CRAN Package Check Results for Package pegas

Last updated on 2021-12-02 10:51:51 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0-1 21.44 166.55 187.99 OK
r-devel-linux-x86_64-debian-gcc 1.0-1 14.14 125.59 139.73 OK
r-devel-linux-x86_64-fedora-clang 1.0-1 241.93 WARN
r-devel-linux-x86_64-fedora-gcc 1.0-1 227.43 WARN
r-devel-windows-x86_64-new-UL 1.0-1 47.00 290.00 337.00 OK
r-devel-windows-x86_64-new-TK 1.0-1 NOTE
r-devel-windows-x86_64-old 1.0-1 33.00 160.00 193.00 OK
r-patched-linux-x86_64 1.0-1 22.35 161.68 184.03 OK
r-patched-solaris-x86 1.0-1 322.90 OK
r-release-linux-x86_64 1.0-1 17.45 162.10 179.55 OK
r-release-macos-arm64 1.0-1 NOTE
r-release-macos-x86_64 1.0-1 OK
r-release-windows-ix86+x86_64 1.0-1 45.00 275.00 320.00 OK
r-oldrel-macos-x86_64 1.0-1 OK
r-oldrel-windows-ix86+x86_64 1.0-1 45.00 270.00 315.00 OK

Check Details

Version: 1.0-1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘PlotHaploNet.Rnw’ using Sweave
    Loading required package: ape
    Registered S3 method overwritten by 'pegas':
     method from
     print.amova ade4
    
    Attaching package: ‘pegas’
    
    The following object is masked from ‘package:ape’:
    
     mst
    
    Error: processing vignette 'PlotHaploNet.Rnw' failed with diagnostics:
    Running 'texi2dvi' on 'PlotHaploNet.tex' failed.
    LaTeX errors:
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    --- failed re-building ‘PlotHaploNet.Rnw’
    
    --- re-building ‘ReadingFiles.Rnw’ using Sweave
    Error: processing vignette 'ReadingFiles.Rnw' failed with diagnostics:
    Running 'texi2dvi' on 'ReadingFiles.tex' failed.
    LaTeX errors:
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ! Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    --- failed re-building ‘ReadingFiles.Rnw’
    
    SUMMARY: processing the following files failed:
     ‘PlotHaploNet.Rnw’ ‘ReadingFiles.Rnw’
    
    Error: Vignette re-building failed.
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.0-1
Check: re-building of vignette outputs
Result: NOTE
    Error(s) in re-building vignettes:
    --- re-building 'PlotHaploNet.Rnw' using Sweave
    Loading required package: ape
    Registered S3 method overwritten by 'pegas':
     method from
     print.amova ade4
    
    Attaching package: 'pegas'
    
    The following object is masked from 'package:ape':
    
     mst
    
    Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", :
     running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "PlotHaploNet.tex" --max-iterations=20 -I "C:/r_packages/rinst/share/texmf/tex/latex" -I "C:/r_packages/rinst/share/texmf/bibtex/bst"' had status 1
    Error: processing vignette 'PlotHaploNet.Rnw' failed with diagnostics:
    running 'texi2dvi' on 'PlotHaploNet.tex' failed
    
    LaTeX errors:
    ploNet.tex:18: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:97: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:110: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:129: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:144: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:162: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:171: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:182: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:197: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:230: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:243: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:256: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:268: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:289: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:316: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:326: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:333: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:402: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:428: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:484: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:498: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:523: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:547: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:554: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:564: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    ploNet.tex:575: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    
    --- failed re-building 'PlotHaploNet.Rnw'
    
    --- re-building 'ReadingFiles.Rnw' using Sweave
    Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", :
     running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "ReadingFiles.tex" --max-iterations=20 -I "C:/r_packages/rinst/share/texmf/tex/latex" -I "C:/r_packages/rinst/share/texmf/bibtex/bst"' had status 1
    Error: processing vignette 'ReadingFiles.Rnw' failed with diagnostics:
    running 'texi2dvi' on 'ReadingFiles.tex' failed
    
    LaTeX errors:
    gFiles.tex:27: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:106: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:115: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:122: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:146: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:154: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:165: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:200: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:224: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:235: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:265: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:274: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:290: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:305: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:316: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:335: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:369: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:380: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:386: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:392: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:398: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:410: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:423: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:431: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:437: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:450: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:523: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:553: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:566: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:578: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    gFiles.tex:586: Package xcolor Error: Undefined color `darkblue'.
    
    See the xcolor package documentation for explanation.
    Type H <return> for immediate help.
     ...
    
    --- failed re-building 'ReadingFiles.Rnw'
    
    SUMMARY: processing the following files failed:
     'PlotHaploNet.Rnw' 'ReadingFiles.Rnw'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-windows-x86_64-new-TK

Version: 1.0-1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘snpStats’
Flavor: r-release-macos-arm64