Back to Build/check report for BioC 3.18:   simplified   long
ABCDEFGHIJKLMNO[P]QRSTUVWXYZ

This page was generated on 2023-05-26 06:18:13 -0000 (Fri, 26 May 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.0 (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

BUILD results for PREDA on kunpeng2


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

raw results

Package 1527/2197HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PREDA 1.47.0  (landing page)
Francesco Ferrari
Snapshot Date: 2023-05-25 13:29:39 -0000 (Thu, 25 May 2023)
git_url: https://git.bioconductor.org/packages/PREDA
git_branch: devel
git_last_commit: ff2e09c
git_last_commit_date: 2023-04-25 14:20:33 -0000 (Tue, 25 Apr 2023)
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

Summary

Package: PREDA
Version: 1.47.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data PREDA
StartedAt: 2023-05-26 00:38:35 -0000 (Fri, 26 May 2023)
EndedAt: 2023-05-26 00:39:15 -0000 (Fri, 26 May 2023)
EllapsedTime: 40.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data PREDA
###
##############################################################################
##############################################################################


* checking for file ‘PREDA/DESCRIPTION’ ... OK
* preparing ‘PREDA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘PREDAclasses.Rnw’ using Sweave
--- finished re-building ‘PREDAclasses.Rnw’

--- re-building ‘PREDAtutorial.Rnw’ using Sweave
Loading required package: PREDAsampledata
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘PREDAsampledata’
Loading required package: PREDA
Loading required package: Biobase
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

Welcome to Bioconductor

    Vignettes contain introductory material; view
    with 'browseVignettes()'. To cite Bioconductor,
    see 'citation("Biobase")', and for packages
    'citation("pkgname")'.

Loading required package: lokern
Loading required package: multtest
Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

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: XML
Warning in file(file, "rt") :
  file("") only supports open = "w+" and open = "w+b": using the former

Error: processing vignette 'PREDAtutorial.Rnw' failed with diagnostics:
 chunk 3 
Error in read.table(infofile, sep = "\t", header = TRUE) : 
  no lines available in input

--- failed re-building ‘PREDAtutorial.Rnw’

SUMMARY: processing the following file failed:
  ‘PREDAtutorial.Rnw’

Error: Vignette re-building failed.
Execution halted