[Bioc-devel] warnings from R CMD check on Win32 about object files in src/

Martin Maechler maechler at stat.math.ethz.ch
Wed Apr 20 19:48:49 CEST 2005

>>>>> "Seth" == Seth Falcon <sfalcon at fhcrc.org>
>>>>>     on Wed, 20 Apr 2005 07:18:25 -0700 writes:

    Seth> Hi all,
    Seth> Eryk wrote with the following question:
    >> Not shure how to takle the the following warning:
    >> * checking if this is a source package ... WARNING
    >> Subdirectory 'msbase/src' contains object files.
    >> (,on http://www.bioconductor.org/checkResults/Windows/msbase)
    >> I have controlled if I have incidentally checked in some object files. All 
    >> seems to be OK. The unix check runs "OK".
    >> Any suggestions?

    Seth> We were looking into the same issue yesterday and didn't yet come up
    Seth> with a solution.

    Seth> I'm nearly certain this is not a fault with the package itself, but
    Seth> either something we are doing wrong in our build/check process or a
    Seth> small bug in the R CMD check stuff.

    Seth> What I was seeing yesterday (testing on Linux) was that running R CMD
    Seth> check --no-vignettes would show a WARNING if a previous R CMD INSTALL
    Seth> had left object files.  Running with vignettes causes a compilation
    Seth> cycle and subsequent src/ dir cleaning.

I don't think there's abut with R CMD check here.

For "day to day" work, I live with the warning

    >> * checking if this is a source package ... WARNING
    >> Subdirectory 'msbase/src' contains object files.

very well. But it *is* reasonable to give a warning: If these
object files were compiled on a different architecture,
or---more realistically---with different version of the C
compiler, or ... (you name it),

the subsequent package checks may lead to incorrect results,
possibly errors of both kinds 
{Code working "correctly" that should give an error or
 code giving a problem only because the *.o files where not correct}.


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