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spgrass6 and R 2.9

2 messages · Dylan Beaudette, Torleif Markussen Lunde

Original
Dylan Beaudette
# 
Hi,

Just upgraded to R 2.9.0 this morning, and tried to update all of my packages. 
Everyhing seemed to work, except spgrass6. Manually removing the old packing 
and installing fresh resulted in:

install.packages('spgrass6', dep=TRUE)
trying URL 'http://cran.cnr.Berkeley.edu/src/contrib/spgrass6_0.6-6.tar.gz'
Content type 'application/x-gzip' length 332298 bytes (324 Kb)
opened URL
==================================================
downloaded 324 Kb

* Installing *source* package 'spgrass6' ...
** R
** inst
** preparing package for lazy loading
Geospatial Data Abstraction Library extensions to R successfully loaded
Loaded GDAL runtime: GDAL 1.7.0dev, released 2008/11/26
Path to GDAL shared files: /usr/local/share/gdal
Loaded PROJ.4 runtime: Rel. 4.6.0, 21 Dec 2007
Path to PROJ.4 shared files: (autodetected)
** help
*** installing help indices
 >>> Building/Updating help pages for package 'spgrass6'
     Formats: text html latex example 
  execGRASS                         text    html    latex   example
  gmeta6                            text    html    latex   example
  initGRASS                         text    html    latex   example
  readRAST6                         text    html    latex   example
  readVECT6                         text    html    latex   example
  spgrass6                          text    html    latex   example
** building package indices ...
* DONE (spgrass6)
*** glibc detected *** /usr/local/lib/R/bin/exec/R: double free or corruption 
(fasttop): 0x096ac2b0 ***


At this point R stops responding, and I have to issue a `kill -9` to make 
regain control of the shell.

Any ideas?

Dylan
Torleif Markussen Lunde
# 
Hi

First try updating glibc, and install spgrass6 again. If this does not work 
you could try 

export MALLOC_CHECK_=0

before you start R. The error might be related to "somewhere something" is 
trying to free memory that has already been unallocated. I don't know the 
details here, but it could be worth a try?

Best wishes 
Torleif
On Friday 29 May 2009 11:26:56 pm Dylan Beaudette wrote: