[R-sig-Geo] rgdal 1.5-8 released on CRAN

Sat May 30 13:17:20 CEST 2020

On Sat, 30 May 2020, Roy Mendelssohn - NOAA Federal via R-sig-Geo wrote:

>
> Where did you get rgdal-1.5-9?  On CRAN I see rgdal-1.5-8 and that is 
> what I was trying.

See earlier posts on this list May 29.

Roger

>
> Thanks,
>
> -Roy
>
>> On May 29, 2020, at 5:27 PM, chris english <englishchristophera using gmail.com> wrote:
>>
>> My problems of install of sf and dependencies were fixed by rgdal-1.5-9 and additionally
>> upgrading lwgeom and all other dependencies. Thank you all for your efforts and I am
>> in ubuntu 20.04.
>>
>> On Fri, May 29, 2020 at 5:57 PM chris english <englishchristophera using gmail.com> wrote:
>> And not desiring to muddy Thiago's clear waters, but when is Proj7* transition expected?
>>
>> Chris
>>
>> On Fri, May 29, 2020 at 5:46 PM Roy Mendelssohn - NOAA Federal via R-sig-Geo <r-sig-geo using r-project.org> wrote:
>> I just tried using the Anaconda setup  Mine dies on not being able to find “projects.h”.
>>
>>> inverser.c:5:10: fatal error: 'projects.h' file not found
>>> #include <projects.h>
>>>          ^~~~~~~~~~~~
>>
>>
>> Doing internet searches,  for PROJ6 and beyond,  this was made private,  and is not suppose to be for public linking, see:
>>
>> https://github.com/OSGeo/PROJ/issues/835 <https://github.com/OSGeo/PROJ/issues/835>
>> https://code.mpimet.mpg.de/boards/1/topics/1184 <https://code.mpimet.mpg.de/boards/1/topics/1184>
>>
>> The discussion in the second one suggests that it should be linking to the public header proj_api.h rather than the private header projects.h.  proj_api.h does exist in the installation I have.  Unless there is an easy fix I can do,  more than I want to mess with.
>>
>> -Roy
>>
>>
>>
>>> On May 29, 2020, at 2:25 PM, Thiago V. dos Santos via R-sig-Geo <r-sig-geo using r-project.org> wrote:
>>>
>>> Dear Roger,
>>>
>>> Many thanks for the effort keeping rgdal up-to-date with proj6.
>>>
>>> I'd like to report that I am unable to install rgdal 1.5.8 on my macOS system. I am reporting this error here on the list because I thought it would be the best channel in terms of reaching future users experiencing the same error. Please apologize if my rationale is not right, and ignore this message.
>>>
>>> GDAL was installed via MacPorts and is at its latest version, 3.1.0 (at the time of this writing). Proj6 has also been installed via Macports.
>>>
>>> This is how I am trying to install it:
>>>
>>> export PKG_CONFIG_PATH=/opt/local/lib/proj6/lib/pkgconfig
>>> R
>>> install.packages('rgdal', type="source", configure.args=c(
>>>      '--with-proj-include=/opt/local/lib/proj6/include',
>>>      '--with-proj-lib=/opt/local/lib/proj6/lib'))
>>>
>>> and this is the output I get:
>>>
>>> R version 4.0.0 (2020-04-24) -- "Arbor Day"
>>> Copyright (C) 2020 The R Foundation for Statistical Computing
>>> Platform: x86_64-apple-darwin17.0 (64-bit)
>>>
>>>
>>> R is free software and comes with ABSOLUTELY NO WARRANTY.
>>> You are welcome to redistribute it under certain conditions.
>>> Type 'license()' or 'licence()' for distribution details.
>>>
>>>
>>>   Natural language support but running in an English locale
>>>
>>>
>>> R is a collaborative project with many contributors.
>>> Type 'contributors()' for more information and
>>> 'citation()' on how to cite R or R packages in publications.
>>>
>>>
>>> Type 'demo()' for some demos, 'help()' for on-line help, or
>>> 'help.start()' for an HTML browser interface to help.
>>> Type 'q()' to quit R.
>>>
>>>
>>>> install.packages('rgdal', type="source", configure.args=c(
>>> +      '--with-proj-include=/opt/local/lib/proj6/include',
>>> +      '--with-proj-lib=/opt/local/lib/proj6/lib'))
>>> Installing package into ‘/Users/thiago/Documents/R-packages’
>>> (as ‘lib’ is unspecified)
>>>
>>>
>>>     trying URL 'https://cran.r-project.org/src/contrib/rgdal_1.5-8.tar.gz'
>>> Content type 'application/x-gzip' length 2299235 bytes (2.2 MB)
>>> ==================================================
>>> downloaded 2.2 MB
>>>
>>>
>>> * installing *source* package ‘rgdal’ ...
>>> ** package ‘rgdal’ successfully unpacked and MD5 sums checked
>>> ** using staged installation
>>> configure: R_HOME: /Library/Frameworks/R.framework/Resources
>>> configure: CC: /opt/local/bin/gcc
>>> configure: CXX: /opt/local/bin/g++
>>> configure: C++11 support available
>>> configure: rgdal: 1.5-8
>>> checking for /usr/bin/svnversion... yes
>>> configure: svn revision: 990
>>> checking for gdal-config... /opt/local/bin/gdal-config
>>> checking gdal-config usability... yes
>>> configure: GDAL: 3.1.0
>>> checking GDAL version >= 1.11.4... yes
>>> checking GDAL version <= 2.5 or >= 3.0... yes
>>> checking gdal: linking with --libs only... yes
>>> checking GDAL: gdal-config data directory readable... yes
>>> checking GDAL: /opt/local/share/gdal/stateplane.csv readable... yes
>>> configure: pkg-config proj exists, will use it
>>> configure: PROJ version: 6.3.2
>>> configure: proj CPP flags: -DPROJ_H_API -I/opt/local/lib/proj6/include
>>> configure: PROJ LIBS: -L/opt/local/lib/proj6/lib
>>> checking PROJ header API:... proj.h
>>> checking for gcc... /opt/local/bin/gcc
>>> checking whether the C compiler works... yes
>>> checking for C compiler default output file name... a.out
>>> checking for suffix of executables...
>>> checking whether we are cross compiling... no
>>> checking for suffix of object files... o
>>> checking whether we are using the GNU C compiler... yes
>>> checking whether /opt/local/bin/gcc accepts -g... yes
>>> checking for /opt/local/bin/gcc option to accept ISO C89... none needed
>>> checking how to run the C preprocessor... /opt/local/bin/gcc -E
>>> checking for grep that handles long lines and -e... /usr/bin/grep
>>> checking for egrep... /usr/bin/grep -E
>>> checking for ANSI C header files... rm: conftest.dSYM: is a directory
>>> rm: conftest.dSYM: is a directory
>>> yes
>>> checking for sys/types.h... yes
>>> checking for sys/stat.h... yes
>>> checking for stdlib.h... yes
>>> checking for string.h... yes
>>> checking for memory.h... yes
>>> checking for strings.h... yes
>>> checking for inttypes.h... yes
>>> checking for stdint.h... yes
>>> checking for unistd.h... yes
>>> checking proj.h usability... yes
>>> checking proj.h presence... yes
>>> checking for proj.h... yes
>>> checking for proj_context_create in -lproj... no
>>> configure: error: proj_context_create not found in libproj.
>>> ERROR: configuration failed for package ‘rgdal’
>>> * removing ‘/Users/thiago/Documents/R-packages/rgdal’
>>> * restoring previous ‘/Users/thiago/Documents/R-packages/rgdal’
>>>
>>>
>>> The downloaded source packages are in
>>>     ‘/private/var/folders/_z/01gg71zs19g816v6m2dddt8w0000gn/T/RtmpvZAChj/downloaded_packages’
>>> Warning message:
>>> In install.packages("rgdal", type = "source", configure.args = c("--with-proj-include=/opt/local/lib/proj6/include",  :
>>>   installation of package ‘rgdal’ had non-zero exit status
>>>
>>> I found this error to be quite mysterious, and could not find any previous discussion about it.
>>>
>>> Are you familiar with it? Is there any other argument that I can pass to install.packages to solve it?
>>>
>>> Greetings,
>>>  -- Thiago V. dos Santos
>>>
>>> ThiagoDosSantos.com
>>> MudancasClimaticasBrasil.com
>>>
>>>
>>>
>>>
>>>
>>>
>>> On Thursday, May 28, 2020, 08:53:50 AM GMT-3, Roger Bivand <roger.bivand using nhh.no> wrote:
>>>
>>>
>>>
>>>
>>>
>>> With sp 1.4-2 and rgdal 1.5-8, those using GDAL 3 and PROJ 6 (including
>>> users of the CRAN Windows binary when it comes) will be part of the big
>>> migration to WKT2 from Proj4 strings for CRS representation. See
>>>
>>> https://cran.r-project.org/web/packages/rgdal/vignettes/CRS_projections_transformations.html
>>>
>>> or for a better rendering of "\phi" and bib-handling:
>>>
>>> https://rgdal.r-forge.r-project.org/articles/CRS_projections_transformations.html
>>>
>>> for background and https://www.r-spatial.org/r/2020/03/17/wkt.html for the
>>> full sf and sp story.
>>>
>>> You will see lots of warnings, they should grab your attention, that is
>>> what they are for. We need your attention to be as sure as we can be that
>>> your results - if affected by the transition - have been checked by you.
>>>
>>> I plan to flip the warnings to default off from rgdal 1.6-*, and sp 1.5-*.
>>> In some weeks but before flipping the defaults, I'll follow up showing
>>> ways of muting them, but we really need to be confident that this
>>> necessary and future-proofing change isn't silently destroying your work
>>> first. So please don't treat the many warnings as just pesky and nagging -
>>> they are priming your immune system to check for unwanted consequences of
>>> your legacy CRS representation choices.
>>>
>>> I'd also like to thank the maintainers of packages importing
>>> from/depending on sp/rgdal for largely positive responses to issues raised
>>> and emails sent, often less polite than they might have been, but grabbing
>>> attention was more important. From over 70 broken reverse dependency
>>> packages we are now well under 20, and I've contacted all of those, with
>>> only a couple not responding. Edzer has seen similar responsiveness for
>>> the parallel migration of sf.
>>>
>>> Enjoy!
>>>
>>> Roger
>>>
>>> --
>>> 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
>>> https://orcid.org/0000-0003-2392-6140
>>> https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en
>>>
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>>
>>
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>>
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>
> **********************
> "The contents of this message do not reflect any position of the U.S. Government or NOAA."
> **********************
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new street address***
> 110 McAllister Way
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: Roy.Mendelssohn using noaa.gov www: https://www.pfeg.noaa.gov/
>
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>
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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
https://orcid.org/0000-0003-2392-6140
https://scholar.google.no/citations?user=AWeghB0AAAAJ&hl=en