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This page was generated on 2024-03-27 11:37:33 -0400 (Wed, 27 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4667
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4403
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4426
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 582/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DMRforPairs 1.38.0  (landing page)
Martin Rijlaarsdam
Snapshot Date: 2024-03-25 14:05:07 -0400 (Mon, 25 Mar 2024)
git_url: https://git.bioconductor.org/packages/DMRforPairs
git_branch: RELEASE_3_18
git_last_commit: 370714c
git_last_commit_date: 2023-10-24 09:58:37 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

BUILD results for DMRforPairs on merida1


To the developers/maintainers of the DMRforPairs package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DMRforPairs.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: DMRforPairs
Version: 1.38.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data DMRforPairs
StartedAt: 2024-03-25 18:17:08 -0400 (Mon, 25 Mar 2024)
EndedAt: 2024-03-25 18:20:07 -0400 (Mon, 25 Mar 2024)
EllapsedTime: 179.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data DMRforPairs
###
##############################################################################
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* checking for file ‘DMRforPairs/DESCRIPTION’ ... OK
* preparing ‘DMRforPairs’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘DMRforPairs_vignette.Rnw’ using Sweave
Loading required package: Gviz
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics

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, 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


Attaching package: ‘S4Vectors’

The following object is masked from ‘package:utils’:

    findMatches

The following objects are masked from ‘package:base’:

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: grid
Loading required package: R2HTML
Loading required package: parallel
Warning: Package 'DMRforPairs' is deprecated and will be removed from
  Bioconductor version 3.19
min_distance=c(200, 300, 200, 300), min_n=c(4, 4, 5, 5)
Recoding annotation classes...
Body --> gene
5'UTR --> gene
3'UTR --> gene
1stExon --> gene
TSS1500 --> tss
TSS200 --> tss
Island --> island
N_Shelf --> island
N_Shore --> island
S_Shelf --> island
S_Shore --> island
Calculating the number of regions and associated probes for the requested set of parameters
Regionfinder: processing chr7 (1/1)

Error: processing vignette 'DMRforPairs_vignette.Rnw' failed with diagnostics:
 chunk 3 
Error in xtfrm.data.frame(x) : cannot xtfrm data frames

--- failed re-building 'DMRforPairs_vignette.Rnw'

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

Error: Vignette re-building failed.
Execution halted