[BioC] help error causing affy library install to fail

[Roels, Steven]

Hi,

I've installed R-1.9.0 and Bioconductor 1.3 (default packages) on
solaris 8 using gcc3.4.0, and it all went well except for the "affy"
library.

The affy build seemed OK but there was and error in building the help
pages which caused the library install to fail. The relevant section of
the getBioC output is shown below.

I didn't see anything in the archives that seemed to fit.

What is the best way to work around this or to get more useful
information about the source of the problem?

Thanks

-Steve

** help
 >>> Building/Updating help pages for package 'affy'
     Formats: text html latex example
  .setAffyOptions                   text    html    latex   example
  AffyBatch-class                   text    html    latex   example
  AffyRNAdeg                        text    html    latex   example
  ProbeSet-class                    text    html    latex   example
  SpikeIn                           text    html    latex
  affy-options                      text    html    latex   example
  affy.scalevalue.exprSet           text    html    latex
  affybatch.example                 text    html    latex
  barplot.ProbeSet                  text    html    latex   example
  bg.adjust                         text    html    latex
  bgc                               text    html    latex   example
  cdfFromBioC                       text    html    latex   example
  cdfenv.example                    text    html    latex
  cleancdfname                      text    html    latex   example
  debug.affy123                     text    html    latex
  expresso                          text    html    latex   example
  expressoWidget                    text    html    latex   example
  fit.li.wong                       text    html    latex   example
  generateExprSet-methods           text    html    latex   example
  generateExprVal-methods           text    html    latex   example
  generateExprVal.method.avgdiff    text    html    latex   example
  generateExprVal.method.playerout  text    html    latex
  hlog                              text    html    latex
  justrma                           text    html    latex   example
  list.celfiles                     text    html    latex   example
  loess.normalize                   text    html    latex
  maffy.normalise                   text    html    latex   example
  maffy.subset                      text    html    latex   example
  mas5                              text    html    latex   example
  mas5calls                         text    html    latex   example
  merge.AffyBatch                   text    html    latex   example
  multiloess                        text    html    latex
  mva.pairs                         text    html    latex   example
  normalize-methods                 text    html    latex   example
  normalize                         text    html    latex
  normalize.constant                text    html    latex
  normalize.contrast                text    html    latex   example
  normalize.invariantset            text    html    latex

ERROR: command (e.g. \url) inside \link
error: building help failed for package 'affy': No such file or
directory for reading errors.
** Removing
'/prod/ddm/tools/R/R-1.9.0_Bioconductor-1.3/lib/R/library/affy'

*****************************************************************
Steve Roels, Ph.D.                       
Senior Scientist I - Computational Biology     Phone: (617) 761-6820
Millennium Pharmaceuticals, Inc.         FAX:   (617) 577-3555
640 Memorial Drive                       Email: roels at mpi.com
Cambridge, MA 02139-4853
*****************************************************************



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