GNU bug report logs - #70064
Error when loading r-sf and other spatial packages (gdal related)

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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Javier Vaquero Martínez <javier_vm <at> unex.es>
To: bug-guix <at> gnu.org
Subject: Error when loading r-sf and other spatial packages (gdal related)
Date: Thu, 28 Mar 2024 18:02:13 +0100

[Message part 1 (text/plain, inline)]

Dear guix community,

I am quite new to Guix so I apologize if I am doing something wrong.

I added channel guix-cran to get R packages. I installed r-sf r-terra, 
and other packages. However, I cannot load them in R.

Here, at the end of the message I show and example with r-rgdal but same 
thing happens with r-sf or r-terra.

Am I doing something wrong? Can you reproduce the bug?

Regards,

Javier.

|$ guix shell r r-rgdal -- R -e "library(rgdal)" R version 4.3.3 
(2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation 
for Statistical Computing Platform: x86_64-unknown-linux-gnu (64-bit) R 
es un software libre y viene sin GARANTIA ALGUNA. Usted puede 
redistribuirlo bajo ciertas circunstancias. Escriba 'license()' o 
'licence()' para detalles de distribucion. R es un proyecto colaborativo 
con muchos contribuyentes. Escriba 'contributors()' para obtener más 
información y 'citation()' para saber cómo citar R o paquetes de R en 
publicaciones. Escriba 'demo()' para demostraciones, 'help()' para el 
sistema on-line de ayuda, o 'help.start()' para abrir el sistema de 
ayuda HTML con su navegador. Escriba 'q()' para salir de R. > 
library(rgdal) Loading required package: sp Error: package or namespace 
load failed for ‘rgdal’ in dyn.load(file, DLLpath = DLLpath, ...): 
unable to load shared object 
'/gnu/store/xjs26gdxwj2149rzxmq1rfikbly2i1yr-r-rgdal-1.6-7/site-library/rgdal/libs/rgdal.so': 
/gnu/store/71kgqypidg2ksvwm84ccqjwyzai9ay1i-gdal-3.6.1/lib/libgdal.so.32: 
undefined symbol: GEOSConcaveHull_r |

​

[Message part 2 (text/html, inline)]

Message #8 received at 70064 <at> debbugs.gnu.org (full text, mbox):

From: Javier Vaquero Martínez <javier_vm <at> unex.es>
To: 70064 <at> debbugs.gnu.org
Subject: Error when loading r-sf and other spatial packages (gdal related)
Date: Thu, 4 Apr 2024 18:04:10 +0200

So I managed to solve this. It turns out that some environment variables 
where making this error to happen. Running in an isolated environment 
with `guix shell -C r r-sf -- r` solves the problem.


Regards

Message #11 received at 70064 <at> debbugs.gnu.org (full text, mbox):

From: Simon Tournier <zimon.toutoune <at> gmail.com>
To: Javier Vaquero Martínez <javier_vm <at> unex.es>,
 70064 <at> debbugs.gnu.org
Subject: Re: bug#70064: Error when loading r-sf and other spatial packages
 (gdal related)
Date: Wed, 05 Jun 2024 18:54:57 +0200

Hi,

On Thu, 04 Apr 2024 at 18:04, Javier Vaquero Martínez <javier_vm <at> unex.es> wrote:

> So I managed to solve this. It turns out that some environment variables 
> where making this error to happen. Running in an isolated environment 
> with `guix shell -C r r-sf -- r` solves the problem.

Thanks for letting us know.  Therefore, can we close?

Cheers,
simon

Message #14 received at 70064 <at> debbugs.gnu.org (full text, mbox):

From: Javier Vaquero Martínez <javier_vm <at> unex.es>
To: Simon Tournier <zimon.toutoune <at> gmail.com>, 70064 <at> debbugs.gnu.org
Subject: Re: bug#70064: Error when loading r-sf and other spatial packages
 (gdal related)
Date: Wed, 5 Jun 2024 19:18:12 +0200

Yes, it can be closed.

Regards.

El 5/6/24 a las 18:54, Simon Tournier escribió:
> [No suele recibir correo electrónico de zimon.toutoune <at> gmail.com. Descubra por qué esto es importante en https://aka.ms/LearnAboutSenderIdentification ]
>
> Hi,
>
> On Thu, 04 Apr 2024 at 18:04, Javier Vaquero Martínez <javier_vm <at> unex.es> wrote:
>
>> So I managed to solve this. It turns out that some environment variables
>> where making this error to happen. Running in an isolated environment
>> with `guix shell -C r r-sf -- r` solves the problem.
> Thanks for letting us know.  Therefore, can we close?
>
> Cheers,
> simon

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