CRAN Package Check Results for Maintainer ‘Nathalie Vialaneix <nathalie.vialaneix at inrae.fr>’

Last updated on 2025-04-12 22:52:43 CEST.

Package	ERROR	NOTE	OK
mixKernel	3		11
NiLeDAM			14
RNAseqNet			14
SISIR			14
SOMbrero		4	10
treediff	2		13

Package mixKernel

Current CRAN status: ERROR: 3, OK: 11

Additional issues

M1mac

Version: 0.9-1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘a-mixKernelInstallation.Rmd’ using rmarkdown --- finished re-building ‘a-mixKernelInstallation.Rmd’ --- re-building ‘mixKernelUsersGuide.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mixKernel.Rcheck/vign_test/mixKernel/vignettes/mixKernelUsersGuide_files/figure-html/cim_kernel-1.png 800x1000 pixels, 3x8 bits/pixel, RGB Input IDAT size = 43589 bytes Input file size = 43727 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 40078 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 = 40078 Output IDAT size = 40078 bytes (3511 bytes decrease) Output file size = 40156 bytes (3571 bytes = 8.17% decrease) Quitting from mixKernelUsersGuide.Rmd:144-160 [plotIndiv_PCA] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'mixKernelUsersGuide.Rmd' failed with diagnostics: Continuous values supplied to discrete scale. ℹ Example values: 3, 17, 17, 17, and 3 --- failed re-building ‘mixKernelUsersGuide.Rmd’ SUMMARY: processing the following file failed: ‘mixKernelUsersGuide.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.9-1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘a-mixKernelInstallation.Rmd’ using rmarkdown --- finished re-building ‘a-mixKernelInstallation.Rmd’ --- re-building ‘mixKernelUsersGuide.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mixKernel.Rcheck/vign_test/mixKernel/vignettes/mixKernelUsersGuide_files/figure-html/cim_kernel-1.png 800x1000 pixels, 3x8 bits/pixel, RGB Input IDAT size = 43589 bytes Input file size = 43727 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 40078 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 = 40078 Output IDAT size = 40078 bytes (3511 bytes decrease) Output file size = 40156 bytes (3571 bytes = 8.17% decrease) Quitting from mixKernelUsersGuide.Rmd:144-160 [plotIndiv_PCA] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'mixKernelUsersGuide.Rmd' failed with diagnostics: Continuous values supplied to discrete scale. ℹ Example values: 3, 17, 17, 17, and 3 --- failed re-building ‘mixKernelUsersGuide.Rmd’ SUMMARY: processing the following file failed: ‘mixKernelUsersGuide.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.9-1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘a-mixKernelInstallation.Rmd’ using rmarkdown --- finished re-building ‘a-mixKernelInstallation.Rmd’ --- re-building ‘mixKernelUsersGuide.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/mixKernel.Rcheck/vign_test/mixKernel/vignettes/mixKernelUsersGuide_files/figure-html/cim_kernel-1.png 800x1000 pixels, 3x8 bits/pixel, RGB Input IDAT size = 43589 bytes Input file size = 43727 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 40078 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 = 40078 Output IDAT size = 40078 bytes (3511 bytes decrease) Output file size = 40156 bytes (3571 bytes = 8.17% decrease) Quitting from mixKernelUsersGuide.Rmd:144-160 [plotIndiv_PCA] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'mixKernelUsersGuide.Rmd' failed with diagnostics: Continuous values supplied to discrete scale. ℹ Example values: 3, 17, 17, 17, and 3 --- failed re-building ‘mixKernelUsersGuide.Rmd’ SUMMARY: processing the following file failed: ‘mixKernelUsersGuide.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-patched-linux-x86_64

Package NiLeDAM

Current CRAN status: OK: 14

Package RNAseqNet

Current CRAN status: OK: 14

Package SISIR

Current CRAN status: OK: 14

Package SOMbrero

Current CRAN status: NOTE: 4, OK: 10

Version: 1.4-2
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: superClass.Rd: igraph Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Version: 1.4-2
Check: for unstated dependencies in ‘demo’
Result: NOTE 'library' or 'require' call not declared from: ‘RColorBrewer’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64

Package treediff

Current CRAN status: ERROR: 2, OK: 13

Version: 0.2.1
Check: package dependencies
Result: ERROR Packages required but not available: 'csaw', 'HiCDOC' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64