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URL:  https://git.bioconductor.org/packages/ontoProc2
Last Changed Rev:  / Revision: 
Last Changed Date: 

Hostname OS /Arch BUILD CHECK BUILD BIN POST-PROCESSING
nebbiolo1 Linux (Ubuntu 24.04.3 LTS)/x86_64   ERROR     skipped     skipped     skipped  

nebbiolo1 Summary

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Package: ontoProc2
Version: 0.99.9
RVersion: 4.6
BiocVersion: 3.23
BuildCommand: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ontoProc2
BuildTime: 2 minutes 19.89 seconds
CheckCommand:
CheckTime:
BuildBinCommand:
BuildBinTime:
PackageFileSize: -1.00 KiB
BuildID:: ontoProc2_20260331122912
PreProcessing: Starting Git clone. Installing dependencies. Checking Git Clone. Installing package: ontoProc2. Starting Build package.
PostProcessing: Finished Git clone. Package type: Software. Installing dependency status: 0. Checking git clone status: 0. Installing package status: 0. Build Package status: 1.

nebbiolo1 BUILD SRC output

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===============================

 R CMD BUILD

===============================

* checking for file ‘ontoProc2/DESCRIPTION’ ... OK
* preparing ‘ontoProc2’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘celltoprotein.Rmd’ using rmarkdown
trying URL 'https://s3.amazonaws.com/bbop-sqlite/pr.db.gz'
Content type 'binary/octet-stream' length 795519481 bytes (758.7 MB)
==================================
downloaded 523.4 MB


Quitting from celltoprotein.Rmd:53-57 [lkct2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! download from 'https://s3.amazonaws.com/bbop-sqlite/pr.db.gz' failed
---
Backtrace:
    ▆
 1. └─ontoProc2::get_present_pmp(names(cd8reg))
 2.   └─ontoProc2::semsql_connect(ontology = "pr")
 3.     └─ontoProc2::retrieve_semsql_conn(ontology, cache = cache, ...)
 4.       └─utils::download.file(addr, file.path(td, zdbname), ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'celltoprotein.Rmd' failed with diagnostics:
download from 'https://s3.amazonaws.com/bbop-sqlite/pr.db.gz' failed
--- failed re-building ‘celltoprotein.Rmd’

--- re-building ‘ontoProc2.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
--- finished re-building ‘ontoProc2.Rmd’

--- re-building ‘uberonpeek.Rmd’ using rmarkdown
--- finished re-building ‘uberonpeek.Rmd’

SUMMARY: processing the following file failed:
  ‘celltoprotein.Rmd’

Error: Vignette re-building failed.
Execution halted

nebbiolo1 CHECK output

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nebbiolo1 BUILD BIN output
 
                    			
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