My guess is that your g++ is being used differently to build R and GDAL
(seen before off-list in August). If you install PROJ, GDAL and R from
source on your platform, they will (most likely) match. It looks as though
R was not built with -std=c++11 or -std=gnu++11. On your current platform,
you almost certainly have a more modern g++, and your R should be built
with this for packages using C++. Do you know where synaptic is getting
its binaries?
Roger
On Tue, 12 Sep 2017, Agustin Lobo wrote:
Using Synaptic.
I just tested with a live usb with Debian Stretch, and with stretch
rgdal installs with no problems (after installing gdal-bin, gdal-dev
and dependencies) .
Agus
On Tue, Sep 12, 2017 at 10:15 AM, Edzer Pebesma
<edzer.pebe...@uni-muenster.de> wrote:
How did you install gdal and proj on that machine?
On 12/09/17 09:10, Agustin Lobo wrote:
Thanks,
As indicated, I do:
$ R CMD INSTALL rgdal_1.2-8.tar.gz 2>&1 | tee rgdal.log
The whole output is here:
https://drive.google.com/open?id=0B_LsZU5NlOztb0ZYQzZZRDQ0WkU
The problem starts at:
configure: PROJ.4 version: 4.8.0
./configure: line 3725: 8390 Segmentation fault ./proj_conf_test
checking PROJ.4: epsg found and readable... yes
./configure: line 3800: 8399 Segmentation fault ./proj_conf_test
checking PROJ.4: conus found and readable... yes
configure: Package CPP flags: -I/usr/include/gdal
configure: Package LIBS: -L/usr/lib -lgdal -lproj
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -I/usr/share/R/include -DNDEBUG -I/usr/include/gdal
-I"/home/alobo/R/i686-pc-linux-gnu-library/3.3/sp/include" -fpic -g
-O2 -fdebug-prefix-map=/build/r-base-yDv1ct/r-base-3.3.3=.
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
-D_FORTIFY_SOURCE=2 -g -c OGR_write.cpp -o OGR_write.o
In file included from /usr/include/gdal/ogr_feature.h:35:0,
from /usr/include/gdal/ogrsf_frmts.h:35,
from OGR_write.cpp:2:
/usr/include/gdal/ogr_featurestyle.h:264:17: warning: override
controls (override/final) only available with -std=c++11 or
-std=gnu++11
GBool Parse() CPL_OVERRIDE;
I'm totally clueless...
Agus
On Fri, Sep 8, 2017 at 4:00 PM, Roger Bivand <roger.biv...@nhh.no> wrote:
Please use the command line: R CMD INSTALL <tarball> and pipe the output (tee)
2>&1 to a file. Please do not post the file, read it to find the root cause. Almost
certainly the installed GDAL ha different assumptions about the g++ compiler than R itself,
so you may need to install GDAL and R from source. There have been unclear reports of issues
with -std=.
Hope this helps,
Roger
Roger Bivand
Norwegian School of Economics
Bergen, Norway
Fra: Agustin Lobo
Sendt: fredag 8. september, 14.49
Emne: [R-sig-Geo] Errors at installing rgdal on Debian Buster
Til: r-sig-geo
I get lots of errors at installing rgdal on a recently upgraded machine to Debian Buster
and R3.3.3 There are so many errors that I cannot scroll up enough as to get where the
errors actually start and report. Is there any way to save the output of
install.packages("rgdal") ? Any other reports on problems installing rgdal on
Debian Buster ? Thanks Agus _______________________________________________ R-sig-Geo
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--
Edzer Pebesma
Institute for Geoinformatics (ifgi), University of Münster
Heisenbergstraße 2, 48149 Münster, Germany; +49 251 83 33081
Journal of Statistical Software: http://www.jstatsoft.org/
Computers & Geosciences: http://elsevier.com/locate/cageo/
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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.biv...@nhh.no
Editor-in-Chief of The R Journal, https://journal.r-project.org/index.html
http://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en
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