On Wed, 4 May 2005 [EMAIL PROTECTED] wrote:
Message 2 of today: it works now.
After re-installing R.app from the same R-2.1.0.dmg file, and fixInNamespace'ing(*) install.packages(), I managed to update 23 outdated packages from CRAN binaries for MacOS X. What I did was to:
1. change call to .install.macbinaries() into call to install.binaries() in install.packages(). install.binaries() is a function defined utils/R/aqua/GUI.R. 2. I also had to remove argument 'dependencies' since that is not defined in install.binaries() of utils/aqua.
The point is that the omitted .install.macbinaries() does support dependencies and has several other improvements over install.binaries().
It seems that install.binaries of utils/aqua is mentioned in several places in R sources, but .install.macbinary() appears only in one place, so changing install.packages() is less hassle than changing utils/R/aqua/GUI.R and all other places (although this looks more natural).
This still requires a fix in passing type in update.packages() that B. Ripley already did for R 2.1.1, or setting options(pkgType="mac.binary").
This should not be required. What does .Platform say?
cheers, jari oksanen
(*) "Object-oriented programming is an exceptionally bad idea which could only have originated in California." E. Dijkstra
On Tue, 2005-05-03 at 16:14 +0100, Prof Brian Ripley wrote:Binary installs are AFAIK only supported in the GUI, where the default is as documented. So .install.macbinary() is not loaded except in the GUI.
The reason is that those binaries are tied to that particular build of R, and will not work with a general build on MacOS X.
I would expect this to work from the command-line in the GUI console, and had believed it had been tested there.
On Tue, 3 May 2005 [EMAIL PROTECTED] wrote:
Full_Name: Jari Oksanen Version: R 2.1.0 OS: MacOS 10.3.9 Submission from: (NULL) (130.231.102.145)
For various reasons (which need not be expanded here) I have tried to update my long neglected R in MacOS X using handy command line tool update.packages() using readily available binaries of contributed packages at CRAN. However, this fails with message saying that packages xxxx_*_tar.gz is not found at the server (HTTP error 404). Obviously, the package name is expanded wrongly as the binary packages for MacOS X have type *.tgz. However, this seems not be the problem, but there are two other problems:
1. update.packages does not transfer the value of 'type' to the next function install.packages, but install.packages uses the value of getOption("pkgType") which seems to be "source" in CRAN binary of MacOS X (contrary to documentation at ?options).
2. If this is corrected, or first set options(pkgType="mac.binary"), the update fails for missing function .install.macbinary().
The first problem is easy to correct:
--- update.packages.R 2005-05-03 17:13:36.000000000 +0300 +++ jarioksa.update.packages.R 2005-05-03 17:13:58.000000000 +0300 @@ -59,5 +59,5 @@ install.packages(update[, "Package"], instlib, contriburl = contriburl, method = method, available = available, destdir = destdir, - installWithVers = installWithVers, type) + installWithVers = installWithVers, type = type) } }
For the second, problem, I don't know what to do. grepping R-patched_2005-05-03.tar.gz source found only one instance of .install.macbinary(): the failed call in R-patched/src/library/utils/R/packages2.R. I couldn't find the definition of the function.
Do I really have to use GUI? Uh.
cheers, jari oksanen
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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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