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This page was generated on 2021-09-24 15:06:02 -0400 (Fri, 24 Sep 2021).

BUILD results for annotatr on tokay2

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

Package 69/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
annotatr 1.18.1  (landing page)
Raymond G. Cavalcante
Snapshot Date: 2021-09-23 04:50:12 -0400 (Thu, 23 Sep 2021)
git_url: https://git.bioconductor.org/packages/annotatr
git_branch: RELEASE_3_13
git_last_commit: 0066d80
git_last_commit_date: 2021-07-12 10:41:46 -0400 (Mon, 12 Jul 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: annotatr
Version: 1.18.1
Command: chmod a+r annotatr -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data annotatr
StartedAt: 2021-09-23 11:16:32 -0400 (Thu, 23 Sep 2021)
EndedAt: 2021-09-23 11:18:42 -0400 (Thu, 23 Sep 2021)
EllapsedTime: 130.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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###
### Running command:
###
###   chmod a+r annotatr -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data annotatr
###
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* checking for file 'annotatr/DESCRIPTION' ... OK
* preparing 'annotatr':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'annotatr-vignette.Rmd' using rmarkdown
snapshotDate(): 2021-05-18
Building annotation Gm12878 from AnnotationHub resource AH23256 ...
Could not check id: AH23256 for updates.
  Using previously cached version.
loading from cache
require("rtracklayer")
Could not check id: AH23256 for updates.
  Using previously cached version.

Attaching package: 'Biostrings'

The following object is masked from 'package:base':

    strsplit

Loading required package: GenomicFeatures
Loading required package: AnnotationDbi
Loading required package: Biobase
Welcome to Bioconductor

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


'select()' returned 1:1 mapping between keys and columns
Building promoters...
Building 1to5kb upstream of TSS...
Building intergenic...
Building 5UTRs...
Building 3UTRs...
Building exons...
Building introns...
Building intron exon boundaries...
snapshotDate(): 2021-05-18
Building CpG islands...
loading from cache
Building CpG shores...
Building CpG shelves...
Building inter-CpG-islands...
Annotating...
Quitting from lines 194-207 (annotatr-vignette.Rmd) 
Error: processing vignette 'annotatr-vignette.Rmd' failed with diagnostics:
cannot open URL 'http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz'
--- failed re-building 'annotatr-vignette.Rmd'

SUMMARY: processing the following file failed:
  'annotatr-vignette.Rmd'

Error: Vignette re-building failed.
Execution halted