Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
Manuel Pizarro EBD-CSIC
Error installing 'rgdal' on Centos 7
8 messages · Manuel Pizarro Gavilán, Martyn Plummer, Roger Bivand +1 more
Please do not cross-post. Please do provide sufficient information to help diagnose your problem (here the output of the ./configure run during installation). Almost certainly you are trying to install from source when one or more external dependency is not satisfied. Did you read: http://cran.r-project.org/bin/linux/redhat/README and note that R-rgdal is *not* provided as a binary? Did you read: http://cran.r-project.org/web/packages/rgdal/index.html Did you download the source package and read the README file, also on R-Forge linked from the CRAN page: https://r-forge.r-project.org/scm/viewvc.php/pkg/inst/README?view=markup&revision=409&root=rgdal Roger
On Thu, 15 Jan 2015, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
Roger Bivand Department of Economics, Norwegian School of Economics, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 91 00 e-mail: Roger.Bivand at nhh.no
You don't say exactly what the problem is, but I can give you some general advice. The first thing to check on any RPM-based system is that you have the appropriate development package installed, in this case gdal-devel. I see that ELGIS does not support CentOS 7, so that might be your problem. EPEL 7 does include gdal so you might rely on their package. If neither of these are helpful then you need to be more specific. Martyn
On Thu, 2015-01-15 at 11:09 +0100, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
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This message and its attachments are strictly confidenti...{{dropped:8}}
Good morning Martyn. Thank you for your email. Some details for the problem. This is the message of the console in R: ------------------
install.packages("rgdal")
Installing package into ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1? (as ?lib? is unspecified) probando la URL 'http://cran.rstudio.com/src/contrib/rgdal_0.9-1.tar.gz' Content type 'application/x-gzip' length 1624496 bytes (1.5 Mb) URL abierta ================================================== downloaded 1.5 Mb * installing *source* package ?rgdal? ... ** package ?rgdal? successfully unpacked and MD5 sums checked configure: CC: gcc -m64 -std=gnu99 configure: CXX: g++ -m64 configure: rgdal: 0.9-1 checking for /usr/bin/svnversion... yes configure: svn revision: 518 configure: gdal-config: gdal-config checking gdal-config usability... ./configure: line 2119: gdal-config: command not found no Error: gdal-config not found The gdal-config script distributed with GDAL could not be found. If you have not installed the GDAL libraries, you can download the source from http://www.gdal.org/ If you have installed the GDAL libraries, then make sure that gdal-config is in your path. Try typing gdal-config at a shell prompt and see if it runs. If not, use: --configure-args='--with-gdal-config=/usr/local/bin/gdal-config' with appropriate values for your installation. ERROR: configuration failed for package ?rgdal? * removing ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1/rgdal? Warning in install.packages : installation of package ?rgdal? had non-zero exit status The downloaded source packages are in ?/tmp/Rtmpeaf9P4/downloaded_packages?
------------------- I tried to install gdal -dev and gdal but it is impossible. Regards, Manuel Martyn Plummer <plummerm at iarc.fr> escribi?:
You don't say exactly what the problem is, but I can give you some general advice. The first thing to check on any RPM-based system is that you have the appropriate development package installed, in this case gdal-devel. I see that ELGIS does not support CentOS 7, so that might be your problem. EPEL 7 does include gdal so you might rely on their package. If neither of these are helpful then you need to be more specific. Martyn On Thu, 2015-01-15 at 11:09 +0100, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
-----------------------------------------------------------------------
This message and its attachments are strictly confiden...{{dropped:13}}
Hello Roger:
Thank you for your email.
Some details for the problem.
This is the message of the console in R:
------------------
install.packages("rgdal")
Installing package into
?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1?
(as ?lib? is unspecified)
probando la URL 'http://cran.rstudio.com/src/contrib/rgdal_0.9-1.tar.gz'
Content type 'application/x-gzip' length 1624496 bytes (1.5 Mb)
URL abierta
==================================================
downloaded 1.5 Mb
* installing *source* package ?rgdal? ...
** package ?rgdal? successfully unpacked and MD5 sums checked
configure: CC: gcc -m64 -std=gnu99
configure: CXX: g++ -m64
configure: rgdal: 0.9-1
checking for /usr/bin/svnversion... yes
configure: svn revision: 518
configure: gdal-config: gdal-config
checking gdal-config usability...
./configure: line 2119: gdal-config: command not found
no
Error: gdal-config not found
The gdal-config script distributed with GDAL could not be found.
If you have not installed the GDAL libraries, you can
download the source from http://www.gdal.org/
If you have installed the GDAL libraries, then make sure that
gdal-config is in your path. Try typing gdal-config at a
shell prompt and see if it runs. If not, use:
--configure-args='--with-gdal-config=/usr/local/bin/gdal-config'
with appropriate values for your installation.
ERROR: configuration failed for package ?rgdal?
* removing ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1/rgdal?
Warning in install.packages :
installation of package ?rgdal? had non-zero exit status
The downloaded source packages are in
?/tmp/Rtmpeaf9P4/downloaded_packages?
-------------------
I tried to install gdal -dev and gdal but it is impossible.
Regards,
Manuel
Roger Bivand <Roger.Bivand at nhh.no> escribi?:
Please do not cross-post. Please do provide sufficient information to help diagnose your problem (here the output of the ./configure run during installation). Almost certainly you are trying to install from source when one or more external dependency is not satisfied. Did you read: http://cran.r-project.org/bin/linux/redhat/README and note that R-rgdal is *not* provided as a binary? Did you read: http://cran.r-project.org/web/packages/rgdal/index.html Did you download the source package and read the README file, also on R-Forge linked from the CRAN page: https://r-forge.r-project.org/scm/viewvc.php/pkg/inst/README?view=markup&revision=409&root=rgdal Roger On Thu, 15 Jan 2015, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
-- Roger Bivand Department of Economics, Norwegian School of Economics, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 91 00 e-mail: Roger.Bivand at nhh.no
Manuel Pizarro EBD-CSIC
[Snipping r-dig-geo as I do not have the right to post there] The gdal-config script is provided by the gdal-devel RPM, so you need to install that. I did suggest this in my previous email. Martyn
On Fri, 2015-01-16 at 11:18 +0100, Manuel Pizarro Gavil?n wrote:
Good morning Martyn. Thank you for your email. Some details for the problem. This is the message of the console in R: ------------------
install.packages("rgdal")
Installing package into ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1? (as ?lib? is unspecified) probando la URL 'http://cran.rstudio.com/src/contrib/rgdal_0.9-1.tar.gz' Content type 'application/x-gzip' length 1624496 bytes (1.5 Mb) URL abierta ================================================== downloaded 1.5 Mb * installing *source* package ?rgdal? ... ** package ?rgdal? successfully unpacked and MD5 sums checked configure: CC: gcc -m64 -std=gnu99 configure: CXX: g++ -m64 configure: rgdal: 0.9-1 checking for /usr/bin/svnversion... yes configure: svn revision: 518 configure: gdal-config: gdal-config checking gdal-config usability... ./configure: line 2119: gdal-config: command not found no Error: gdal-config not found The gdal-config script distributed with GDAL could not be found. If you have not installed the GDAL libraries, you can download the source from http://www.gdal.org/ If you have installed the GDAL libraries, then make sure that gdal-config is in your path. Try typing gdal-config at a shell prompt and see if it runs. If not, use: --configure-args='--with-gdal-config=/usr/local/bin/gdal-config' with appropriate values for your installation. ERROR: configuration failed for package ?rgdal? * removing ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1/rgdal? Warning in install.packages : installation of package ?rgdal? had non-zero exit status The downloaded source packages are in ?/tmp/Rtmpeaf9P4/downloaded_packages?
------------------- I tried to install gdal -dev and gdal but it is impossible. Regards, Manuel Martyn Plummer <plummerm at iarc.fr> escribi?:
You don't say exactly what the problem is, but I can give you some general advice. The first thing to check on any RPM-based system is that you have the appropriate development package installed, in this case gdal-devel. I see that ELGIS does not support CentOS 7, so that might be your problem. EPEL 7 does include gdal so you might rely on their package. If neither of these are helpful then you need to be more specific. Martyn On Thu, 2015-01-15 at 11:09 +0100, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
----------------------------------------------------------------------- This message and its attachments are strictly confidential. If you are not the intended recipient of this message, please immediately notify the sender and delete it. Since its integrity cannot be guaranteed, its content cannot involve the sender's responsibility. Any misuse, any disclosure or publication of its content, either whole or partial, is prohibited, exception made of formally approved use -----------------------------------------------------------------------
On Fri, 16 Jan 2015, Manuel Pizarro Gavil?n wrote:
Hello Roger:
Thank you for your email.
Some details for the problem.
This is the message of the console in R:
------------------
install.packages("rgdal")
Installing package into
?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1?
(as ?lib? is unspecified)
probando la URL 'http://cran.rstudio.com/src/contrib/rgdal_0.9-1.tar.gz'
Content type 'application/x-gzip' length 1624496 bytes (1.5 Mb)
URL abierta
==================================================
downloaded 1.5 Mb
* installing *source* package ?rgdal? ...
** package ?rgdal? successfully unpacked and MD5 sums checked
configure: CC: gcc -m64 -std=gnu99
configure: CXX: g++ -m64
configure: rgdal: 0.9-1
checking for /usr/bin/svnversion... yes
configure: svn revision: 518
configure: gdal-config: gdal-config
checking gdal-config usability...
./configure: line 2119: gdal-config: command not found
no
Error: gdal-config not found
The gdal-config script distributed with GDAL could not be found.
If you have not installed the GDAL libraries, you can
download the source from http://www.gdal.org/
If you have installed the GDAL libraries, then make sure that
gdal-config is in your path. Try typing gdal-config at a
shell prompt and see if it runs. If not, use:
--configure-args='--with-gdal-config=/usr/local/bin/gdal-config'
with appropriate values for your installation.
ERROR: configuration failed for package ?rgdal?
* removing ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1/rgdal?
Warning in install.packages :
installation of package ?rgdal? had non-zero exit status
The downloaded source packages are in
?/tmp/Rtmpeaf9P4/downloaded_packages?
-------------------
I tried to install gdal -dev and gdal but it is impossible.
No, it isn't. Install PROJ.4 first then GDAL from source, and everything is under your control. The README file I referred to does list the RPMs needed, but you will do better choosing the drivers for GDAL you need yourself, installing their dependencies, and building at least PROJ.4 and GDAL from source. Centos 7 does not yet seem to be well supported anywhere for these, and for 6 the versions are typically old or very old. http://download.osgeo.org/proj/proj-4.8.0.tar.gz http://download.osgeo.org/proj/proj-datumgrid-1.5.zip then http://download.osgeo.org/gdal/1.11.1/gdal-1.11.1.tar.gz Remember to run ldconfig after installing to make the shared objects visible. Roger
Regards, Manuel Roger Bivand <Roger.Bivand at nhh.no> escribi?:
Please do not cross-post. Please do provide sufficient information to help diagnose your problem (here the output of the ./configure run during installation). Almost certainly you are trying to install from source when one or more external dependency is not satisfied. Did you read: http://cran.r-project.org/bin/linux/redhat/README and note that R-rgdal is *not* provided as a binary? Did you read: http://cran.r-project.org/web/packages/rgdal/index.html Did you download the source package and read the README file, also on R-Forge linked from the CRAN page: https://r-forge.r-project.org/scm/viewvc.php/pkg/inst/README?view=markup&revision=409&root=rgdal Roger On Thu, 15 Jan 2015, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
-- Roger Bivand Department of Economics, Norwegian School of Economics, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 91 00 e-mail: Roger.Bivand at nhh.no
Roger Bivand Department of Economics, Norwegian School of Economics, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 91 00 e-mail: Roger.Bivand at nhh.no
Dear Manuel,
The underlying problem is that you have problems installing the GDAL library on your system. Without GDAL you cannot install rgdal on Linux OS. You need to provide more information on why it is impossible to install GDAL on your system.
Best regards,
Thierry
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
Kliniekstraat 25
1070 Anderlecht
Belgium
+ 32 2 525 02 51
+ 32 54 43 61 85
Thierry.Onkelinx at inbo.be
www.inbo.be
To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher
The plural of anecdote is not data. ~ Roger Brinner
The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey
________________________________________
Van: R-sig-Geo [r-sig-geo-bounces at r-project.org] namens Manuel Pizarro Gavil?n [pizarro at ebd.csic.es]
Verzonden: vrijdag 16 januari 2015 11:19
Aan: Roger Bivand
CC: r-sig-geo at r-project.org; r-sig-fedora at r-project.org
Onderwerp: Re: [R-sig-Geo] Error installing 'rgdal' on Centos 7
Hello Roger:
Thank you for your email.
Some details for the problem.
This is the message of the console in R:
------------------
install.packages("rgdal")
Installing package into
?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1?
(as ?lib? is unspecified)
probando la URL 'http://cran.rstudio.com/src/contrib/rgdal_0.9-1.tar.gz'
Content type 'application/x-gzip' length 1624496 bytes (1.5 Mb)
URL abierta
==================================================
downloaded 1.5 Mb
* installing *source* package ?rgdal? ...
** package ?rgdal? successfully unpacked and MD5 sums checked
configure: CC: gcc -m64 -std=gnu99
configure: CXX: g++ -m64
configure: rgdal: 0.9-1
checking for /usr/bin/svnversion... yes
configure: svn revision: 518
configure: gdal-config: gdal-config
checking gdal-config usability...
./configure: line 2119: gdal-config: command not found
no
Error: gdal-config not found
The gdal-config script distributed with GDAL could not be found.
If you have not installed the GDAL libraries, you can
download the source from http://www.gdal.org/
If you have installed the GDAL libraries, then make sure that
gdal-config is in your path. Try typing gdal-config at a
shell prompt and see if it runs. If not, use:
--configure-args='--with-gdal-config=/usr/local/bin/gdal-config'
with appropriate values for your installation.
ERROR: configuration failed for package ?rgdal?
* removing ?/home/aliendist/R/x86_64-redhat-linux-gnu-library/3.1/rgdal?
Warning in install.packages :
installation of package ?rgdal? had non-zero exit status
The downloaded source packages are in
?/tmp/Rtmpeaf9P4/downloaded_packages?
-------------------
I tried to install gdal -dev and gdal but it is impossible.
Regards,
Manuel
Roger Bivand <Roger.Bivand at nhh.no> escribi?:
Please do not cross-post. Please do provide sufficient information to help diagnose your problem (here the output of the ./configure run during installation). Almost certainly you are trying to install from source when one or more external dependency is not satisfied. Did you read: http://cran.r-project.org/bin/linux/redhat/README and note that R-rgdal is *not* provided as a binary? Did you read: http://cran.r-project.org/web/packages/rgdal/index.html Did you download the source package and read the README file, also on R-Forge linked from the CRAN page: https://r-forge.r-project.org/scm/viewvc.php/pkg/inst/README?view=markup&revision=409&root=rgdal Roger On Thu, 15 Jan 2015, Manuel Pizarro Gavil?n wrote:
Hello: I can't install the ' rgdal ' package in R and ' GDAL ' on CentOS 7 (ELGIS repo added). Is there any solution? Thanks
-- Roger Bivand Department of Economics, Norwegian School of Economics, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 91 00 e-mail: Roger.Bivand at nhh.no
-- Manuel Pizarro EBD-CSIC _______________________________________________ R-sig-Geo mailing list R-sig-Geo at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-geo Disclaimer<https://www.inbo.be/nl/disclaimer-mailberichten-van-het-inbo>