following the given advice by Brian Ripley I first tried the variant i) install once without --with-package-versions repeat with --with-package-versions remove the package folder without the version info
which did not work for me (see details below).
ii) patch $R_HOM/lib/R/bin/INSTALL as suggested (well I did not reinstall from INSTALL.in as was implied)
and install with --with-package-versions set in the first attempt
works and the package loads fine into the R session.
Thank you very much for the prompt and very helpful feedback!
Regards,
Matthias
Details for i) in the second installation R issues a warning * Installing *source* package 'RUnit' as 'RUnit_0.4.0' ... ** R ** inst ** save image
rm: cannot remove `/mnt/nfs/local.hm/R/R-2.0.x-libs-EpiR/RUnit_0.4.0/R/RUnit_0.4.0': No such file or directory
** preparing package for lazy loading
RUnit loaded.
** help
>>> Building/Updating help pages for package 'RUnit'
Formats: text html latex example
RUnit-internal text html latex
RUnit-intro text html latex
checkFuncs text html latex example
[...]In R
this results in (fresh R 2.0.0 session)
> library("RUnit_0.4.0")
Error in gzfile(file, "rb") : unable to open connection
In addition: Warning message:
cannot open compressed file `/mnt/local/R/R-2.0.x-libs-EpiR/RUnit_0.4.0/R/RUnit.rdx'
Error: Unable to load R code in package 'RUnit_0.4.0'
Error in library("RUnit_0.4.0") : package/namespace load failed for 'RUnit'or with lib.loc provided additional (also .libPaths() knows of this location)
> library("RUnit_0.4.0", lib.loc="/mnt/local/R/R-2.0.x-libs-EpiR")
Error in gzfile(file, "rb") : unable to open connection
In addition: Warning message:
cannot open compressed file `/mnt/local/R/R-2.0.x-libs-EpiR/RUnit_0.4.0/R/RUnit.rdx'
Error: Unable to load R code in package 'RUnit_0.4.0'
Error in library("RUnit_0.4.0", lib.loc = "/mnt/local/R/R-2.0.x-libs-EpiR") :
package/namespace load failed for 'RUnit'Prof Brian Ripley wrote:
It seems that if you first install this without --with-package-versions then with and then remove the first version, it works.
Here is a patch, shortly to appear in R-patched/R-devel:
--- INSTALL.in (revision 31298)
+++ INSTALL.in (working copy)
@@ -601,10 +601,10 @@
## is no namespace). Argh.
## </NOTE>
save_image_defaults="list(compress=TRUE, safe=FALSE)"
- code_file="${R_PACKAGE_DIR}/R/${R_PACKAGE_NAME}"
+ code_file="${R_PACKAGE_DIR}/R/${pkg_name}"
rda_file="${R_PACKAGE_DIR}/R/all.rda"
if test -f NAMESPACE; then
- code_cmd="echo invisible(.libPaths(c(\"${lib}\", .libPaths()))); .getRequiredPackages(); saveNamespaceImage(\"${pkg_name}\", \"${rda_file}\", \"${lib}\")"
+ code_cmd="echo invisible(.libPaths(c(\"${lib}\", .libPaths()))); .getRequiredPackages(); saveNamespaceImage(\"${R_PACKAGE_NAME}\", \"${rda_file}\", \"${lib}\")"
loader_file=nsrdaload.R
R_save_args="--vanilla --slave"
else
On Tue, 5 Oct 2004, Matthias Burger wrote:
Hello R developers,
installing R 2.0.0 from source on a Linux Debian system (gcc 3.2.2) - which worked just fine - I encountered the following problem when trying to update/install packages with the option --with-package-versions:
example: RUnit 0.4.0 (also on CRAN)
R20 CMD INSTALL -l /mnt/local/R/R-2.0.x-libs-EpiR --with-package-versions RUnit_0.4.0.tar.gz
or after untaring R20 CMD INSTALL -l /mnt/local/R/R-2.0.x-libs-EpiR --with-package-versions RUnit
I get * Installing *source* package 'RUnit' as 'RUnit_0.4.0' ... ** R ** inst ** save image Error in loadNamespace(package, lib.loc, keep.source, TRUE, TRUE) : package 'RUnit' does not have a name space Execution halted ERROR: execution of package source for 'RUnit' failed
This happens only with the --with-package-versions option. I scanned the manual and ?INSTALL but did not find mention of this behaviour.
Any suggestion what I have overlooked or how to cure the failure?
Regards,
Matthias
>version _ platform i686-pc-linux-gnu arch i686 os linux-gnu system i686, linux-gnu status major 2 minor 0.0 year 2004 month 10 day 04 language R
-- Matthias Burger Project Manager/ Biostatistician Epigenomics AG Kleine Praesidentenstr. 1 10178 Berlin, Germany phone:+49-30-24345-371 fax:+49-30-24345-555 http://www.epigenomics.com [EMAIL PROTECTED]
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