Back to Mac ARM64 build report for BioC 3.19
ABCDEFGHIJKLMNOPQR[S]TUVWXYZ

This page was generated on 2024-05-07 11:32:46 -0400 (Tue, 07 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson3macOS 13.6.5 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4461
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

Package 2091/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
STRINGdb 2.16.2  (landing page)
Damian Szklarczyk
Snapshot Date: 2024-05-06 14:00:02 -0400 (Mon, 06 May 2024)
git_url: https://git.bioconductor.org/packages/STRINGdb
git_branch: RELEASE_3_19
git_last_commit: 0e77d42
git_last_commit_date: 2024-05-06 11:53:52 -0400 (Mon, 06 May 2024)
kjohnson3macOS 13.6.5 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for STRINGdb on kjohnson3


To the developers/maintainers of the STRINGdb package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: STRINGdb
Version: 2.16.2
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data STRINGdb
StartedAt: 2024-05-06 19:11:35 -0400 (Mon, 06 May 2024)
EndedAt: 2024-05-06 19:14:20 -0400 (Mon, 06 May 2024)
EllapsedTime: 164.7 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data STRINGdb
###
##############################################################################
##############################################################################


* checking for file ‘STRINGdb/DESCRIPTION’ ... OK
* preparing ‘STRINGdb’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘STRINGdb.Rnw’ using Sweave
trying URL 'https://stringdb-downloads.org/download/protein.aliases.v12.0/9606.protein.aliases.v12.0.txt.gz'
Content type 'application/octet-stream' length 19777800 bytes (18.9 MB)
==================================================
downloaded 18.9 MB

trying URL 'https://stringdb-downloads.org/download/protein.info.v12.0/9606.protein.info.v12.0.txt.gz'
Content type 'application/octet-stream' length 1970090 bytes (1.9 MB)
==================================================
downloaded 1.9 MB

trying URL 'https://stringdb-downloads.org/download/protein.links.v12.0/9606.protein.links.v12.0.txt.gz'
Content type 'application/octet-stream' length 83164437 bytes (79.3 MB)
==================================================
downloaded 79.3 MB

Error: processing vignette 'STRINGdb.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'STRINGdb.tex' failed.
LaTeX errors:
! Missing $ inserted.
<inserted text> 
                $
l.43 ...on (https://string-db.org/cgi/input?input_
                                                  page_active_form=organisms...
! Emergency stop.
<inserted text> 
                $
l.43 ...on (https://string-db.org/cgi/input?input_
                                                  page_active_form=organisms...
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘STRINGdb.Rnw’

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

Error: Vignette re-building failed.
Execution halted