On Mon, 28 Apr 2014 20:55:18 -0400, Jack Howarth
<howarth.at.f...@gmail.com> wrote:
> The r-base214 packaging seems to have test suite issues when built
> against Xcode 5.1 on darwin12…
>
> Testing examples for package ‘utils’
> /sw/src/fink.build/r-base214-2.14.2-9/R-2.14.2/bin/BATCH: line 60:
> 34097 Trace/BPT trap: 5 ${R_HOME}/bin/R -f ${in} ${opts}
> ${R_BATCH_OPTIONS} > ${out} 2>&1
> Error: testing 'utils' failed
> Execution halted
The failure appears to be due to an unresolved __pcre_valid_utf (or
similarly named) symbol in libR.dylib. The R library is trying to use
a private symbol in libpcre by guessing what it's called (and what its
parameters are) in various different libpcre versions, but our most
recent libpcre dropped that symbol altogether. Obviously a fragile
situation to rely on undocumented non-public content.
One useful change we can make is to patch out the "-undefined
dynamic_lookup" from the configure script. That flag causes undefined
symbols to be ignored by the linker, leaving them to cause problems at
runtime. By removing the flag, the linking itself fails right away
rather than leaving a possibly mis-built library.
> There are quite a few differences between the r-base214 and r-base215
> info files so I am not sure what is the exact cause of the build
> issue. However, since upstream no longer lists the 2.14.x series as
> supported on their home page, we should just drop that package like
> we did with r-base213.
Looks like R now (as of 215) contains the actual internal pcre code it
wants (copied from pcre's sources), so it becomes insensitive to
changes in libpcre's internals. compare src/main/util.c around line
2159, and see the new valid_utf.h file added to support it.
dan
--
Daniel Macks
dma...@netspace.org
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