Dear all,
As the object of this mail suggests, the methods package is not loaded by
default in R2.13 when using Rscript whereas it is loaded when using an
interactive session.
An example with the metafor package :
library(metafor)
example(addpoly.rma)
this works in an interaction R shell, but put it in a .R file and use it with
Rscript, it won't work until you added
library(methods)
One of my colleague had the same issue with other custom R functions (work in
2.12, not anymore in 2.13 because of the same behavior)
Is this something that was planned or a bug?
Best
Vincent
################################################################
My session info for the interactive R
################################################################
> sessionInfo()
R version 2.13.0 (2011-04-13)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=fr_FR.utf8 LC_NUMERIC=C
[3] LC_TIME=fr_FR.utf8 LC_COLLATE=fr_FR.utf8
[5] LC_MONETARY=C LC_MESSAGES=fr_FR.utf8
[7] LC_PAPER=fr_FR.utf8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=fr_FR.utf8 LC_IDENTIFICATION=C
attached base packages:
[1] grid stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] metafor_1.6-0 Formula_1.0-0 nlme_3.1-101 gwa_0.0-1
[5] genetics_1.3.6 mvtnorm_0.9-9991 MASS_7.3-13 gtools_2.6.2
[9] gdata_2.8.2 combinat_0.0-8 rmeta_2.16
loaded via a namespace (and not attached):
[1] lattice_0.19-26 tools_2.13.0
#############################################################
the same from Rscript
#############################################################
R version 2.13.0 (2011-04-13)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=fr_FR.utf8 LC_NUMERIC=C
[3] LC_TIME=fr_FR.utf8 LC_COLLATE=fr_FR.utf8
[5] LC_MONETARY=C LC_MESSAGES=fr_FR.utf8
[7] LC_PAPER=fr_FR.utf8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=fr_FR.utf8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets base
other attached packages:
[1] metafor_1.6-0 Formula_1.0-0 nlme_3.1-101
loaded via a namespace (and not attached):
[1] grid_2.13.0 lattice_0.19-26
________________________________
Dr Vincent Chouraki
Assistant hospitalier universitaire
Service d'épidémiologie régional
CHRU de Lille, France
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