[R] Updating to nlme 3.1-62 failing from source (OS X)

[Prof Brian Ripley]

This is an internal compiler/assembler error - please check that your 
tools are consistent and if so report this as a MacOS X error.

(It is the sort of thing which happens if gcc targetted for one assembler 
is used with another, for example on Solaris with GNU vs Sun assemblers.)

Given that the C code being compiled is unchanged since 3.1-60 which was 
successfully compiled by the maintainers, this does point to a problem 
local to you.

On Sun, 31 Jul 2005, Michael Kubovy wrote:

> R Version 2.1.1  (2005-06-20); R Cocoa GUI 1.12 (1622);  Mac OS X
> 10.4.2 (8C46)
>
> For nlme, the R package installer for CRAN (binaries) gives 3.1-60 as
> Repository Version as well as Installed Version.

The CRAN repository for MacOS X has not be updated for a couple of weeks.

> For CRAN (sources) it gives 3.1-62 as Repository Version and 3.1-60
> as Installed Version.
>
> When I try to update nlme, I get
>
> * Installing *source* package 'nlme' ...
> ** libs
> gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/
> include  -I/usr/local/include   -fno-common  -g -O2 -c corStruct.c -o
> corStruct.o
> /var/tmp//ccOTBSDa.s:6088:** Removing '/Library/Frameworks/
> R.framework/Versions/2.1.1/Resources/library/nlme'
> ** Restoring previous '/Library/Frameworks/R.framework/Versions/2.1.1/
> Resources/library/nlme'
>
> The downloaded packages are in
>     /private/tmp/RtmpL1j8Sa/downloaded_packages
> Unknown pseudo-op: .p2align
> /var/tmp//ccOTBSDa.s:6088:Rest of line ignored. 1st junk character
> valued 50 (2).
> /var/tmp//ccOTBSDa.s:6414:Unknown pseudo-op: .p2align
> /var/tmp//ccOTBSDa.s:6414:Rest of line ignored. 1st junk character
> valued 50 (2).
> /var/tmp//ccOTBSDa.s:6608:Unknown pseudo-op: .p2align
> /var/tmp//ccOTBSDa.s:6608:Rest of line ignored. 1st junk character
> valued 50 (2).
> /var/tmp//ccOTBSDa.s:7111:Unknown pseudo-op: .subsections_via_symbols
> make: *** [corStruct.o] Error 1
> ERROR: compilation failed for package 'nlme'

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595