CRAN Package Check Results for Maintainer ‘Aurélie Siberchicot <aurelie.siberchicot at univ-lyon1.fr>’

Last updated on 2024-04-25 06:02:45 CEST.

Package ERROR NOTE OK
ade4 11 1
ade4TkGUI 12
adegraphics 3 9
adephylo 12
adespatial 12
CINID 12
DRomics 1 8 4
fitdistrplus 12
Interatrix 12
LDcorSV 12
LifemapR 13
MareyMap 13
Mondrian 12
nlsMicrobio 13
nlstools 13
OnAge 12
phylter 8 4

Package ade4

Current CRAN status: NOTE: 11, OK: 1

Version: 1.7-22
Check: Rd files
Result: NOTE checkRd: (-1) varipart.Rd:19: Lost braces 19 | \item{type}{a character specifying the algorithm which should be used to adjust R-squared (either \code{"simulated"} or \ code{"parametric"}).} | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-macos-arm64, r-release-windows-x86_64

Version: 1.7-22
Check: installed package size
Result: NOTE installed size is 6.4Mb sub-directories of 1Mb or more: R 1.4Mb data 3.0Mb Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.7-22
Check: dependencies in R code
Result: NOTE Namespace in Imports field not imported from: ‘sp’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Package ade4TkGUI

Current CRAN status: OK: 12

Package adegraphics

Current CRAN status: NOTE: 3, OK: 9

Version: 1.0-21
Check: installed package size
Result: NOTE installed size is 5.3Mb sub-directories of 1Mb or more: R 2.0Mb doc 2.7Mb Flavors: r-release-macos-arm64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package adephylo

Current CRAN status: OK: 12

Package adespatial

Current CRAN status: OK: 12

Package CINID

Current CRAN status: OK: 12

Package DRomics

Current CRAN status: ERROR: 1, NOTE: 8, OK: 4

Version: 2.5-2
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘sva’ Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.5-2
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘DRomics_vignette.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-6-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 29807 bytes Input file size = 29921 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20387 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20387 Output IDAT size = 20387 bytes (9420 bytes decrease) Output file size = 20465 bytes (9456 bytes = 31.60% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-8-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31545 bytes Input file size = 31659 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 23736 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 23736 Output IDAT size = 23736 bytes (7809 bytes decrease) Output file size = 23814 bytes (7845 bytes = 24.78% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-10-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 23824 bytes Input file size = 23926 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18004 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18004 Output IDAT size = 18004 bytes (5820 bytes decrease) Output file size = 18082 bytes (5844 bytes = 24.43% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-12-1.png 672x288 pixels, 8 bits/pixel, 255 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 8993 bytes Input file size = 9860 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7856 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 7849 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 7849 Output IDAT size = 7849 bytes (1144 bytes decrease) Output file size = 7927 bytes (1933 bytes = 19.60% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-13-1.png 672x480 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 17302 bytes Input file size = 18184 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15959 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15959 Output IDAT size = 15959 bytes (1343 bytes decrease) Output file size = 16037 bytes (2147 bytes = 11.81% decrease) ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/DRomics.Rcheck/vign_test/DRomics/vignettes/DRomics_vignette_files/figure-html/unnamed-chunk-15-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16899 bytes Input file size = 17001 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15223 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 15212 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 15212 Output IDAT size = 15212 bytes (1687 bytes decrease) Output file size = 15290 bytes (1711 bytes = 10.06% decrease) Quitting from lines at lines 434-439 [unnamed-chunk-16] (DRomics_vignette.Rmd) Error: processing vignette 'DRomics_vignette.Rmd' failed with diagnostics: could not find function "ComBat_seq" --- failed re-building ‘DRomics_vignette.Rmd’ SUMMARY: processing the following file failed: ‘DRomics_vignette.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.5-2
Check: installed package size
Result: NOTE installed size is 6.1Mb sub-directories of 1Mb or more: doc 2.9Mb Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package fitdistrplus

Current CRAN status: OK: 12

Package Interatrix

Current CRAN status: OK: 12

Package LDcorSV

Current CRAN status: OK: 12

Package LifemapR

Current CRAN status: OK: 13

Package MareyMap

Current CRAN status: OK: 13

Package Mondrian

Current CRAN status: OK: 12

Package nlsMicrobio

Current CRAN status: OK: 13

Package nlstools

Current CRAN status: OK: 13

Package OnAge

Current CRAN status: OK: 12

Package phylter

Current CRAN status: NOTE: 8, OK: 4

Version: 0.9.11
Check: Rd files
Result: NOTE checkRd: (-1) phylter.Rd:51: Lost braces; missing escapes or markup? 51 | the output ({out$DiscardedGenes}).} | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-macos-arm64, r-release-windows-x86_64