[Rd] 'Apparently' trouble with name spaces and Sweave...

[Laurent Gautier]

Ben Bolstad experienced something odd while running R CMD check over
a package of ours using r-devel (yesterday's fresh).
He tracked down the problem to a vignette calling 'library(MASS)'.

Please kindly ignore if this is a known (and temporary) issue.




Laurent




----- Forwarded message from Ben Bolstad <bolstad at stat.berkeley.edu> -----

Return-Path: <bolstad at stat.berkeley.edu>
X-Original-To: laurent at cbs.dtu.dk
Delivered-To: laurent at cbs.dtu.dk
Received: from avocet.mail.pas.earthlink.net (avocet.mail.pas.earthlink.net [207.217.120.50])
	by genome.cbs.dtu.dk (Postfix) with ESMTP id 826362633D9E
	for <laurent at cbs.dtu.dk>; Tue,  8 Apr 2003 21:27:29 +0200 (MDT)
Received: from h-68-164-84-127.snvacaid.covad.net ([68.164.84.127] helo=[192.168.0.3])
	by avocet.mail.pas.earthlink.net with esmtp (Exim 3.33 #1)
	id 192yfb-0003Hu-00; Tue, 08 Apr 2003 12:22:11 -0700
Subject: build problem with affy
From: Ben Bolstad <bolstad at stat.berkeley.edu>
To: rafa at jhu.edu
Cc: Laurent Gautier <laurent at cbs.dtu.dk>
Content-Type: text/plain
Content-Transfer-Encoding: 7bit
X-Mailer: Ximian Evolution 1.0.8 (1.0.8-11) 
Date: 08 Apr 2003 12:22:10 -0700
Message-Id: <1049829731.3929.50.camel at bmbbox.dyndns.org>
Mime-Version: 1.0
Status: O
Content-Length: 1446
Lines: 34

I am getting this error when doing a R CMD build --force on affy

I am using an updated R-devel rsync'ed this morning and I am using the
latest MASS package (which was my first thought). I am not having
problems building other packages.

Any thoughts? 

* creating vignettes ... ERROR
Error in namespaceExport(ns, exports) : undefined exports: abbey,
accdeaths, Aids2, Animals, anorexia, austres, bacteria, beav1, beav2,
biopsy, birthwt, Boston, cabbages, caith, Cars93, cats, cement, chem,
coop, cpus, crabs, Cushings, DDT, deaths, drivers, eagles, epil, farms,
fdeaths, fgl,
forbes, GAGurine, galaxies, gehan, genotype, geyser, gilgais, hills,
housing, immer, Insurance, leuk, lh, mammals, MASS.data.load, mcycle,
mdeaths, Melanoma, menarche, michelson, minn38, motors, muscle, newcomb,
nlschools, nottem, npk, npr1, oats, OME, painters, petrol, phones,
Pima.te, Pima.tr, Pima.tr2, quine, Rabbit, road, rock, rotifer, Rubber,
ships, shoes, shrimp, shuttle, Sitka, Sitka89, Skye, snails, SP500,
steam, stormer, survey, synth.te, synth.tr, topo, Traffic, UScereal,
UScrime, VA, waders, whiteside, wtloss
Error in library(MASS) : package/namespace load failed
Error in driver$runcode(drobj, chunk, chunkopts) :
        Error in library(MASS) : package/namespace load failed
Error in buildVignettes(dir = ".") : Error in driver$runcode(drobj,
chunk, chunkopts) :
        Error in library(MASS) : package/namespace load failed
Execution halted






----- End forwarded message -----

-- 
--------------------------------------------------------------
currently at the National Yang-Ming University in Taipei, Taiwan
--------------------------------------------------------------
Laurent Gautier			CBS, Building 208, DTU
PhD. Student			DK-2800 Lyngby,Denmark	
tel: +45 45 25 24 89		http://www.cbs.dtu.dk/laurent