There is sufficient circumstantial evidence to suggest you are posting
in the wrong mailing list. Follow-up should go there. You also have
not posted sessionInfo() output or the error messages you are getting
when <what-ever-it-is-that-you-have-done> that "didn't
work". You
should post in R-SIG-Mac and include the appropriate information
requested in the Posting Guide (sessionInfo(), console output prior to
error message, and error messages).
On Sep 27, 2009, at 10:23 AM, Wayne F wrote:
>
> I installed the (binary) biOps package, which can use libtiff and
> libfftw.
> Then I used macports to install the libraries (in /opt/local/lib).
> But I
> restart R and biOps still does not see the libraries.
There is a binary package called devpack4 at:
http://cran.r-project.org/bin/macosx/tools/
I don't see libtiff in there, but libjpeg which biOps requires
(according to the docs) is in there. If you are going to compile from
sources you should read that information carefully.>
> I've tried adding symbolic links from /opt/local/lib to /usr/local/
> lib, I've
> added /opt/local/lib to LIBRARY_PATH, LD_LIBRARY_PATH, and
> DYLD_LIBRARY_PATH, and it doesn't work.
>
> Do you need to install biOps source in order for it to realize that
> the
> libraries are there? Or something else?
I got this error when I tried to load the binary installed package:
> library(biOps)
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '/Library/Frameworks/R.framework/
Resources/library/biOps/libs/x86_64/biOps.so':
dlopen(/Library/Frameworks/R.framework/Resources/library/biOps/libs/
x86_64/biOps.so, 6): Symbol not found: _TIFFClose
Referenced from: /Library/Frameworks/R.framework/Resources/library/
biOps/libs/x86_64/biOps.so
Expected in: dynamic lookup
Compiling from sources using the GUI Package Installer succeeded and
the package loaded without error.
I did encounter some warnings in the check phase:
checking fftw3.h usability... no
checking fftw3.h presence... no
checking for fftw3.h... no
checking jpeglib.h usability... configure: WARNING: Can't find fftw3
header
yes
checking jpeglib.h presence... yes
checking for jpeglib.h... yes
checking tiff.h usability... no
checking tiff.h presence... no
checking for tiff.h... no
configure: WARNING: Can't find libtiff header
My scan of the compilation messages suggested that the lack of tiff
support was not remedied in the process but I cannot be sure about
that (see below). In the past (say a year ago) I generally needed to
compile from sources if I were using the 64-bit GUI, but that is an
unusual occurrence more recently. Being a UNIX-noob, I cannot tell
whether this error was due to my being in the 64 bit configuration.
Whether the package will do anything useful now, I cannot say:
capabilities() still reported FALSE for tiff
The first example in hte documentation produces a black square
> jpeg()
> p <- q <- seq(-1, 1, length=20)
> r <- 1 - outer(p^2, q^2, "+") / 2
> plot(imagedata(r))
> dev.off()
null device
1
The second example I tried produced a very pretty picture of a flower:
> x <- readJpeg(system.file("samples", "violet.jpg",
package="biOps"))
> cat("Image Type", imageType(x))
Image Type rgb
>
> x
size: 499 x 333
type: rgb
> plot(x)
(And plotting to the tiff device produces a nice flower, despite what
capabilities says.)
Best of luck;
--
David Winsemius, MD
Heritage Laboratories
West Hartford, CT
> sessionInfo()
R version 2.9.2 (2009-08-24)
x86_64-apple-darwin9.8.0
locale:
en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] splines stats graphics grDevices utils datasets
methods base
other attached packages:
[1] biOps_0.2.1 gdata_2.6.1 Design_2.3-0 foreign_0.8-37
Hmisc_3.7-0
[6] survival_2.35-7
loaded via a namespace (and not attached):
[1] cluster_1.12.0 grid_2.9.2 gtools_2.6.1 lattice_0.17-25
tools_2.9.2