[BioC] problem of package yg98 and XML

Lin Tang lintang at jhmi.edu
Thu Jan 27 21:16:07 CET 2005


Hi, 
I've tried to install the yg98_1.6.8.tar.gz in my linux, but I found the
package is missing symbol, refseq and unigene information. When I try to
load the symbol for probe ID with annoation package, it reports:

 Object "yg98SYMBOL" not found.

Is this the package problem? 

So I tried to use the annobuilder. But when I tried to install XML
(XML_0.97-0.tar.gz), I have the following errors:

> install.packages("XML","~/R")
trying URL `http://cran.r-project.org/src/contrib/PACKAGES'
Content type `text/plain; charset=iso-8859-1' length 46868 bytes
opened URL
==================================================
downloaded 45Kb

trying URL `http://cran.r-project.org/src/contrib/XML_0.97-0.tar.gz'
Content type `application/x-tar' length 556400 bytes
opened URL
==================================================
downloaded 543Kb

* Installing *source* package 'XML' ...
checking for gcc... gcc
checking for C compiler default output... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -E
checking for xml2-config... no
Cannot find xml2-config
ERROR: configuration failed for package 'XML'


Has any one have the same problems?

Thanks you.

Lin



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