[Bioc-devel] Build error on nebbiolo2

[Hervé Pagès]

Hi Gregory,

Looks like GDAL is missing on nebbolo2. We're looking into this.

Thanks for letting us know,

H.


On 10/23/23 10:25, Gregory B. Gloor wrote:
> Hello,
>
> I received an error today on this machine for ALDEx2
>
> I last committed 12 days ago and until today it was building cleanly on everything. I am not sure what I can do to fix the error since I don't know what dependency is calling that library file
>
> Any help appreciated
>
> Greg
>
> ##############################################################################
> ##############################################################################
> ###
> ### Running command:
> ###
> ### /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ALDEx2
> ###
> ##############################################################################
> ##############################################################################
>
>
> * checking for file ‘ALDEx2/DESCRIPTION’ ... OK
> * preparing ‘ALDEx2’:
> * checking DESCRIPTION meta-information ... OK
> * installing the package to build vignettes
> * creating vignettes ... ERROR
> --- re-building ‘ALDEx2_vignette.Rmd’ using rmarkdown
> --- finished re-building ‘ALDEx2_vignette.Rmd’
>
> --- re-building ‘scaleSim_vignette.Rmd’ using rmarkdown
>
> Quitting from lines 331-419 [graph] (scaleSim_vignette.Rmd)
> Error: processing vignette 'scaleSim_vignette.Rmd' failed with diagnostics:
> unable to load shared object '/home/biocbuild/bbs-3.18-bioc/R/site-library/sf/libs/sf.so':
> libgdal.so.30: cannot open shared object file: No such file or directory
> --- failed re-building ‘scaleSim_vignette.Rmd’
>
> SUMMARY: processing the following file failed:
> ‘scaleSim_vignette.Rmd’
>
> Error: Vignette re-building failed.
> Execution halted
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-- 
Hervé Pagès

Bioconductor Core Team
hpages.on.github using gmail.com

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