CRAN Package Check Results for Package g3viz

Last updated on 2022-09-30 14:54:32 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.5 57.09 540.74 597.83 OK
r-devel-linux-x86_64-debian-gcc 1.1.5 47.65 401.30 448.95 OK
r-devel-linux-x86_64-fedora-clang 1.1.5 806.42 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1.5 773.65 OK
r-devel-windows-x86_64 1.1.5 79.00 540.00 619.00 NOTE
r-patched-linux-x86_64 1.1.5 58.43 522.08 580.51 OK
r-release-linux-x86_64 1.1.5 49.00 510.91 559.91 OK
r-release-macos-arm64 1.1.5 6.00 ERROR
r-release-macos-x86_64 1.1.5 7.00 ERROR
r-release-windows-x86_64 1.1.5 70.00 551.00 621.00 NOTE
r-oldrel-macos-arm64 1.1.5 10.00 ERROR
r-oldrel-macos-x86_64 1.1.5 13.00 ERROR
r-oldrel-windows-ix86+x86_64 1.1.5 124.00 517.00 641.00 WARN

Check Details

Version: 1.1.5
Check: installed package size
Result: NOTE
     installed size is 10.6Mb
     sub-directories of 1Mb or more:
     doc 9.3Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.1.5
Check: package dependencies
Result: ERROR
    Package required but not available: ‘cBioPortalData’
    
    See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
    manual.
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 1.1.5
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'chart_themes.Rmd' using rmarkdown
    g3viz: visualizing gene/genome/gentics data for fun.
     - Pfam (v33.1)
     - UniProt (date: 2022/07/01)
    
    Any questions, please send emails to <g3viz.group@gmail.com> or post on GitHub <https://github.com/G3viz/g3viz/issues>.
    Loading required package: AnVIL
    Loading required package: dplyr
    
    Attaching package: 'dplyr'
    
    The following objects are masked from 'package:stats':
    
     filter, lag
    
    The following objects are masked from 'package:base':
    
     intersect, setdiff, setequal, union
    
    Loading required package: MultiAssayExperiment
    Loading required package: SummarizedExperiment
    Loading required package: MatrixGenerics
    Loading required package: matrixStats
    
    Attaching package: 'matrixStats'
    
    The following object is masked from 'package:dplyr':
    
     count
    
    
    Attaching package: 'MatrixGenerics'
    
    The following objects are masked from 'package:matrixStats':
    
     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
     colWeightedMeans, colWeightedMedians, colWeightedSds,
     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
     rowWeightedSds, rowWeightedVars
    
    Loading required package: GenomicRanges
    Loading required package: stats4
    Loading required package: BiocGenerics
    
    Attaching package: 'BiocGenerics'
    
    The following objects are masked from 'package:dplyr':
    
     combine, intersect, setdiff, union
    
    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
    
    Attaching package: 'S4Vectors'
    
    The following objects are masked from 'package:dplyr':
    
     first, rename
    
    The following objects are masked from 'package:base':
    
     I, expand.grid, unname
    
    Loading required package: IRanges
    
    Attaching package: 'IRanges'
    
    The following objects are masked from 'package:dplyr':
    
     collapse, desc, slice
    
    The following object is masked from 'package:grDevices':
    
     windows
    
    Loading required package: GenomeInfoDb
    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")'.
    
    
    Attaching package: 'Biobase'
    
    The following object is masked from 'package:MatrixGenerics':
    
     rowMedians
    
    The following objects are masked from 'package:matrixStats':
    
     anyMissing, rowMedians
    
    --- finished re-building 'chart_themes.Rmd'
    
    --- re-building 'introduction.Rmd' using rmarkdown
    g3viz: visualizing gene/genome/gentics data for fun.
     - Pfam (v33.1)
     - UniProt (date: 2022/07/01)
    
    Any questions, please send emails to <g3viz.group@gmail.com> or post on GitHub <https://github.com/G3viz/g3viz/issues>.
    Quitting from lines 240-253 (introduction.Rmd)
    Error: processing vignette 'introduction.Rmd' failed with diagnostics:
    cannot open URL 'https://www.cbioportal.org/api/api-docs'
    --- failed re-building 'introduction.Rmd'
    
    SUMMARY: processing the following file failed:
     'introduction.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64