[Rd] R_HOME path getting munged in inst/doc/Makefile on Windows

From: Dan Tenenbaum <dtenenba_at_fhcrc.org>
Date: Mon, 21 Mar 2011 18:07:21 -0700


I have come across two separate packages that have a Makefile in inst/doc which use the R_HOME variable.

In both cases, the path to R_HOME gets munged in such a way that commands that include R_HOME fail on Windows:

For example, one Makefile, for the xmapcore package ( https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/xmapcore/username/password: readonly) has this:


${R} --vanilla --verbose < ${SUITE}

the output of trying to build this package includes:

It seems R_HOME is not getting resolved to a valid path. That's strange because R CMD echo shows the right thing:

E:\sandbox>\biocbld\bbs-2.8-bioc\R\bin\R CMD echo %R_HOME% e:/biocbld/bbs-2.8-bioc/R

That's a nice path with all forward slashes and no funny 8.3 paths with tildes. But it looks like when R_HOME is invoked in a Makefile, the resulting path has a mix of forward and backslashes, and gets translated into 8.3 style, and the resulting path is not valid for finding R executables.

Note that R_HOME is defined within R; I don't also have it defined at the shell level:

E:\sandbox>echo %R_HOME%
%R_HOME% Any ideas?

> sessionInfo()
R version 2.13.0 alpha (2011-03-18 r54865) Platform: i386-pc-mingw32/i386 (32-bit)

[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[5] LC_TIME=English_United States.1252

attached base packages:
[1] stats graphics grDevices utils datasets methods base

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