[BioC] ggbio: error when updating to current release version

[Juan L. Mateo]

Dear all,

I tried to update the package ggbio from version 1.0.4 to the current 
release version 1.2.8 but there seems to be an error.
I list below the error output and sessionInfo().
I tried also to use the development version (1.3.4) but I get the same 
problem.

Best regards


 > source("http://bioconductor.org/biocLite.R")
BiocInstaller version 1.4.3, ?biocLite for help
 >     biocLite("ggbio")
BioC_mirror: http://bioconductor.org
Using R version 2.15, BiocInstaller version 1.4.3.
Installing package(s) 'ggbio'
trying URL 
'http://www.bioconductor.org/packages/2.10/bioc/src/contrib/ggbio_1.2.8.tar.gz'
Content type 'application/x-gzip' length 205262 bytes (200 Kb)
opened URL
==================================================
downloaded 200 Kb

* installing *source* package ‘ggbio’ ...
** R
** inst
** preparing package for lazy loading
Warning: found methods to import for function ‘as.list’ but not the 
generic itself
Warning: found methods to import for function ‘chartr’ but not the 
generic itself
Warning: found methods to import for function ‘IQR’ but not the generic 
itself
Warning: found methods to import for function ‘NROW’ but not the generic 
itself
Warning: found methods to import for function ‘aggregate’ but not the 
generic itself
Warning: found methods to import for function ‘chartr’ but not the 
generic itself
Warning: found methods to import for function ‘cor’ but not the generic 
itself
Creating a new generic function for ‘rescale’ in package ‘ggbio’
Creating a generic function for ‘summary’ from package ‘base’ in package 
‘ggbio’
Creating a generic function for ‘print’ from package ‘base’ in package 
‘ggbio’
Creating a new generic function for ‘xlim’ in package ‘ggbio’
Creating a generic function for ‘update’ from package ‘stats’ in package 
‘ggbio’
Creating a new generic function for ‘geom_rect’ in package ‘ggbio’
Creating a new generic function for ‘geom_segment’ in package ‘ggbio’
Creating a new generic function for ‘stat_identity’ in package ‘ggbio’
Error in conformMethod(signature, mnames, fnames, f, fdef, definition) :
   in method for ‘autoplot’ with signature ‘x="GRanges"’: formal 
arguments (x = "GRanges", ... = "GRanges") omitted in the method 
definition cannot be in the signature
Error : unable to load R code in package ‘ggbio’
ERROR: lazy loading failed for package ‘ggbio’
* removing ‘/usr/local/lib/R/site-library/ggbio’
* restoring previous ‘/usr/local/lib/R/site-library/ggbio’



 > sessionInfo()
R version 2.15.0 (2012-03-30)
Platform: x86_64-pc-linux-gnu (64-bit)

locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=C                 LC_NAME=C
  [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] BiocInstaller_1.4.3

loaded via a namespace (and not attached):
[1] tools_2.15.0


-- 
=============================
Juan L. Mateo PhD.
Centre for Organismal Studies (COS) - University of Heidelberg
Im Neuenheimer Feld 230
69120 Heidelberg, Germany
Tel: 0049 (0)6221 54 6493
Fax: 0049 (0)6221 54 5639