* using log directory 'd:/RCompile/CRANincoming/R-devel/ETRep.Rcheck' * using R Under development (unstable) (2024-10-26 r87273 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'ETRep/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'ETRep' version '0.1.0' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Mohsen Taheri ' New submission Possibly misspelled words in DESCRIPTION: ETRep (8:669, 8:752) ETReps (3:38, 8:65) Joarn (8:199) Mohsen (8:159, 8:298) Pizer (8:170) RCC (4:30, 8:542) Shalmani (8:312) Taheri (8:151, 8:305) UiS (8:341) * 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 'ETRep' can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import 'shapes::tr' by 'matlib::tr' when loading 'ETRep' Warning: replacing previous import 'rgl::GramSchmidt' by 'matlib::GramSchmidt' when loading 'ETRep' Warning: replacing previous import 'rgl::mtext3d' by 'plotrix::mtext3d' when loading 'ETRep' Warning: replacing previous import 'matlib::getYmult' by 'plotrix::getYmult' when loading 'ETRep' Warning: replacing previous import 'matlib::vec' by 'Directional::vec' when loading 'ETRep' Warning: replacing previous import 'plotrix::color.scale' by 'fields::color.scale' when loading 'ETRep' Warning: replacing previous import 'matlib::inv' by 'pracma::inv' when loading 'ETRep' Warning: replacing previous import 'shapes::repmat' by 'pracma::repmat' when loading 'ETRep' Warning: replacing previous import 'Matrix::expm' by 'pracma::expm' when loading 'ETRep' Warning: replacing previous import 'matlib::angle' by 'pracma::angle' when loading 'ETRep' Warning: replacing previous import 'shapes::mod' by 'pracma::mod' when loading 'ETRep' Warning: replacing previous import 'Matrix::lu' by 'pracma::lu' when loading 'ETRep' Warning: replacing previous import 'Matrix::tril' by 'pracma::tril' when loading 'ETRep' Warning: replacing previous import 'Matrix::triu' by 'pracma::triu' when loading 'ETRep' Warning: replacing previous import 'doBy::taylor' by 'pracma::taylor' when loading 'ETRep' Warning: replacing previous import 'shapes::select' by 'dplyr::select' when loading 'ETRep' Warning: replacing previous import 'doBy::order_by' by 'dplyr::order_by' when loading 'ETRep' See 'd:/RCompile/CRANincoming/R-devel/ETRep.Rcheck/00install.out' for details. * checking installed package size ... OK * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... NOTE Author field differs from that derived from Authors@R Author: 'Mohsen Taheri ()' Authors@R: 'Mohsen Taheri [aut, cre]' * 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 ... 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 ... [31s] NOTE curvatureOf3Points: no visible global function definition for 'pip2d' intersectionPointsBetween2Ellipses_In3D: no visible global function definition for 'rayTriangleIntersection' plot_Elliptical_Tube: no visible global function definition for 'pvalue_to_color' verticesNormals_mesh2D: no visible global function definition for 'pip2d' Undefined global functions or variables: pip2d pvalue_to_color rayTriangleIntersection * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... WARNING Undocumented code objects: 'ETRepSize' 'HotellingT2' 'MahalanobisDistance' 'MahalanobisDistance_1D' 'PyramidGenerator' 'allAdjacentVertices2D' 'calculate_r_project_Length' 'calculate_theta' 'cartesian_to_spherical' 'clockwiseAngle' 'convertMatrixIn6DHyperbola2Tube' 'convertVec2unitVec' 'convertVec2unitVec2' 'convert_v_to_TangentVector' 'curvatureOf3Points' 'discretePathBetween2PointsIn_6D_Hyperbola' 'distanceOfaPoint2aLine_2D' 'drawCircleOnUnitSphere' 'drawCircleS2' 'ellipse_Radius_InPolarCoordinate' 'ellipsoidGenerator_2D' 'ellipsoidGenerator_2D_2' 'fisher.method' 'fitRadialVectorsModelBasedOnParallelSlicing' 'frechetMean' 'frenetFrame3Dcurve' 'generatePointsBetween2Points' 'generatePointsBetween2Points2' 'generatePointsBetween3Points' 'generateSpheresBetween2Points_2D' 'geodesic2D_of2Vertices' 'geodesicDistance' 'geodesicPathOnUnitSphere' 'intersectionOfALineWithAPlane' 'intersectionPointsBetween2Ellipses_In3D' 'intrinsic_Distance_Between2tubes' 'isOnLineSegment' 'linesegmentsIntersection' 'makeSphereMesh' 'map6DcylinderTo6Dhyperbola' 'map6DhyperbolaTo6Dcylinder' 'meanDifferenceTest1D' 'meanDifferenceTestMultivariate' 'myCrossProduct' 'myNorm' 'nonIntrinsic_Distance_Between2tubes' 'nonIntrinsic_Transformation_Elliptical_Tubes_Without_SelfIntersection' 'normalOfaVertex' 'normalOfaVertex2' 'permutation1D' 'permutationMultivariate' 'plotProcTube' 'randS2' 'randVonMises' 'randomPointOnTriangle' 'rotateFrameToMainAxesAndRotateBack_standard' 'rotateFrameToMainAxes_standard' 'rotationAboutXYZaxis' 'rotationAbout_uAxis_byThetaAngle' 'scaleETRepToHaveTheSizeAsOne' 'sortIndices' 'sphereGenerator_2D' 'spherical_to_cartesian' 'splineFitWithEquidistancePoints' 'starConvexSetGenerator_2D' 'sumOfSquaredDistances' 'triangleArea' 'triangleGenerator' 'tube2vectorsIn6DCylinder' 'tube2vectorsIn6DHyperbola' 'tubeCrossSetionsIndicesWith_NonLocal_SelfIntersections' 'unitNormalOfTriangle' 'urchinInterpolation_2D' 'verticesNormals_mesh2D' 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 'create_Elliptical_Tube.Rd' 'initialFrame' 'initialPoint' 'add' Undocumented arguments in Rd file 'intrinsic_Transformation_Elliptical_Tubes.Rd' 'type' 'colorBoundary' Undocumented arguments in Rd file 'nonIntrinsic_Transformation_Elliptical_Tubes.Rd' 'tube1' 'tube2' 'type' 'numberOfSteps' 'plotting' 'colorBoundary' 'add' Undocumented arguments in Rd file 'plot_Elliptical_Tube.Rd' 'e_tube' 'plot_spine' 'plot_normal_vec' 'plot_skeletal_sheet' 'decorate' 'colSkeletalSheet' 'colorBoundary' 'userMatrix4plotOrientation' 'plotSignificantFeatures' 'p_values_v' 'p_values_psi' 'p_values_x' 'p_values_a' 'p_values_b' 'lwdSignificant' 'add' 'mainTitle' Documented arguments not in \usage in Rd file 'plot_Elliptical_Tube.Rd': 'tube' Undocumented arguments in Rd file 'simulate_etube.Rd' 'sd_psi' 'sd_x' 'sd_a' 'sd_b' 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 colon3D.rda 174Kb 152Kb xz simulatedColons.rda 1.2Mb 759Kb xz tube_A.rda 160Kb 94Kb xz tube_B.rda 200Kb 128Kb xz * checking examples ... [21s] OK * checking PDF version of manual ... [14s] OK * checking HTML version of manual ... OK * DONE Status: 4 WARNINGs, 3 NOTEs