[R-sig-Geo] Installing rgeos on Mac OS X 10.4 (was Re: downsampling a lines shapefile?)
Colin Rundel
rundel at gmail.com
Tue Oct 25 23:18:47 CEST 2011
Glad to hear it, I was just about to suggest checking on updating stringr. I'll update the package description to require a current version of stringr.
-Colin
On Oct 25, 2011, at 5:11 PM, Nick Matzke wrote:
> I figured it out, at least enough to get rgeos's gSimplify function to work, which was my original goal; the stringr problem was with 0.2, however I got stringr 0.5 to install by changing the minimum version in DESCRIPTION from R2.11 to R 2.10. ...
>
> Thanks for the help!
>
> #############
> # This is how I got rgeos to install in R GUI on my Intel Mac OS X 10.4:
> #############
>
>
> # stringr download source 0.5 from CRAN
> # change DESCRIPTION, change R 2.11 to R 2.10
> # install with:
> install.packages("/Users/nick/Desktop/downloads/stringr", "/Library/Frameworks/R.framework/Resources/library/", NULL, type='source')
>
> # Update sp to 0.9-91 (manual download from CRAN; my default server didn't have it)
> remove.packages("sp")
>
> install.packages("/Users/nick/Desktop/downloads/sp_0.9-91.tar.gz", "/Library/Frameworks/R.framework/Resources/library/", NULL, type='source')
>
>
>
>
>
> # Manual install of GEOS 3.3
>
> # Download GEOS 3.3 from:
> http://www.kyngchaos.com/macosx/build/geos
> http://trac.osgeo.org/geos/
>
> ./configure
> make
> sudo make install
>
>
>
> # This installs to /usr/local/bin/geo-config which is an input to the rgeos install
>
> # To find, in Terminal type:
> locate geos-config
>
>
> # I got a crash based on a missing definition of GEOSUnaryUnion_r, so...
> # To get rgeos to install,
>
> # delete from rgeos_topology.c this bit (line 33):
> ================================
> #ifdef HAVEUNARYUNION
> SEXP rgeos_unaryunion(SEXP env, SEXP obj, SEXP id, SEXP byid ) {
> return( rgeos_topologyfunc(env, obj, id, byid, &GEOSUnaryUnion_r) );
> }
> #endif
> ================================
>
> # And this from line 35 of init.c
> ================================
> #ifdef HAVEUNARYUNION
> {"rgeos_unaryunion", (DL_FUNC) &rgeos_unaryunion, 4},
> #endif
> ================================
>
>
> # Then remove failed installs if any
> remove.packages("rgeos")
>
> install.packages("/Users/nick/Desktop/downloads/rgeos", "/Library/Frameworks/R.framework/Resources/library/", NULL, type='source',
> configure.args="--with-geos-config=/usr/local/bin/geos-config")
>
>
> library(rgeos)
>
> # (You may have to remove old .o and .so files from previous install attempts...)
>
>
>
> On 10/25/11 1:06 PM, Nick Matzke wrote:
>> Sure! Thanks for looking at this...I've still got an Intel
>> Mac OS X 10.4...yes, I'm in the stone age, but normally I
>> can get things to work...
>>
>>
>> =========================
>> > sessionInfo()
>> R version 2.10.1 (2009-12-14)
>> i386-apple-darwin8.11.1
>>
>> locale:
>> [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>>
>> attached base packages:
>> [1] stats grDevices utils datasets graphics methods base
>>
>> other attached packages:
>> [1] stringr_0.2 plyr_0.1.9
>>
>> loaded via a namespace (and not attached):
>> [1] tools_2.10.1
>> =========================
>>
>>
>> On 10/25/11 12:34 PM, Colin Rundel wrote:
>>> That is odd, it isn't an error that I've seen before. What
>>> version of R are you running and can you check what
>>> version of plyr and stringr you have installed?
>>>
>>> -Colin
>>>
>>>
>>> On Oct 25, 2011, at 3:11 PM, Nick Matzke wrote:
>>>
>>>> Thanks so much! I've almost gotten rgeos to install,
>>>> however I'm getting a peculiar error about a
>>>> (successfully installed) other package, stringr:
>>>>
>>>> "Error : package 'stringr' does not have a name space"
>>>>
>>>> ...any idea what that might be about? Grateful as always!!
>>>> Nick
>>>>
>>>>
>>>> PS Full error message below...
>>>>
>>>> =========================================
>>>>> install.packages("/Users/nick/Desktop/downloads/rgeos",
>>>>> "/Library/Frameworks/R.framework/Resources/library/",
>>>>> NULL, type='source',
>>>> +
>>>> configure.args="--with-geos-config=/usr/local/bin/geos-config")
>>>>
>>>> WARNING: ignoring environment value of R_HOME
>>>> Loading ~/.Rprofile...
>>>> Currently viewed PATH:
>>>> /usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/texbin:/Applications/dssp:/Library/Frameworks/PROJ.framework/:/Library/Frameworks/PROJ.framework/Programs:/Library/Frameworks/PROJ.framework/Versions/4.6/Headers:/Library/Frameworks/GDAL.framework/Versions/1.6/Programs:/usr/texbin:/Applications/dssp:/Library/Frameworks/PROJ.framework/:/Library/Frameworks/PROJ.framework/Programs:/Library/Frameworks/PROJ.framework/Versions/4.6/Headers:/Library/Frameworks/GDAL.framework/Versions/1.6/Programs
>>>>
>>>> * installing *source* package ‘rgeos’ ...
>>>> geos-config: /usr/local/bin/geos-config
>>>> GEOS: 3.2.3
>>>> CPPFLAGS: -DHAVEUNARYUNION -I/usr/local/include
>>>> LIBS: -L/usr/local/lib -lgeos
>>>> configure: creating ./config.status
>>>> config.status: creating src/Makevars
>>>> ** libs
>>>> ** arch - i386
>>>> make: Nothing to be done for `all'.
>>>> ** R
>>>> ** inst
>>>> ** preparing package for lazy loading
>>>> Loading required package: plyr
>>>> Error : package 'stringr' does not have a name space
>>>> ERROR: lazy loading failed for package ‘rgeos’
>>>> * removing
>>>> ‘/Library/Frameworks/R.framework/Versions/2.10/Resources/library/rgeos’
>>>>
>>>> Warning message:
>>>> In
>>>> install.packages("/Users/nick/Desktop/downloads/rgeos",
>>>> "/Library/Frameworks/R.framework/Resources/library/", :
>>>> installation of package
>>>> '/Users/nick/Desktop/downloads/rgeos' had non-zero exit
>>>> status
>>>>
>>>> On 10/25/11 1:32 AM, Roger Bivand wrote:
>>>>> On Mon, 24 Oct 2011, Nick Matzke wrote:
>>>>>
>>>>>> Hi all,
>>>>>>
>>>>>> I have a shapefile with a number of line features. I can
>>>>>> load it and plot it. Is there an easy way to downsample or
>>>>>> smooth the shapefile to a coarser resolution?
>>>>>
>>>>> ?gSimplify in rgeos?
>>>>>
>>>>> Roger
>>>>>
>>>>>>
>>>>>> Thanks so much for your help,
>>>>>> Nick
>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>
>>>> --
>>>> ====================================================
>>>> Nicholas J. Matzke
>>>> Ph.D. Candidate, Graduate Student Researcher
>>>>
>>>> Huelsenbeck Lab
>>>> Center for Theoretical Evolutionary Genomics
>>>> 4151 VLSB (Valley Life Sciences Building)
>>>> Department of Integrative Biology
>>>> University of California, Berkeley
>>>>
>>>> Graduate Student Instructor, IB200B
>>>> Principles of Phylogenetics: Ecology and Evolution
>>>> http://ib.berkeley.edu/courses/ib200b/
>>>> http://phylo.wikidot.com/
>>>>
>>>>
>>>> Lab websites:
>>>> http://ib.berkeley.edu/people/lab_detail.php?lab=54
>>>> http://fisher.berkeley.edu/cteg/hlab.html
>>>> Dept. personal page:
>>>> http://ib.berkeley.edu/people/students/person_detail.php?person=370
>>>>
>>>> Lab personal page:
>>>> http://fisher.berkeley.edu/cteg/members/matzke.html
>>>> Lab phone: 510-643-6299
>>>> Dept. fax: 510-643-6264
>>>>
>>>> Cell phone: 510-301-0179
>>>> Email: matzke at berkeley.edu
>>>>
>>>> Mailing address:
>>>> Department of Integrative Biology
>>>> 3060 VLSB #3140
>>>> Berkeley, CA 94720-3140
>>>>
>>>> -----------------------------------------------------
>>>> "[W]hen people thought the earth was flat, they were
>>>> wrong. When people thought the earth was spherical, they
>>>> were wrong. But if you think that thinking the earth is
>>>> spherical is just as wrong as thinking the earth is flat,
>>>> then your view is wronger than both of them put together."
>>>>
>>>> Isaac Asimov (1989). "The Relativity of Wrong." The
>>>> Skeptical Inquirer, 14(1), 35-44. Fall 1989.
>>>> http://chem.tufts.edu/AnswersInScience/RelativityofWrong.htm
>>>>
>>>> _______________________________________________
>>>> R-sig-Geo mailing list
>>>> R-sig-Geo at r-project.org
>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
>>>
>>>
>>
>
> --
> ====================================================
> Nicholas J. Matzke
> Ph.D. Candidate, Graduate Student Researcher
>
> Huelsenbeck Lab
> Center for Theoretical Evolutionary Genomics
> 4151 VLSB (Valley Life Sciences Building)
> Department of Integrative Biology
> University of California, Berkeley
>
> Graduate Student Instructor, IB200B
> Principles of Phylogenetics: Ecology and Evolution
> http://ib.berkeley.edu/courses/ib200b/
> http://phylo.wikidot.com/
>
>
> Lab websites:
> http://ib.berkeley.edu/people/lab_detail.php?lab=54
> http://fisher.berkeley.edu/cteg/hlab.html
> Dept. personal page: http://ib.berkeley.edu/people/students/person_detail.php?person=370
> Lab personal page: http://fisher.berkeley.edu/cteg/members/matzke.html
> Lab phone: 510-643-6299
> Dept. fax: 510-643-6264
>
> Cell phone: 510-301-0179
> Email: matzke at berkeley.edu
>
> Mailing address:
> Department of Integrative Biology
> 3060 VLSB #3140
> Berkeley, CA 94720-3140
>
> -----------------------------------------------------
> "[W]hen people thought the earth was flat, they were wrong. When people thought the earth was spherical, they were wrong. But if you think that thinking the earth is spherical is just as wrong as thinking the earth is flat, then your view is wronger than both of them put together."
>
> Isaac Asimov (1989). "The Relativity of Wrong." The Skeptical Inquirer, 14(1), 35-44. Fall 1989.
> http://chem.tufts.edu/AnswersInScience/RelativityofWrong.htm
>
> _______________________________________________
> R-sig-Geo mailing list
> R-sig-Geo at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
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