[BioC] hexbin package 1.1-4

[Nicholas Lewin-Koh]

Hi,
It looks like the fortran libraries are not being found or there is a
problem with your
gcc install. The error message is telling you when the shared library is
being built 
the linker can't find the necessary libraries. I don't work on a mac
so I won't be too much help, But it does not look like the problem is
hexbin.

Nicholas


On Fri, 5 Nov 2004 10:35:35 -0500, "ulas karaoz" <ulask at bu.edu> said:
> Hi,
> The problem seems to be specific to MAC OS 10.
> I tried to install it on command line in Unix, no problem.
> In MACOS 10.3.5, trying to install it on command line gave me the  
> following error:
> 
> :~/Desktop ul$ R CMD INSTALL hexbin_1.1-4.tar.gz
> * Installing *source* package 'hexbin' ...
> ** libs
> g77   -fno-common  -g -O2 -c hbin.f -o hbin.o
> g77   -fno-common  -g -O2 -c hcell.f -o hcell.o
> g77   -fno-common  -g -O2 -c herode.f -o herode.o
> g77   -fno-common  -g -O2 -c hsm.f -o hsm.o
> gcc -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o  
> hexbin.so hbin.o hcell.o herode.o hsm.o  -L/usr/local/lib  
> -L/usr/local/lib/gcc/powerpc-apple-darwin6.6/3.4  
> -L/usr/local/lib/gcc/powerpc-apple-darwin6.6/3.4/../../.. -lfrtbegin  
> -lg2c -lSystem -lcc_dynamic -framework R
> ld: warning -L: directory name  
> (/usr/local/lib/gcc/powerpc-apple-darwin6.6/3.4) does not exist
> ld: warning -L: directory name  
> (/usr/local/lib/gcc/powerpc-apple-darwin6.6/3.4/../../..) does not  
> exist
> ld: can't locate file for: -lfrtbegin
> make: *** [hexbin.so] Error 1
> ERROR: compilation failed for package 'hexbin'
> ** Removing  
> '/Library/Frameworks/R.framework/Versions/1.9.1/Resources/library/ 
> hexbin'
> 
> 
> 
> On Nov 5, 2004, at 9:06 AM, Nicholas Lewin-Koh wrote:
> 
> > Hi
> > Can you try on the command line in your unix shell
> > % R CMD INSTALL hexbin_1.1-4.tar.gz
> >
> > And let us know what the error messages are? I need to know if it is a
> > fortran problem, R code , examples documentation, .....
> > There are a gizillion reasons why it could fail without more to go on  
> > it
> > is hard to help.
> >
> > Nicholas
> >
> >
> >> ulas wrote:
> > I run R on MACOSX, and i have tried to install it from source local
> > package file (tarball) that i have downloaded from
> >
> > The only error message i am getting is:
> >> install.from.file()
> > npackage installation failed
> >
> > I am sure that the tarball i have downloaded was complete.
> > I have tried to unzip/untar it and have tried to do it from a local
> > source directory, it failed as well.
> > thanks.
> >
> > On Nov 4, 2004, at 12:56 PM, Robert Gentleman wrote:
> >
> >> On Thu, Nov 04, 2004 at 12:51:20PM -0500, ulas karaoz wrote:
> >>> Hi,
> >>> Did anyone successfully installed the hexbin 1.1-4 at
> >>>
> >>>
> > http://www.bioconductor.org/repository/devel/package/Source/hexbin_1.1
> >>> -4.tar.gz
> >>>
> >>> for some reason, it fails for me.
> >>
> >>  In which of the several million different possible ways? It would
> >>  help if you 1) read the posting guide and 2) provided a proper bug
> >>  report.
> >>
> >>
> >>> What is the problem with  the old version, 1.0.10?
> >>> thanks.
> >>>
> >>> --------------------------------------------
> >>> Ulas Karaoz
> >>> Boston University
> >>> Ph.D.Student in Bioinformatics
> >>> zlab.bu.edu
> >>>
> >>> _______________________________________________
> >>> Bioconductor mailing list
> >>> Bioconductor at stat.math.ethz.ch
> >>> https://stat.ethz.ch/mailman/listinfo/bioconductor
> >>
> >> --  
> >>
> > +----------------------------------------------------------------------
> >> -----+
> >> | Robert Gentleman                 phone : (617)
> > 632-5250
> >>      |
> >> | Associate Professor              fax:   (617)
> > 632-2444
> >>      |
> >> | Department of Biostatistics      office:
> > M1B20
> >>      |
> >> | Harvard School of Public Health  email:
> > rgentlem at jimmy.harvard.edu
> >>      |
> >>
> > +----------------------------------------------------------------------
> >> -----+
> >>
> > --------------------------------------------
> > Ulas Karaoz
> > Boston University
> > Ph.D.Student in Bioinformatics
> > zlab.bu.edu
> >
> >
> >
> --------------------------------------------
> Ulas Karaoz
> Boston University
> Ph.D.Student in Bioinformatics
> zlab.bu.edu
>