Hi,

I am testing out my newly released COHCAP package:

http://bioconductor.org/packages/devel/bioc/html/COHCAP.html

I didn't see any warnings when I created the package, and there weren't any warnings when Bioconductor tests the package (on any of the operating systems).

However, I have been testing the package using R-devel (since the package is a currently only available as a devel package, it looks like I can only use lazy loading with R-devel), and I've noticed that the Perl command (creating the .wig files within the function COHCAP.site()) doesn't work properly for either the truncated demo dataset that is included with the package or the entire dataset that I am trying to use to test the package.

To be clear, I can download COHCAP and COHCAPanno and use R CMD INSTALL to run the package in the normal version of R (v.3.0.2), and the package runs just fine with both the truncated and full datasets.

I am trying to provide users with instructions on how to use the package while it is only available as a devel version.  I'm trying to make the instructions as simple as possible, so I was hoping to use the lazy loading via biocLite("COHCAP").

I am running R-devel on Windows (v.3.1.0 pre-release) and the system() command script is existing with status 2.

Does anyone know what is causing this error to specifically occur with R-devel?

Thanks,
Charles



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