[R-sig-Geo] Library version mis-match

[Roger Bivand]

On Thu, 20 Sep 2018, Rich Shepard wrote:

>  If the r-help list is better suited for this question let me know and I'll
> move the thread there.

No, this is the right list, but always include the output of 
sessionInfo(), and the startup messages shown by rgdal and rgeos when they 
are attached.

>
>  Installed here are gdal-2.2.4 and geos-3.7.0
>

How many other versions of gdal and/or geos do you have? It looks as 
though libgdal was built against libgeos-3.6.3, but you upgraded libgeos 
later, removing that version. Easiest is having one version only, and 
building everything in lockstep (PROJ and GEOS, then GDAL, then rgdal 
and/or GRASS) and having only one version of each. Both rgdal and rgeos 
may suffer from being installed with the versions shown by gdal-config and 
geos-config, but finding different versions in the dynamic library load 
path. I'm assuming you are neither on Windows nor MacOS - all this is 
sorted out on CRAN in binary rgdal and rgeos (and sf) packages for those 
platforms.

Hope this helps,

Roger

>  When I check installed libraries with library() both rgdal and rgeos are
> shown as being available:
>
> rgdal                   Bindings for the 'Geospatial' Data Abstraction
>                        Library
> rgeos                   Interface to Geometry Engine - Open Source
>                         ('GEOS')
>
>  However, when I try to use them in an operation with the sp() package the
> attempts fail. So I tried re-installing them. rgeos had no problem
> re-installing, but rgdal is not happy:
>
> ** testing if installed package can be loaded
> Error: package or namespace load failed for ?rgdal? in dyn.load(file, DLLpath 
> = DLLpath, ...):
>  unable to load shared object '/usr/lib/R/library/rgdal/libs/rgdal.so':
>  libgeos-3.6.3.so: cannot open shared object file: No such file or directory
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing ?/usr/lib/R/library/rgdal?
> * restoring previous ?/usr/lib/R/library/rgdal?
>
> The downloaded source packages are in
> 	?/tmp/Rtmp22EDOj/downloaded_packages?
> Updating HTML index of packages in '.Library'
> Making 'packages.html' ... done
> Warning message:
> In install.packages("rgdal") :
>   installation of package ?rgdal? had non-zero exit status
>
>  How can I resolve this by having R recognize, and use, geos-3.7.0? Or, do
> I need to downgrade geos to the earlier 3.6.3?
>
> Rich
>
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>

-- 
Roger Bivand
Department of Economics, Norwegian School of Economics,
Helleveien 30, N-5045 Bergen, Norway.
voice: +47 55 95 93 55; e-mail: Roger.Bivand using nhh.no
http://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en