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### Running command:
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###   /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings IMPCdata_1.37.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/IMPCdata.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘IMPCdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘IMPCdata’ version ‘1.37.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘IMPCdata’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
getPhenCenters   1.745  0.032  46.685
getAlleles       0.797  0.013  23.589
getGenes         0.791  0.011  37.814
getPipelines     0.759  0.020  27.920
getProcedures    0.762  0.015  30.280
printProcedures  0.761  0.008  33.508
printPipelines   0.754  0.013  22.019
getParameters    0.754  0.012  23.888
printAlleles     0.740  0.015  28.623
printGenes       0.739  0.016  22.730
printParameters  0.750  0.004  20.588
getIMPCTable     0.499  0.008   9.386
getStrains       0.390  0.000  14.841
printStrains     0.379  0.003   7.860
getIMPCDataset   0.200  0.078 551.155
printPhenCenters 0.252  0.008  11.033
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘IMPCdata.Rnw’... OK
 OK
* checking re-building of vignette outputs ... NOTE
Error(s) in re-building vignettes:
  ...
--- re-building ‘IMPCdata.Rnw’ using Sweave
Warning in file(con, "r") :
  URL 'https://www.ebi.ac.uk/mi/impc/solr/experiment/select?q=gene_accession_id:MGI%5C:101857&rows=0&wt=json&facet=true&facet.mincount=1&facet.limit=-1&facet.field=gene_symbol': status was 'Failure when receiving data from the peer'

Error: processing vignette 'IMPCdata.Rnw' failed with diagnostics:
 chunk 8 
Error in file(con, "r") : 
  cannot open the connection to 'https://www.ebi.ac.uk/mi/impc/solr/experiment/select?q=gene_accession_id:MGI%5C:101857&rows=0&wt=json&facet=true&facet.mincount=1&facet.limit=-1&facet.field=gene_symbol'

--- failed re-building ‘IMPCdata.Rnw’

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

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.18-bioc/meat/IMPCdata.Rcheck/00check.log’
for details.

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###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL IMPCdata
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* installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’
* installing *source* package ‘IMPCdata’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (IMPCdata)