[Bioc-devel] mzR compilation error gcc 4.70 arch linux (and a patch)

I got the following compilation error while installing the package
'mzR' (devel version 1.3.6) in arch linux (fully updated) (my package,
TargetSearch, depends on mzR). Here is the relevant part.

biocLite("mzR")

BioC_mirror: http://bioconductor.org
Using R version 2.15, BiocInstaller version 1.5.7.
Installing package(s) 'mzR'

[...]

g++ -I/opt/R/R-2.15.0/include -DNDEBUG -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/opt/R/R-2.15.0/library/Rcpp/include"   -fpic  -g -O2  -c boost/thread/src/pthread/once.cpp -o boost/thread/src/pthread/once.o
In file included from ./boost/thread/detail/platform.hpp:17:0,
                 from ./boost/thread/once.hpp:12,
                 from boost/thread/src/pthread/once.cpp:7:
./boost/config/requires_threads.hpp:29:4: error: #error "Threading support unavaliable: it has been explicitly disabled with BOOST_DISABLE_THREADS"
In file included from ./boost/thread/once.hpp:12:0,
                 from boost/thread/src/pthread/once.cpp:7:
./boost/thread/detail/platform.hpp:67:9: error: #error "Sorry, no boost threads are available for this platform."

[...]

The full error log is here [1].

I also got the same error with the release version of mzR (1.2.1). With an older gcc I do *not* get this error.

Since it seemed a problem with the boost libraries, I searched the web and found a bug report [2] in which they explain it's a configuration error due to a change in gcc 4.70 (or something like that). Also, in that page a fix and patch is provided (see link at the bottom) which I adapted and pasted here [3] for mzR. It works for both release and devel versions. At least it fixed the compilation error for me. Maybe it needs more testing...

[1] http://pastebin.com/T2tSEWPM
[2] https://svn.boost.org/trac/boost/ticket/6165
[3] http://pastebin.com/gYBAr2Td

[alvaro at home ~]$ gcc --version
gcc (GCC) 4.7.0 20120505 (prerelease)
Copyright (C) 2012 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

sessionInfo()

R version 2.15.0 (2012-03-30)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=C                 LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

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

other attached packages:
[1] BiocInstaller_1.5.7

loaded via a namespace (and not attached):
[1] tools_2.15.0

Best regards.
[ CC: to the mainteners ]