Dear all,
I am writing a vignette that requires a file which I am not allowed to
distribute, but which the user can easily download manually. Moreover, it
is not possible to download this file automatically from R: downloading
requires a (free) registration that seems to work only through a browser.
(I'm talking here about the MSigDB from the Broad Institute,
http://www.broadinstitute.org/gsea/msigdb/index.jsp).
In the vignette, I tell the user to download the file and then show how it
can be parsed and used in R. Thus, I can compile the vignette only if this
file is present in the vignettes/ directory of the package. However, it
would then get included in the package -- which I am not allowed to do.
What should I do?
(1) finding an alternative to MSigDB is not a solution -- there simply is
no alternative.
(2) I could enter the code (and the results) in a verbatim environment
instead of using Sweave. This has obvious drawbacks (for one thing, it
would look incosistent).
(3) I could build vignette outside of the package and put it into the
inst/doc directory. This also has obvious drawbacks.
(4) Leaving this example out defies the purpose of my package.
I am tending towards solution (2). What do you think?
Kind regards,
j.
--
-------- January Weiner --------------------------------------
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