On 12-04-17 11:50 PM, David Bapst wrote:
Hi all-
Henrik, packageDescription informs me that I have Matrix version 1.0-6,
which is the newest version on CRAN.
The --as-cran check in R 2.15.0 is a little bit too aggressive: this
was a spurious error. If your package depends on another package, and
that other one depends on a recommended package that you haven't
declared as a dependency, you'll get this spurious error.
In your case your package depends on phangorn which depends on Matrix,
so you get the error.
A simple workaround is to declare a dependence on Matrix. This should
be fixed soon in R-patched.
Duncan Murdoch
Duncan, I installed R-patched from CRAN, reset my path variable,
reinstalled paleotree's dependencies and reran Rcmd check with --as-cran.
This produced a related but different error. Instead of failing when
examples were being run, it failed earlier when during testing the
installation. See below:
The check log:
* using log directory 'c:/MyPackages/paleotree.Rcheck'
* using R version 2.15.0 Patched (2012-04-09 r58947)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'paleotree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'paleotree' version '1.3'
* checking CRAN incoming feasibility ... OK
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking whether package 'paleotree' can be installed ... ERROR
Installation failed.
See 'c:/MyPackages/paleotree.Rcheck/00install.out' for details.
If I go to 00install.out as directed, I find:
* installing *source* package 'paleotree' ...
** R
** preparing package for lazy loading
Error in loadNamespace(i, c(lib.loc, .libPaths())) :
there is no package called 'Matrix'
ERROR: lazy loading failed for package 'paleotree'
* removing 'c:/MyPackages/paleotree.Rcheck/paleotree'
So it appears to be the same general problem with it finding package
dependencies with the --as-cran option. This does not occur when I run the
vanilla check command; the check runs fine and it appears to run into no
issues with running examples.
Duncan, I'll send you the tar ball source file shortly. Thank you for your
kind offer of checking the file for me.
-Dave
On Tue, Apr 17, 2012 at 8:28 PM, Duncan Murdoch<murdoch.dun...@gmail.com>wrote:
On 12-04-17 9:21 PM, David Winsemius wrote:
On Apr 17, 2012, at 9:15 PM, Henrik Bengtsson wrote:
paleotree imports phangorn which depends on Matrix, so your example
does indeed depend on Matrix.
A possible reason is that your installed Matrix was built for a
different version of R, i.e. check packageDescription("Matrix").
I thought Matrix was included by default as of a couple of R versions
ago?
It is. There are some problems in 2.15.0 in checking whether package
dependencies are present; they only show up on some Windows systems. If
you can, please try the checks on R-patched, and see if you get the same
problem. If you do, and can send me the tarball, I'll try it on my system.
Duncan Murdoch
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