[R-SIG-Mac] R 3.0, rgdal, and the oft unloved Mac OS

[Simon Urbanek]

On Apr 10, 2013, at 3:26 PM, Ian Fellows wrote:

> On a related note to the lme4 query∑ There was a glorious period of time where rgdal binaries (with it's external dependancies) were available on CRAN for the mac. Unfortunately, with the introduction of R 3.0 this is no longer the case. It now requires a rather protracted install process (installing GDAL, then PROJ4, then installing rgdal from source using the proper configuration arguments). I understand that this is a known issue https://stat.ethz.ch/pipermail/r-sig-geo/2013-April/017989.html, and was wondering whether CRAN is planning on supporting a binary distribution in the future. If not, is CRAN Extras planning on hosting it?
> 

rgdal fails the checks, it segfaults:
http://www.R-project.org/nosvn/R.check/r-release-macosx-x86_64/rgdal-00check.html

Here is the output of valgrind:

> logo <- system.file("pictures/logo.jpg", package="rgdal")[1]
> x <- new("GDALReadOnlyDataset", logo)
==41210== Syscall param sigprocmask(set) points to uninitialised byte(s)
==41210==    at 0x41D0FA: sigprocmask (in /usr/lib/libSystem.B.dylib)
==41210==    by 0x75756E1: jpeg_CreateDecompress (jdapimin.c:38)
==41210==    by 0x6FBFAA1: JPGDataset::Open(GDALOpenInfo*) (jpgdataset.cpp:1833)
==41210==    by 0x70EF3F5: GDALOpenInternal(GDALOpenInfo&, char const* const*) (gdaldataset.cpp:2236)
==41210==    by 0x70EF5C0: GDALOpenInternal(char const*, GDALAccess, char const* const*) (gdaldataset.cpp:2208)
==41210==    by 0x6E731A0: RGDAL_OpenDataset (gdal-bindings.cpp:574)
==41210==    by 0x89032: do_dotcall (dotcode.c:585)
==41210==    by 0xB1D66: Rf_eval (eval.c:612)
==41210==    by 0xBFACF: do_begin (eval.c:1534)
==41210==    by 0xB1BD5: Rf_eval (eval.c:584)
==41210==    by 0xBED3C: applydefine (eval.c:1689)
==41210==    by 0xB1BD5: Rf_eval (eval.c:584)
==41210==  Address 0x7fff5fbfb870 is on thread 1's stack
==41210== 
--41210:0:syswrap- WARNING: Ignoring sigreturn( ..., UC_RESET_ALT_STACK );
==41210== Warning: client switching stacks?  SP change: 0x7fff5fbfb888 --> 0x100207c48
==41210==          to suppress, use: --max-stackframe=140730502691904 or greater
==41210== Conditional jump or move depends on uninitialised value(s)
==41210==    at 0x41D1A9: _longjmp (in /usr/lib/libSystem.B.dylib)
==41210==    by 0x1000BBDC7: ???
==41210==    by 0x100207C17: ???
==41210==    by 0x100F6C7E7: ???
==41210== 

.. followed by a crash. Possibly some incompatibility between jpeg and gdal? I may have a look later unless the maintainers have some insight...

Cheers,
Simon


> I'm currently in the process of updating the OpenStreetMap package, and was planning on moving rgdal from a suggest to a depends, but would like to know the lay of the land before proceeding.
> 
> Best,
> Ian
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> 
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