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This page was generated on 2022-10-19 13:20:42 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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 PSICQUIC on nebbiolo1


To the developers/maintainers of the PSICQUIC package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PSICQUIC.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1519/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PSICQUIC 1.34.0  (landing page)
Paul Shannon
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/PSICQUIC
git_branch: RELEASE_3_15
git_last_commit: f3c1547
git_last_commit_date: 2022-04-26 11:17:01 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: PSICQUIC
Version: 1.34.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data PSICQUIC
StartedAt: 2022-10-18 17:39:39 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 17:44:16 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 276.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data PSICQUIC
###
##############################################################################
##############################################################################


* checking for file ‘PSICQUIC/DESCRIPTION’ ... OK
* preparing ‘PSICQUIC’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘PSICQUIC.Rnw’ using Sweave
Loading required package: IRanges
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, 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

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

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

    I, expand.grid, unname

Loading required package: biomaRt
Loading required package: httr
Loading required package: plyr

Attaching package: ‘plyr’

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

    desc

The following object is masked from ‘package:S4Vectors’:

    rename

Warning: replacing previous import ‘IRanges::desc’ by ‘plyr::desc’ when loading ‘PSICQUIC’
Warning: Package 'PSICQUIC' is deprecated and will be removed from Bioconductor
  version 3.16
checking for biomart access...
   does 'http://www.ensembl.org' respond?
   creating ensembl mart
Warning: Ensembl will soon enforce the use of https.
Ensure the 'host' argument includes "https://"
   hsapiens_gene_ensembl dataset provided?
Ensembl site unresponsive, trying asia mirror

Error: processing vignette 'PSICQUIC.Rnw' failed with diagnostics:
 chunk 8 (label = addGeneNames) 
Error in (function (cond)  : 
  error in evaluating the argument 'table' in selecting a method for function '%in%': Gateway Timeout (HTTP 504).

--- failed re-building ‘PSICQUIC.Rnw’

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

Error: Vignette re-building failed.
Execution halted