Dear list,

I had and still have trouble installing lumi. After an R update and the
installation of the hdrcde package it still does not work with the lumi
package via biocLite("lumi"). This is the answer (R version 2.15): And I
was not able to install the packages with dependencies neither.

I would be happy for some help.
Thanks
Hermann Norpois

* installing *source* package ‘XML’ ...
** Paket ‘XML’ erfolgreich entpackt und MD5 Summen überprüft
checking for gcc... gcc
checking for C compiler default output file name... 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 ISO C89... none needed
checking how to run the C preprocessor... gcc -E
No ability to remove finalizers on externalptr objects in this verison of R
checking for sed... /bin/sed
checking for pkg-config... /usr/bin/pkg-config
checking for xml2-config... no
Cannot find xml2-config
ERROR: configuration failed for package ‘XML’
* removing ‘/usr/local/lib/R/site-library/XML’
* installing *source* package ‘RCurl’ ...
** Paket ‘RCurl’ erfolgreich entpackt und MD5 Summen überprüft
checking for curl-config... no
Cannot find curl-config
ERROR: configuration failed for package ‘RCurl’
* removing ‘/usr/local/lib/R/site-library/RCurl’
ERROR: dependencies ‘XML’, ‘RCurl’ are not available for package
‘rtracklayer’
* removing ‘/usr/local/lib/R/site-library/rtracklayer’
ERROR: dependency ‘XML’ is not available for package ‘annotate’
* removing ‘/usr/local/lib/R/site-library/annotate’
ERROR: dependency ‘annotate’ is not available for package ‘genefilter’
* removing ‘/usr/local/lib/R/site-library/genefilter’
ERROR: dependencies ‘annotate’, ‘genefilter’ are not available for package
‘methylumi’
* removing ‘/usr/local/lib/R/site-library/methylumi’
ERROR: dependencies ‘methylumi’, ‘rtracklayer’, ‘annotate’ are not
available for package ‘lumi’
* removing ‘/usr/local/lib/R/site-library/lumi’

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