| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-05-26 06:18:08 -0000 (Fri, 26 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4254 |
| 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 | ||||
|
To the developers/maintainers of the flowStats package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowStats.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 720/2197 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| flowStats 4.13.0 (landing page) Greg Finak
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | ERROR | skipped | |||||||||
| Package: flowStats |
| Version: 4.13.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data flowStats |
| StartedAt: 2023-05-25 22:27:16 -0000 (Thu, 25 May 2023) |
| EndedAt: 2023-05-25 22:29:34 -0000 (Thu, 25 May 2023) |
| EllapsedTime: 138.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data flowStats
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* checking for file ‘flowStats/DESCRIPTION’ ... OK
* preparing ‘flowStats’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘GettingStartedWithFlowStats.Rnw’ using Sweave
Warning: replacing previous import ‘flowViz::contour’ by ‘graphics::contour’ when loading ‘flowStats’
As part of improvements to flowWorkspace, some behavior of
GatingSet objects has changed. For details, please read the section
titled "The cytoframe and cytoset classes" in the package vignette:
vignette("flowWorkspace-Introduction", "flowWorkspace")
Loading required package: ggplot2
Loading required package: ncdfFlow
Loading required package: BH
Loading required package: scales
done!
Loading required package: ggridges
Loading required package: gridExtra
Picking joint bandwidth of 0.311
Picking joint bandwidth of 0.131
Picking joint bandwidth of 0.26
Picking joint bandwidth of 0.157
Warning in rep(sig, length = 2) :
'x' is NULL so the result will be NULL
done!
cloning the gatingSet...
Normalize CD4+CD8+
normalizing sample 1
normalizing sample 2
normalizing sample 3
normalizing sample 4
normalizing sample 5
normalizing sample 6
normalizing sample 7
normalizing sample 8
normalizing sample 9
normalizing sample 11
normalizing sample 12
normalizing sample 13
normalizing sample 14
normalizing sample 15
normalizing sample 16
normalizing sample 1
normalizing sample 2
normalizing sample 3
normalizing sample 4
normalizing sample 5
normalizing sample 6
normalizing sample 7
normalizing sample 8
normalizing sample 9
normalizing sample 11
normalizing sample 12
normalizing sample 13
normalizing sample 14
normalizing sample 15
normalizing sample 16
done!
Normalize CD4+CD8-
Normalize CD4-CD8+
Normalize CD4-CD8-
Picking joint bandwidth of 0.311
Picking joint bandwidth of 0.131
Picking joint bandwidth of 0.272
Picking joint bandwidth of 0.157
done!
Picking joint bandwidth of 0.125
cloning the gatingSet...
Normalize CD4+CD8-CD69
normalizing sample 1
normalizing sample 2
normalizing sample 3
normalizing sample 4
normalizing sample 5
normalizing sample 6
normalizing sample 7
normalizing sample 8
normalizing sample 9
normalizing sample 11
normalizing sample 12
normalizing sample 13
normalizing sample 14
normalizing sample 15
normalizing sample 16
done!
Picking joint bandwidth of 0.125
Error: processing vignette 'GettingStartedWithFlowStats.Rnw' failed with diagnostics:
unable to run pdflatex on 'GettingStartedWithFlowStats.tex'
LaTeX errors:
! LaTeX Error: File `comment.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.15 \usepackage
{graphicx}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘GettingStartedWithFlowStats.Rnw’
SUMMARY: processing the following file failed:
‘GettingStartedWithFlowStats.Rnw’
Error: Vignette re-building failed.
Execution halted