Multiple platform build/check report for BioC 3.21 - BUILD results for Rtreemix on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4824
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4566
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4604
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4545
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4579
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*

BUILD results for Rtreemix on palomino7

To the developers/maintainers of the Rtreemix package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Rtreemix.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.

raw results

Summary

Package: Rtreemix

Version: 1.70.0

Command: chmod a+r Rtreemix -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data Rtreemix

StartedAt: 2025-08-14 21:53:55 -0400 (Thu, 14 Aug 2025)

EndedAt: 2025-08-14 21:55:34 -0400 (Thu, 14 Aug 2025)

EllapsedTime: 99.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r Rtreemix -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data Rtreemix
###
##############################################################################
##############################################################################


* checking for file 'Rtreemix/DESCRIPTION' ... OK
* preparing 'Rtreemix':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'Rtreemix.Rnw' using Sweave
Warning in fun(libname, pkgname) :
  Package 'Rtreemix' is deprecated and will be removed from
  Bioconductor version 3.22
Loading required package: Rgraphviz
Loading required package: graph
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: 'generics'

The following objects are masked from 'package:Rtreemix':

    fit, generate

The following objects are masked from 'package:base':

    as.difftime, as.factor, as.ordered, intersect, is.element,
    setdiff, setequal, union


Attaching package: 'BiocGenerics'

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, aperm,
    append, as.data.frame, basename, cbind, colnames, dirname,
    do.call, duplicated, eval, evalq, get, grep, grepl,
    is.unsorted, lapply, mapply, match, mget, order, paste,
    pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames,
    sapply, saveRDS, table, tapply, unique, unsplit,
    which.max, which.min

Loading required package: grid

Error: processing vignette 'Rtreemix.Rnw' failed with diagnostics:
 chunk 13 
Error in UseMethod("generate") : 
  no applicable method for 'generate' applied to an object of class "c('double', 'numeric')"

--- failed re-building 'Rtreemix.Rnw'

SUMMARY: processing the following file failed:
  'Rtreemix.Rnw'

Error: Vignette re-building failed.
Execution halted