Installing versioned packages is not supported with namespaces. I have
suggested from time to time that versioned installs be removed because of
this and other known issues, and recommend that you do not attempt to use
them.
On Thu, 13 Nov 2008, [EMAIL PROTECTED] wrote:
Full_Name: Lars Hansen
Version: 2.8.0
OS: Windows XP Pro x64 SP2
Submission from: (NULL) (71.39.177.36)
Hi,
I have run into a problem using "R CMD INSTALL" with the
"--with-package-versions" option under Windows. It is a bit obscure, which could
explain why other people have not run into it.
We happen to have two packages with almost the same name. One name is a subset
of the other. The names are "RtTests" and "RtTestsEG1". I have no problem
installing "RtTests" and many other packages, but run into problems installing
"RtTestsEG1". The "RtTestsEG1" package happens to be a simple example of how to
use the "RtTests" package, so it depends on "RtTests" (which is probably the
problem).
OK, so this is what happens when I attempt to install "RtTestsEG1":
$ R CMD INSTALL --with-package-versions --library=$R_LIBS RtTestsEG1
installing RtTestsEG1 package
---------- Making package RtTestsEG1 ------------
adding build stamp to DESCRIPTION
installing R files
preparing package RtTestsEG1 for lazy loading
Loading required package: RtTests
... [lost of lines removed]
Loading required package: RtTests
Error: evaluation nested too deeply: infinite recursion /
options(expressions=)?
Execution halted
make[2]: *** [lazyload] Error 1
make[1]: *** [all] Error 2
make: *** [pkg-RtTestsEG1] Error 2
*** Installation of RtTestsEG1 failed ***
After some digging in the Windows makefiles, I found out that changing the
locale from "C" to "us" in the "lazyload" target of
$R_HOME/src/gnuwin32/MakePkg, i.e. using "LC_ALL=us" instead of "LC_ALL=C",
solves the infinite recursion problem and give an useful message. It still fails
but now says:
Loading required package: RtTests
Warning: S3 methods 'summary.RtTestSetResults', 'print.RtTestSetResults',
'print.RtTestSetResults.summary' were declared in NAMESPACE but not found
Error in namespaceExport(ns, exports) :
undefined exports: parseTranscriptFile, compareTranscriptAndOutput
Error: package 'RtTests' could not be loaded
Execution halted
It is true that RtTests declares the various functions in its name space, but
why can they suddenly not be found? If I load RtTests by itself, i.e.
library(RtTests), there is no problem.
I happen to have all this working under Linux, so I tracked down the difference.
Turns out that under Linux the equivalent to the "lazyload" target is in
"/usr/lib/R/bin/INSTALL" and the difference is in the argument passed to
"tools:::makeLazyLoading". Under Linux the full package name with version number
is used, i.e. "RtTests_0.1-1". Windows just uses "RtTests".
So I managed to fix the problem by making Windows use the full package name in
the "lazyload" target. I replaced
tools:::makeLazyLoading(\"$(PKG)\"
with
tools:::makeLazyLoading(\"$(notdir $(DPKG))\"
If I now reinstall "RtTests", I can finally install "RtTestsEG1".
I must confess, that I do not fully understand exactly what it takes to
reproduce this problem. I am guessing that all it takes is a package depending
on a versioned package. Maybe the similarity in names introduces a problem
because of partial matching. I am guessing that has nothing to do with it.
To sum up the report. I see two problems:
1) LC_ALL=C causes infinite recursion. It is as if the C locale does not work
under Windows. I do not know what the fix is. It is used many places in install
scripts and makefiles. Fixing it in the "lazyload" target is not enough. Even
with my change I still get "infinite recursion" and no error message if I try to
install "RtTestsEG1" without first installing "RtTests".
2) "makeLazyLoading()" in "lazyload" target needs to be called with full package
name with embedded version number. I think this is bug under Windows and my fix
takes care of it.
It took some time to figure this out. I am hoping this report will save other
people time. I am note sure if I succeeded in describing the problem clearly.
Please do not hesitate to ask for clarification.
Thanks,
Lars Hansen
P.S.
sessionInfo()
R version 2.8.0 Patched (2008-10-22 r46776)
i386-pc-mingw32
locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
States.1252;LC_MONETARY=English_United
States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
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--
Brian D. Ripley, [EMAIL PROTECTED]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UK Fax: +44 1865 272595
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