[R-sig-Geo] rgdal, PROJ6 and "+init=epsg" syntax on Jupyter/conda

[Edzer Pebesma]

On 9/12/19 10:55 AM, James Sample wrote:
> Thanks Edzer - that's very helpful!
> 
> Would it be possible for you to link/share your Ubuntu Dockerfile, please?
> (I completely understand if you'd rather not, of course).

https://github.com/r-spatial/sf/tree/master/inst/docker/gdal

> 
> Perhaps if I can see how you're setting thing up in Ubuntu I can modify my
> Jupyter Dockerfile accordingly, and if I can convince myself that this is a
> actually conda-forge/build issue (rather than my own mistake) I can open an
> issue on the conda r-rgdal feedstock (
> https://github.com/conda-forge/r-rgdal-feedstock).

Great, please also report back here!

> 
> Thanks again for your help!
> 
> Best wishes,
> 
> 
> James.
> 
> 
> 
> On Wed, 11 Sep 2019 at 23:10, Edzer Pebesma <edzer.pebesma using uni-muenster.de>
> wrote:
> 
>> On an ubuntu docker image with gdal 3.0.1 and PROJ 6.2.0, I see:
>>
>>> library(rgdal)
>> Loading required package: sp
>> rgdal: version: 1.4-6, (SVN revision (unknown))
>>  Geospatial Data Abstraction Library extensions to R successfully loaded
>>  Loaded GDAL runtime: GDAL 3.0.1, released 2019/06/28
>>  Path to GDAL shared files:
>>  GDAL binary built with GEOS: FALSE
>>  Loaded PROJ.4 runtime: Rel. 6.2.0, September 1st, 2019, [PJ_VERSION: 620]
>>  Path to PROJ.4 shared files: (autodetected)
>>  Linking to sp version: 1.3-1
>>> CRS("+init=epsg:3035")
>> CRS arguments:
>>  +init=epsg:3035 +proj=laea +lat_0=52 +lon_0=10 +x_0=4321000
>> +y_0=3210000 +ellps=GRS80 +units=m +no_defs
>>
>> but also a warning with sf:
>>
>>> library(sf)
>> Linking to GEOS 3.7.2, GDAL 3.0.1, PROJ 6.2.0
>>> st_crs("+init=epsg:3035")
>> Coordinate Reference System:
>>   No EPSG code
>>   proj4string: "+proj=laea +lat_0=52 +lon_0=10 +x_0=4321000 +y_0=3210000
>> +ellps=GRS80 +units=m +no_defs"
>> Warning message:
>> In CPL_crs_from_proj4string(x) :
>>   GDAL Message 1: +init=epsg:XXXX syntax is deprecated. It might return
>> a CRS with a non-EPSG compliant axis order.
>>
>> so it feels like a combination of how PROJ has been installed, and how
>> it has been compiled into the R packages.
>>
>>
>> On 9/11/19 9:38 PM, James Sample wrote:
>>> Dear all,
>>>
>>> I am trying to setup R and rgdal within a JupyterLab environment
>> alongside
>>> my usual Python tools. I realise this is probably an unfamiliar setup for
>>> many, but I hope someone might be able to help nevertheless.
>>>
>>> I'm using a Docker container based on Ubuntu 18.04 and derived from the
>>> Jupyter Data Science Notebook (
>>>
>> https://github.com/jupyter/docker-stacks/tree/master/datascience-notebook
>> ).
>>> I have Python 3.7 and R 3.6 installed, and I'm using "conda" as my
>> package
>>> manager.
>>>
>>> I have successfully installed GDAL and PROJ, together with various Python
>>> and R packages, including 'sp' and 'rgdal'. When I run
>>>
>>>     require(rgdal)
>>>
>>> I see the following
>>>
>>> Loading required package: rgdal
>>> Loading required package: sp
>>> rgdal: version: 1.4-4, (SVN revision 833)
>>>  Geospatial Data Abstraction Library extensions to R successfully loaded
>>>  Loaded GDAL runtime: GDAL 2.4.2, released 2019/06/28
>>>  Path to GDAL shared files: /opt/conda/share/gdal
>>>  GDAL binary built with GEOS: TRUE
>>>  Loaded PROJ.4 runtime: Rel. 6.1.0, May 15th, 2019, [PJ_VERSION: 610]
>>>  Path to PROJ.4 shared files: (autodetected)
>>>  Linking to sp version: 1.3-1
>>>
>>>
>>> which seems OK. Most things work as expected, but this
>>>
>>>     CRS("+init=epsg:3035")
>>>
>>> gives an exception
>>>
>>>     Error in CRS("+init=epsg:3035"): no arguments in initialization list
>>>
>>> The same code works fine in R-Studio, although I note that my R-Studio
>>> installation has PROJ 4.9.2 (with the same versions of rgdal and sp as
>>> listed above). Unfortunately I can't downgrade PROJ, since some of my
>>> Python packages require version 6.1.
>>>
>>> I have read that rgdal is compatible with PROJ6 and I haven't been able
>> to
>>> find (m)any similar issues online, so I assume I'm doing something wrong.
>>> As a workaround, this runs successfully
>>>
>>> showP4(showWKT("+init=epsg:3035"))
>>>
>>> But the original syntax is cleaner and I'd rather not refactor all my old
>>> code if I can help it. Can anyone point me in the right direction,
>> please?
>>> Is the "+init=epsg" syntax supported with PROJ 6, or should I be using an
>>> alternative?
>>>
>>> Thanks and best wishes,
>>>
>>>
>>> James.
>>>
>>>       [[alternative HTML version deleted]]
>>>
>>> _______________________________________________
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>>> R-sig-Geo using r-project.org
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
>>>
>>
>> --
>> Edzer Pebesma
>> Institute for Geoinformatics
>> Heisenbergstrasse 2, 48151 Muenster, Germany
>> Phone: +49 251 8333081
>> _______________________________________________
>> R-sig-Geo mailing list
>> R-sig-Geo using r-project.org
>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
>>
> 
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> 
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-- 
Edzer Pebesma
Institute for Geoinformatics
Heisenbergstrasse 2, 48151 Muenster, Germany
Phone: +49 251 8333081

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