[Bioc-devel] Build/check questions

James MacDonald jmacdon at med.umich.edu
Thu Sep 21 21:43:24 CEST 2006


I have two questions about results on the build/check page for release

First, for my affycoretools package, the build on Solaris says OK, but
in the output I see this line:

 creating vignettes ...Segmentation Fault - core dumped

I suppose the build page *should* say OK, since this step returned an
OK. However, I am pretty sure a segfault is A Bad Thing. Maybe I should
ask on R-devel why this returns an OK? Should I expect that the build
page would be able to return something other than OK in this situation?

Second, on all three Linux boxes (and on mine as well, but not on
windows), there is a cryptic warning that I don't understand:

* checking whether the name space can be loaded with stated
dependencies ... WARNING
Loading required package: methods
Error in if (mustFind) stop(gettextf("no generic function found for
\"%s\"",  : 
	argument is not interpretable as logical
In addition: Warning message:
the condition has length > 1 and only the first element will be used
in: if (mustFind) stop(gettextf("no generic function found for \"%s\"", 

Execution halted

A namespace must be able to be loaded with just the base namespace
otherwise if the namespace gets loaded by a saved object, the session
be unable to start.

Probably some imports need to be declared in the NAMESPACE file.

Is there a reasonable way to track down what imports are missing?



James W. MacDonald, M.S.
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109

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