header '\references' prepare_Rd: ./man/cubist_preprocess.Rd:50: unexpected section header '\examples' prepare_Rd: ./man/cubist_preprocess.Rd:54: unexpected END_OF_INPUT ' ' checkRd: (-1) cubist_preprocess.Rd:24-26: Lost braces 24 | \details{ | ^ checkRd: (-1) cubist_preprocess.Rd:28-44: Lost braces 28 | \value{ | ^ checkRd: (-1) cubist_preprocess.Rd:46-48: Lost braces 46 | \references{ | ^ checkRd: (-1) cubist_preprocess.Rd:50-52: Lost braces 50 | \examples{ | ^ prepare_Rd: ./man/lasso_preprocess.Rd:24: unexpected section header '\details' prepare_Rd: ./man/lasso_preprocess.Rd:28: unexpected section header '\value' prepare_Rd: ./man/lasso_preprocess.Rd:46: unexpected section header '\references' prepare_Rd: ./man/lasso_preprocess.Rd:50: unexpected section header '\examples' prepare_Rd: ./man/lasso_preprocess.Rd:54: unexpected END_OF_INPUT ' ' checkRd: (-1) lasso_preprocess.Rd:24-26: Lost braces 24 | \details{ | ^ checkRd: (-1) lasso_preprocess.Rd:28-44: Lost braces 28 | \value{ | ^ checkRd: (-1) lasso_preprocess.Rd:46-48: Lost braces 46 | \references{ | ^ checkRd: (-1) lasso_preprocess.Rd:50-52: Lost braces 50 | \examples{ | ^ prepare_Rd: merge_of_lab_and_spectrum.Rd:24-26: Dropping empty section \references prepare_Rd: ./man/ml_f.Rd:22: unexpected section header '\details' prepare_Rd: ./man/ml_f.Rd:26: unexpected section header '\value' prepare_Rd: ./man/ml_f.Rd:40: unexpected section header '\references' prepare_Rd: ./man/ml_f.Rd:44: unexpected section header '\examples' prepare_Rd: ./man/ml_f.Rd:50: unexpected END_OF_INPUT ' ' checkRd: (-1) ml_f.Rd:22-24: Lost braces 22 | \details{ | ^ checkRd: (-1) ml_f.Rd:26-38: Lost braces 26 | \value{ | ^ checkRd: (-1) ml_f.Rd:40-42: Lost braces 40 | \references{ | ^ checkRd: (-1) ml_f.Rd:44-48: Lost braces 44 | \examples{ | ^ prepare_Rd: ./man/pcr_preprocess.Rd:24: unexpected section header '\details' prepare_Rd: ./man/pcr_preprocess.Rd:28: unexpected section header '\value' prepare_Rd: ./man/pcr_preprocess.Rd:46: unexpected section header '\references' prepare_Rd: ./man/pcr_preprocess.Rd:50: unexpected section header '\examples' prepare_Rd: ./man/pcr_preprocess.Rd:54: unexpected END_OF_INPUT ' ' checkRd: (-1) pcr_preprocess.Rd:24-26: Lost braces 24 | \details{ | ^ checkRd: (-1) pcr_preprocess.Rd:28-44: Lost braces 28 | \value{ | ^ checkRd: (-1) pcr_preprocess.Rd:46-48: Lost braces 46 | \references{ | ^ checkRd: (-1) pcr_preprocess.Rd:50-52: Lost braces 50 | \examples{ | ^ prepare_Rd: ./man/plsr_preprocess.Rd:24: unexpected section header '\details' prepare_Rd: ./man/plsr_preprocess.Rd:28: unexpected section header '\value' prepare_Rd: ./man/plsr_preprocess.Rd:46: unexpected section header '\references' prepare_Rd: ./man/plsr_preprocess.Rd:50: unexpected section header '\examples' prepare_Rd: ./man/plsr_preprocess.Rd:54: unexpected END_OF_INPUT ' ' checkRd: (-1) plsr_preprocess.Rd:24-26: Lost braces 24 | \details{ | ^ checkRd: (-1) plsr_preprocess.Rd:28-44: Lost braces 28 | \value{ | ^ checkRd: (-1) plsr_preprocess.Rd:46-48: Lost braces 46 | \references{ | ^ checkRd: (-1) plsr_preprocess.Rd:50-52: Lost braces 50 | \examples{ | ^ prepare_Rd: ./man/results.Rd:16: unexpected section header '\details' prepare_Rd: ./man/results.Rd:20: unexpected section header '\value' prepare_Rd: ./man/results.Rd:34: unexpected section header '\references' prepare_Rd: ./man/results.Rd:38: unexpected section header '\examples' prepare_Rd: ./man/results.Rd:43: unexpected END_OF_INPUT ' ' checkRd: (-1) results.Rd:16-18: Lost braces 16 | \details{ | ^ checkRd: (-1) results.Rd:20-32: Lost braces 20 | \value{ | ^ checkRd: (-1) results.Rd:34-36: Lost braces 34 | \references{ | ^ checkRd: (-1) results.Rd:38-41: Lost braces 38 | \examples{ | ^ prepare_Rd: ./man/rf_preprocess.Rd:24: unexpected section header '\details' prepare_Rd: ./man/rf_preprocess.Rd:28: unexpected section header '\value' prepare_Rd: ./man/rf_preprocess.Rd:46: unexpected section header '\references' prepare_Rd: ./man/rf_preprocess.Rd:50: unexpected section header '\examples' prepare_Rd: ./man/rf_preprocess.Rd:54: unexpected END_OF_INPUT ' ' checkRd: (-1) rf_preprocess.Rd:24-26: Lost braces 24 | \details{ | ^ checkRd: (-1) rf_preprocess.Rd:28-44: Lost braces 28 | \value{ | ^ checkRd: (-1) rf_preprocess.Rd:46-48: Lost braces 46 | \references{ | ^ checkRd: (-1) rf_preprocess.Rd:50-52: Lost braces 50 | \examples{ | ^ prepare_Rd: ./man/sg.Rd:14: unexpected section header '\details' prepare_Rd: ./man/sg.Rd:18: unexpected section header '\value' prepare_Rd: ./man/sg.Rd:22: unexpected section header '\references' prepare_Rd: ./man/sg.Rd:26: unexpected section header '\examples' prepare_Rd: ./man/sg.Rd:32: unexpected END_OF_INPUT ' ' checkRd: (-1) sg.Rd:14-16: Lost braces 14 | \details{ | ^ checkRd: (-1) sg.Rd:18-20: Lost braces 18 | \value{ | ^ checkRd: (-1) sg.Rd:22-24: Lost braces 22 | \references{ | ^ checkRd: (-1) sg.Rd:26-30: Lost braces 26 | \examples{ | ^ * checking Rd metadata ... WARNING Rd files with duplicated name 'ColsMeanPkg': 'cubist_preprocess.Rd' 'lasso_preprocess.Rd' 'merge_of_lab_and_spectrum.Rd' 'ml_f.Rd' 'msd.comp.Rd' 'pcr_preprocess.Rd' 'plsr_preprocess.Rd' 'results.Rd' 'rf_preprocess.Rd' 'sg.Rd' Rd files with duplicated alias 'ColsMeanPkg': 'cubist_preprocess.Rd' 'lasso_preprocess.Rd' 'merge_of_lab_and_spectrum.Rd' 'ml_f.Rd' 'msd.comp.Rd' 'pcr_preprocess.Rd' 'plsr_preprocess.Rd' 'results.Rd' 'rf_preprocess.Rd' 'sg.Rd' * checking Rd line widths ... NOTE Rd file 'ml_f.Rd': \usage lines wider than 90 characters: ml_f(x = soil, y = data_NaturaSpec_cleaned, smoother_selection=snv,type_of_soil="P",model_selection = TRUE) These lines will be truncated in the PDF manual. * checking Rd cross-references ... OK * checking for missing documentation entries ... WARNING Undocumented code objects: 'colsMean' 'cubist_preprocess' 'data_NaturaSpec_cleaned' 'lasso_preprocess' 'log1_R' 'merge_of_lab_and_spectrum' 'ml_f' 'msd.comp' 'pcr_preprocess' 'plsr_preprocess' 'raw' 'results' 'rf_preprocess' 'sg.c.11.0' 'sg.c.11.1' 'sg.c.11.2' 'sg.c.5.0' 'sg.c.5.1' 'sg.c.5.2' 'sg.c.7.0' 'sg.c.7.1' 'sg.c.7.2' 'sg.c.9.0' 'sg.c.9.1' 'sg.c.9.2' 'sg.l.11.0' 'sg.l.11.1' 'sg.l.3.0' 'sg.l.3.1' 'sg.l.5.0' 'sg.l.5.1' 'sg.l.7.0' 'sg.l.7.1' 'sg.l.9.0' 'sg.l.9.1' 'sg.q.11.0' 'sg.q.11.1' 'sg.q.11.2' 'sg.q.3.0' 'sg.q.3.1' 'sg.q.3.2' 'sg.q.5.0' 'sg.q.5.1' 'sg.q.5.2' 'sg.q.7.0' 'sg.q.7.1' 'sg.q.7.2' 'sg.q.9.0' 'sg.q.9.1' 'snv' 'soil' Undocumented data sets: 'data_NaturaSpec_cleaned' 'soil' 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 ... WARNING Codoc mismatches from Rd file 'merge_of_lab_and_spectrum.Rd': merge_of_lab_and_spectrum Code: function(soil_data, data_NaturaSpec_cleaned) Docs: function(x, y) Argument names in code not in docs: soil_data data_NaturaSpec_cleaned Argument names in docs not in code: x y Mismatches in argument names: Position: 1 Code: soil_data Docs: x Position: 2 Code: data_NaturaSpec_cleaned Docs: y Codoc mismatches from Rd file 'ml_f.Rd': ml_f Code: function(x = spectral_data, y = lab_data_in_vector, smoother_selection, type_of_soil, model_selection = TRUE) Docs: function(x = soil, y = data_NaturaSpec_cleaned, smoother_selection = snv, type_of_soil = "P", model_selection = TRUE) Mismatches in argument default values (first 3): Name: 'x' Code: spectral_data Docs: soil Name: 'y' Code: lab_data_in_vector Docs: data_NaturaSpec_cleaned Name: 'smoother_selection' Code: Docs: snv Codoc mismatches from Rd file 'results.Rd': results Code: function(metric.list, soil_type) Docs: function(x, y) Argument names in code not in docs: metric.list soil_type Argument names in docs not in code: x y Mismatches in argument names: Position: 1 Code: metric.list Docs: x Position: 2 Code: soil_type Docs: y * checking Rd \usage sections ... WARNING Objects in \usage without \alias in Rd file 'cubist_preprocess.Rd': 'cubist_preprocess' Objects in \usage without \alias in Rd file 'lasso_preprocess.Rd': 'lasso_preprocess' Objects in \usage without \alias in Rd file 'merge_of_lab_and_spectrum.Rd': 'merge_of_lab_and_spectrum' Objects in \usage without \alias in Rd file 'ml_f.Rd': 'ml_f' Objects in \usage without \alias in Rd file 'msd.comp.Rd': 'msd.comp' Objects in \usage without \alias in Rd file 'pcr_preprocess.Rd': 'pcr_preprocess' Objects in \usage without \alias in Rd file 'plsr_preprocess.Rd': 'plsr_preprocess' Objects in \usage without \alias in Rd file 'results.Rd': 'results' Objects in \usage without \alias in Rd file 'rf_preprocess.Rd': 'rf_preprocess' Bad \usage lines found in Rd file 'sg.Rd': function(x) 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... WARNING Note: significantly better compression could be obtained by using R CMD build --resave-data old_size new_size compress data_NaturaSpec_cleaned.RData 3.5Mb 2.4Mb xz * checking examples ... OK * checking PDF version of manual ... [16s] OK * checking HTML version of manual ... OK * DONE Status: 7 WARNINGs, 4 NOTEs