Hi Steffen and developers,
On 10/11/2010 01:57 AM, Steffen Neumann wrote:
Hi, On Fri, 2010-09-17 at 12:32 -0700, Herv? Pag?s wrote:
your packages pass 'R CMD build' and 'R CMD check' with no warnings: http://bioconductor.org/checkResults/2.7/bioc-LATEST/index.html You might have noticed that there have been a lot of turbulences recently on the Windows builds. We are working on it and hopefully those problems will soon disappear.
Could you provide an "official" waiver for those pesky object file warnings, which 1) don't occur on the last 2.6 builds, and 2) only occur on windows ? There seem to be two different checks, one just saying "contains object files", the other naming them "Subdirectory 'src' contains:"
Yes please ignore those warnings about object files not being removed from the src/ folder on Windows. This seems to affect all packages with native code that don't use a Makefile (i.e., a *lot* of BioC packages). I reported that problem yesterday on R-devel https://stat.ethz.ch/pipermail/r-devel/2010-October/058772.html but got no answer so far (and I don't see any fix coming yet in svn for R). This problem is new in R 2.12 (hence you don't see it with the 2.6 builds): it is (again) a regression introduced in 'R CMD build' and 'R CMD check' when those scripts were migrated from Perl to R. Note that most of those regressions (some of them more serious than this one) seem to have been fixed in R 2.12 RC already but there are still a couple of them pending. Thanks for your comprehension, H.
Yours, Steffen * checking if this is a source package ... WARNING Subdirectory 'src' contains: xcms.dll * checking if this is a source package ... WARNING Subdirectory 'Rdisop/src' contains object files. * checking if this is a source package ... WARNING Subdirectory 'CAMERA/src' contains object files. Subdirectory 'src' contains: CAMERA.dll fastMatch.o
Herv? Pag?s Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319