[R-SIG-Mac] EBImage package from bioconductor
Sean Wiltshire
sean.wiltshire at gmail.com
Thu Sep 28 18:59:01 CEST 2006
Hi all,
I've been having some problems getting the bioconductor library
'EBImage' installed and running properly. It depends on imagemagick
and I think I have that installed properly, I used fink imagemagick-
dev 6.1.8-3 without any obvious problems. I run 10.4.7, and I was
using xcode 2.0 with R version 2.4.0 beta (2006-09-24 r39502),
powerpc-apple-darwin8.7.0
This is the package:
http://www.bioconductor.org/packages/1.9/bioc/html/EBImage.html
Here is what happens when I try to install:
root# R CMD install /Users/swilts/Desktop/EBImage_1.3.105.tar.gz*
Installing *source* package 'EBImage' ...
[snip]
/usr/bin/libtool: unknown option character `m' in: -macosx_version_min
Usage: /usr/bin/libtool -static [-] file [...] [-filelist listfile
[,dirname]] [-arch_only arch] [-sacLT]
Usage: /usr/bin/libtool -dynamic [-] file [...] [-filelist listfile
[,dirname]] [-arch_only arch] [-o output] [-install_name name] [-
compatibility_version #] [-current_version #] [-seg1addr 0x#] [-
segs_read_only_addr 0x#] [-segs_read_write_addr 0x#] [-seg_addr_table
<filename>] [-seg_addr_table_filename <file_system_path>] [-all_load]
[-noall_load]
make: *** [EBImage.so] Error 1
chmod: /Library/Frameworks/R.framework/Versions/2.4/Resources/library/
EBImage/libs/ppc/*: No such file or directory
So, I tried installing glibtool using fink, this didn't seem to fix
anything, then I heard from a friend that maybe getting xcode 2.4
would fix libtool, I signed up and downloaded that, tried again.
Now, the package seems to finish compiling but when I try to load it
into R I get this:
> library(EBImage)
Error in dyn.load(x, as.logical(local), as.logical(now)) :
unable to load shared library '/Library/Frameworks/
R.framework/Resources/library/EBImage/libs/ppc/EBImage.so':
dlopen(/Library/Frameworks/R.framework/Resources/library/EBImage/
libs/ppc/EBImage.so, 6): Symbol not found: __ZTIN6Magick9ExceptionE
Referenced from: /Library/Frameworks/R.framework/Resources/library/
EBImage/libs/ppc/EBImage.so
Expected in: dynamic lookup
Error: package/namespace load failed for 'EBImage'
>
Has anyone else installed this package on a mac successfully? Any
pointers even if you haven't? Is this still a problem with libtool
not working properly? One friend suggested I replace libtool with
glibtool, is that safe?
Best,
Sean
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