CRAN Package Check Results for Package pulseTD

Last updated on 2021-11-30 22:54:40 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.1.0 47.21 441.49 488.70 OK
r-devel-linux-x86_64-debian-gcc 0.1.0 43.43 355.24 398.67 OK
r-devel-linux-x86_64-fedora-clang 0.1.0 613.63 OK
r-devel-linux-x86_64-fedora-gcc 0.1.0 598.60 OK
r-devel-windows-x86_64-new-UL 0.1.0 73.00 512.00 585.00 OK
r-devel-windows-x86_64-new-TK 0.1.0 OK
r-devel-windows-x86_64-old 0.1.0 66.00 357.00 423.00 WARN
r-patched-linux-x86_64 0.1.0 45.28 416.05 461.33 OK
r-patched-solaris-x86 0.1.0 743.30 OK
r-release-linux-x86_64 0.1.0 40.17 424.03 464.20 OK
r-release-macos-arm64 0.1.0 OK
r-release-macos-x86_64 0.1.0 ERROR
r-release-windows-ix86+x86_64 0.1.0 104.00 358.00 462.00 WARN
r-oldrel-macos-x86_64 0.1.0 OK
r-oldrel-windows-ix86+x86_64 0.1.0 80.00 389.00 469.00 WARN

Check Details

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'tutorial.Rmd' using rmarkdown
    Loading required package: GenomicFeatures
    Loading required package: BiocGenerics
    Loading required package: parallel
    
    Attaching package: 'BiocGenerics'
    
    The following objects are masked from 'package:parallel':
    
     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
     clusterExport, clusterMap, parApply, parCapply, parLapply,
     parLapplyLB, parRapply, parSapply, parSapplyLB
    
    The following objects are masked from 'package:stats':
    
     IQR, mad, sd, var, xtabs
    
    The following objects are masked from 'package:base':
    
     Filter, Find, Map, Position, Reduce, anyDuplicated, append,
     as.data.frame, basename, cbind, colnames, dirname, do.call,
     duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
     lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
     pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
     tapply, union, unique, unsplit, which.max, which.min
    
    Loading required package: S4Vectors
    Loading required package: stats4
    
    Attaching package: 'S4Vectors'
    
    The following objects are masked from 'package:base':
    
     I, expand.grid, unname
    
    Loading required package: IRanges
    
    Attaching package: 'IRanges'
    
    The following object is masked from 'package:grDevices':
    
     windows
    
    Loading required package: GenomeInfoDb
    Loading required package: GenomicRanges
    Loading required package: AnnotationDbi
    Loading required package: Biobase
    Welcome to Bioconductor
    
     Vignettes contain introductory material; view with
     'browseVignettes()'. To cite Bioconductor, see
     'citation("Biobase")', and for packages 'citation("pkgname")'.
    
    ! Package pdftex.def Error: File `d:/RCompile/CRANpkg/local/4.2/pulseTD.Rcheck/
    vign_test/pulseTD/vignettes/tutorial_files/figure-latex/plotRatest,any\%20time-
    1.pdf' not found.
    
    Error: processing vignette 'tutorial.Rmd' failed with diagnostics:
    LaTeX failed to compile d:/RCompile/CRANpkg/local/4.2/pulseTD.Rcheck/vign_test/pulseTD/vignettes/tutorial.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See tutorial.log for more info.
    --- failed re-building 'tutorial.Rmd'
    
    SUMMARY: processing the following file failed:
     'tutorial.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-windows-x86_64-old

Version: 0.1.0
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘TxDb.Hsapiens.UCSC.hg19.knownGene’
Flavor: r-release-macos-x86_64

Version: 0.1.0
Check: examples
Result: ERROR
    Running examples in ‘pulseTD-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: estimateExpression
    > ### Title: Estimated Expression
    > ### Aliases: estimateExpression
    >
    > ### ** Examples
    >
    > library(TxDb.Hsapiens.UCSC.hg19.knownGene)
    Error in library(TxDb.Hsapiens.UCSC.hg19.knownGene) :
     there is no package called ‘TxDb.Hsapiens.UCSC.hg19.knownGene’
    Execution halted
Flavor: r-release-macos-x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘tutorial.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
    Quitting from lines 63-65 (tutorial.Rmd)
    Error: processing vignette 'tutorial.Rmd' failed with diagnostics:
    there is no package called 'TxDb.Hsapiens.UCSC.hg19.knownGene'
    --- failed re-building ‘tutorial.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘tutorial.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-macos-x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'tutorial.Rmd' using rmarkdown
    Loading required package: GenomicFeatures
    Loading required package: BiocGenerics
    Loading required package: parallel
    
    Attaching package: 'BiocGenerics'
    
    The following objects are masked from 'package:parallel':
    
     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
     clusterExport, clusterMap, parApply, parCapply, parLapply,
     parLapplyLB, parRapply, parSapply, parSapplyLB
    
    The following objects are masked from 'package:stats':
    
     IQR, mad, sd, var, xtabs
    
    The following objects are masked from 'package:base':
    
     Filter, Find, Map, Position, Reduce, anyDuplicated, append,
     as.data.frame, basename, cbind, colnames, dirname, do.call,
     duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
     lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
     pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
     tapply, union, unique, unsplit, which.max, which.min
    
    Loading required package: S4Vectors
    Loading required package: stats4
    
    Attaching package: 'S4Vectors'
    
    The following objects are masked from 'package:base':
    
     I, expand.grid, unname
    
    Loading required package: IRanges
    
    Attaching package: 'IRanges'
    
    The following object is masked from 'package:grDevices':
    
     windows
    
    Loading required package: GenomeInfoDb
    Loading required package: GenomicRanges
    Loading required package: AnnotationDbi
    Loading required package: Biobase
    Welcome to Bioconductor
    
     Vignettes contain introductory material; view with
     'browseVignettes()'. To cite Bioconductor, see
     'citation("Biobase")', and for packages 'citation("pkgname")'.
    
    ! Package pdftex.def Error: File `d:/RCompile/CRANpkg/local/4.1/pulseTD.Rcheck/
    vign_test/pulseTD/vignettes/tutorial_files/figure-latex/plotRatest,any\%20time-
    1.pdf' not found.
    
    Error: processing vignette 'tutorial.Rmd' failed with diagnostics:
    LaTeX failed to compile d:/RCompile/CRANpkg/local/4.1/pulseTD.Rcheck/vign_test/pulseTD/vignettes/tutorial.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See tutorial.log for more info.
    --- failed re-building 'tutorial.Rmd'
    
    SUMMARY: processing the following file failed:
     'tutorial.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 0.1.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'tutorial.Rmd' using rmarkdown
    Loading required package: GenomicFeatures
    Loading required package: BiocGenerics
    Loading required package: parallel
    
    Attaching package: 'BiocGenerics'
    
    The following objects are masked from 'package:parallel':
    
     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
     clusterExport, clusterMap, parApply, parCapply, parLapply,
     parLapplyLB, parRapply, parSapply, parSapplyLB
    
    The following objects are masked from 'package:stats':
    
     IQR, mad, sd, var, xtabs
    
    The following objects are masked from 'package:base':
    
     Filter, Find, Map, Position, Reduce, anyDuplicated, append,
     as.data.frame, basename, cbind, colnames, dirname, do.call,
     duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
     lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
     pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
     tapply, union, unique, unsplit, which.max, which.min
    
    Loading required package: S4Vectors
    Loading required package: stats4
    
    Attaching package: 'S4Vectors'
    
    The following object is masked from 'package:base':
    
     expand.grid
    
    Loading required package: IRanges
    
    Attaching package: 'IRanges'
    
    The following object is masked from 'package:grDevices':
    
     windows
    
    Loading required package: GenomeInfoDb
    Loading required package: GenomicRanges
    Loading required package: AnnotationDbi
    Loading required package: Biobase
    Welcome to Bioconductor
    
     Vignettes contain introductory material; view with
     'browseVignettes()'. To cite Bioconductor, see
     'citation("Biobase")', and for packages 'citation("pkgname")'.
    
    ! Package pdftex.def Error: File `d:/RCompile/CRANpkg/local/4.0/pulseTD.Rcheck/
    vign_test/pulseTD/vignettes/tutorial_files/figure-latex/plotRatest,any\%20time-
    1.pdf' not found.
    
    Error: processing vignette 'tutorial.Rmd' failed with diagnostics:
    LaTeX failed to compile d:/RCompile/CRANpkg/local/4.0/pulseTD.Rcheck/vign_test/pulseTD/vignettes/tutorial.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See tutorial.log for more info.
    --- failed re-building 'tutorial.Rmd'
    
    SUMMARY: processing the following file failed:
     'tutorial.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64