############################################################################## ############################################################################## ### ### Running command: ### ### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:EBImage.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings EBImage_4.49.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/EBImage.Rcheck’ * using R Under development (unstable) (2024-11-14 r87333) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘EBImage/DESCRIPTION’ ... OK * this is package ‘EBImage’ version ‘4.49.0’ * package encoding: UTF-8 * 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 for sufficient/correct file permissions ... OK * checking whether package ‘EBImage’ can be installed ... OK * used C compiler: ‘gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ * used C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’ * checking installed package size ... OK * checking package directory ... 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 ... 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 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 ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: display.Rd: createWidget io.Rd: writeTIFF, readJPEG, writeJPEG, readPNG, writePNG, readTIFF Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘test.R’ Comparing ‘test.Rout’ to ‘test.Rout.save’ ...231c231,234 < checking IO for 'logo' ... FAIL --- > checking IO for 'logo' ... PASS > Warning message: > In readTIFF(x, all = all, ...) : > TIFFReadDirectory: Sum of Photometric type-related color channels and ExtraSamples doesn't match SamplesPerPixel. Defining non-color channels as ExtraSamples. 254c257 < checking 'display' ............................ PASS (68b260509c7ab340) 189.7 --- > checking 'display' ............................ PASS (4c9befc7a9f9f22e) 165.3 329c332 < checking 'display' ............................ PASS (2b8c45decab7535f) 174.7 --- > checking 'display' ............................ PASS (174250a6d96dee60) 150.3 390c393 < checking 'hist' ............................... PASS (54e35f2c85f2121f) 20513.55 --- > checking 'hist' ............................... PASS (e7a708b4f96f88dc) 20513.55 406c409 < checking 'display' ............................ PASS (2f08603669942058) 421.7 --- > checking 'display' ............................ PASS (dada341199e50c3d) 397.3 483c486 < checking 'display' ............................ PASS (fb5a878c739fdf0a) 357.7 --- > checking 'display' ............................ PASS (bb2b4586191eb980) 333.3 506c509 < checking 'computeFeatures' .................... PASS (0e0499b50d90be9d) 3988836 --- > checking 'computeFeatures' .................... PASS (c1ff2e62e7bb8eee) 3989786 560c563 < checking 'display' ............................ PASS (38b074e79a93b661) 330.7 --- > checking 'display' ............................ PASS (3d646d4f07d194ba) 306.3 583c586 < checking 'computeFeatures' .................... PASS (10c741c6898b4b96) 746878.2 --- > checking 'computeFeatures' .................... PASS (a33c53edd3cf8a46) 746878.2 639c642 < checking 'display' ............................ PASS (0f4b8075d5f24755) 309.7 --- > checking 'display' ............................ PASS (2fb2fcab54a4ea5a) 285.3 662c665 < checking 'computeFeatures' .................... PASS (6f8fccf9be44bfef) 416109350 --- > checking 'computeFeatures' .................... PASS (1bf064e6a11f2410) 416164140 668,669c671,672 < checking 'gblur' .............................. PASS (bd9e6638aeecda72) 1037581 < checking 'filter2' ............................ PASS (448257eb6e58efb1) 26149148 --- > checking 'gblur' .............................. PASS (9224b720f9d00006) 1037581 > checking 'filter2' ............................ PASS (637287a5df76a79d) 26149148 717c720 < checking 'display' ............................ PASS (ef6dce96392bbb6d) 263.7 --- > checking 'display' ............................ PASS (bc877f5317c575b2) 239.3 740c743 < checking 'computeFeatures' .................... PASS (157a5f036e189a0a) 749353.1 --- > checking 'computeFeatures' .................... PASS (151a0d98d309d0b1) 749353.1 795c798 < checking 'display' ............................ PASS (4ca607589cc2787e) 280.7 --- > checking 'display' ............................ PASS (d28e3e75eed04056) 256.3 818c821 < checking 'computeFeatures' .................... PASS (cddeb53183f0a518) 734993.9 --- > checking 'computeFeatures' .................... PASS (53798e843cdbfa9f) 734993.9 873c876 < checking 'display' ............................ PASS (4ca607589cc2787e) 280.7 --- > checking 'display' ............................ PASS (d28e3e75eed04056) 256.3 896c899 < checking 'computeFeatures' .................... PASS (cddeb53183f0a518) 734993.9 --- > checking 'computeFeatures' .................... PASS (53798e843cdbfa9f) 734993.9 NOTE * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 3 NOTEs See ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/EBImage.Rcheck/00check.log’ for details.