Rhonda Bacher
| Snapshot Date: 2024-05-29 11:04:14 -0400 (Wed, 29 May 2024) |
| git_url: https://git.bioconductor.org/packages/SCnorm |
| git_branch: devel |
| git_last_commit: c114876 |
| git_last_commit_date: 2024-04-30 10:59:25 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-05-30 12:36:18 -0400 (Thu, 30 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4669 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4404 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4431 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4384 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1846/2233 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SCnorm 1.27.0 (landing page) Rhonda Bacher
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the SCnorm package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SCnorm.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: SCnorm |
| Version: 1.27.0 |
| Command: chmod a+r SCnorm -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data SCnorm |
| StartedAt: 2024-05-29 18:23:23 -0400 (Wed, 29 May 2024) |
| EndedAt: 2024-05-29 18:27:31 -0400 (Wed, 29 May 2024) |
| EllapsedTime: 248.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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###
### Running command:
###
### chmod a+r SCnorm -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data SCnorm
###
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* checking for file 'SCnorm/DESCRIPTION' ... OK
* preparing 'SCnorm':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'SCnorm.Rnw' using knitr
pdftex: major issue: User/administrator updates are out-of-sync.
pdfcrop: major issue: User/administrator updates are out-of-sync.
pdftex: major issue: User/administrator updates are out-of-sync.
pdfcrop: major issue: User/administrator updates are out-of-sync.
pdftex: major issue: User/administrator updates are out-of-sync.
pdfcrop: major issue: User/administrator updates are out-of-sync.
pdftex: major issue: User/administrator updates are out-of-sync.
pdfcrop: major issue: User/administrator updates are out-of-sync.
Error in parse(text = code, keep.source = FALSE) :
<text>:12:19: unexpected symbol
11: PrintProgressPlots = TRUE
12: FilterCellNum
^
Warning in highr::hilight(x, format, prompt = options$prompt, markup = opts$markup) :
the syntax of the source code is invalid; the fallback mode is used
texify: major issue: User/administrator updates are out-of-sync.
Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "", :
running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "SCnorm.tex" --max-iterations=20 -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/tex/latex" -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/bibtex/bst"' had status 1
Error: processing vignette 'SCnorm.Rnw' failed with diagnostics:
running 'texi2dvi' on 'SCnorm.tex' failed
LaTeX errors:
s/SCnorm.tex:82: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:101: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:115: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:136: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:163: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:172: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:185: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:224: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:279: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:355: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:418: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:432: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:456: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:510: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:533: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:554: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:605: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:630: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:664: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:695: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:725: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:745: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:849: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
s/SCnorm.tex:890: Package xcolor Error: Undefined color `fgcolor'.
See the xcolor package documentation for explanation.
Type H <return> for immediate help.
...
--- failed re-building 'SCnorm.Rnw'
SUMMARY: processing the following file failed:
'SCnorm.Rnw'
Error: Vignette re-building failed.
Execution halted