[BioC] affy won't load

[Vincent Carey 525-2265]

for what it is worth , i ran into this problem with
a student recently -- inexplicable change from day to day,
affy loading well on one day and then generating this error
on the next. this was macosx 10.5.3 and i simply don't know if some
update was done in the mean time

to solve it we took the following steps.  1) install Xcode tools 3.0
2) install darwinports; sudo port install gettext
3) biocLite("affy", type="source")

i don't know if part 2 is necessary.  but it did get affy loading
and running on this system.

---
Vince Carey, PhD
Assoc. Prof Med (Biostatistics)
Harvard Medical School
Channing Laboratory - ph 6175252265 fa 6177311541
181 Longwood Ave Boston MA 02115 USA
stvjc at channing.harvard.edu

On Sun, 15 Jun 2008, Kasper Daniel Hansen wrote:

> This should not happen out of the box. Which R did you install (CRAN R
> or one from r.research.att.com or did you compile from scratch)? And
> what does options("pkgType") tell you (mac.binary I guess).
>
> Kasper
>
> On Jun 15, 2008, at 4:43 PM, jason smith wrote:
>
> > Thanks Steve,
> >
> > I checked, and the files (affy and related) are installed on my
> > computer, however when I attempt to load them into R I get the error
> > mentioned previously (reminder below):
> >
> >>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
> >>> unable to load shared library
> >> '/Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so':
> >>> dlopen(/Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/
> >>> affy.so, 6): Library not loaded:
> >> /usr/local/lib/libintl.3.dylib
> >>> Referenced from:/Users/sjorges2002/Library/R/2.7/library/affy/libs/
> >>> i386/affy.so
> >>> Reason: image not found
> >>> Error in library(affy) : .First.lib failed for'affy'
> >>>
> >
> > I'm not sure what is happening - all of the files are in the correct
> > folders on my hard drive, but for some reason library(affy) fails.
> > Will installing/enabling gettext address this?
> >
> > Best
> > Jason
> >
> >
> > --- On Sat, 6/14/08, Steve Lianoglou
> > <mailinglist.honeypot at gmail.com> wrote:
> >
> >> I checked to see if I had that file and I did, so I
> >> wondered how the
> >> heck it got there.
> >>
> >> According to the tutorial below (and other hints from
> >> google), it
> >> seems to come from the installation of gettext, although
> >> I'm not sure
> >> where mine came from since I don't remember explicitly
> >> installing it.
> >>
> >> http://www.kenior.com/macintosh/adding-gettext-extension-for-mac-os-x-leopard
> >>
> >> You can follow along with that link (up to step 2), but
> >> probably your
> >> standard ./configure / make / make install dance should do
> >> just fine.
> >>
> >> You can get gettext here:
> >> ftp://ftp.gnu.org/gnu/gettext/gettext-0.17.tar.gz
> >>
> >> HTH,
> >> -steve
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor at stat.math.ethz.ch
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
> > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>

The information transmitted in this electronic communica...{{dropped:10}}