Problème lors de l'installation de packages

Bonjour,

Je galère à installer certains packages R sur ma nouvelle machine et je ne comprends pas pourquoi... J'avais des problèmes de permissions donc j'ai changé les droits de certains dossier sous Linux :
/usr/share/R/
/usr/lib/R/
J'ai de nouvelles erreurs malgré tout...

Ma config :

Code:

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> sessionInfo()
R version 3.1.1 (2014-07-10)
Platform: x86_64-pc-linux-gnu (64-bit)
 
locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C             
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8   
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8  
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                
 [9] LC_ADDRESS=C               LC_TELEPHONE=C           
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C      
 
attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

Quelques essais d'installation :

Code:

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> install.packages("Biostrings")
Installing package into $$$packages/rsat/R-scripts/Rpackages$$$
(as $$$lib$$$ is unspecified)
Warning message:
package $$$Biostrings$$$ is not available (for R version 3.1.1)

Code:

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> biocLite("Biostrings")
[...]
io_utils.c:16:18: fatal error: zlib.h: No such file or directory
 #include <zlib.h>
                  ^
compilation terminated.
/usr/lib/R/etc/Makeconf:128: recipe for target 'io_utils.o' failed
make: *** [io_utils.o] Error 1
ERROR: compilation failed for package $$$Biostrings$$$
* removing $$$packages/rsat/R-scripts/Rpackages/Biostrings$$$
 
The downloaded source packages are in
    $$$tmp/RtmphODjkn/downloaded_packages$$$
Warning message:
In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
  installation of package $$$Biostrings$$$ had non-zero exit status

Code:

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> install.packages("XML")
Installing package into $$$packages/rsat/R-scripts/Rpackages$$$
(as $$$lib$$$ is unspecified)
trying URL 'http://ftp.igh.cnrs.fr/pub/CRAN/src/contrib/XML_3.98-1.1.tar.gz'
Content type 'text/html' length 1582216 bytes (1.5 Mb)
opened URL
==================================================
downloaded 1.5 Mb
 
* installing *source* package $$$XML$$$ ...
** package $$$XML$$$ successfully unpacked and MD5 sums checked
checking for gcc... gcc
checking for C compiler default output file name... rm: cannot remove 'a.out.dSYM': Is a directory
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
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 $$$ /packages/rsat/R-scripts/Rpackages/XML $$$
 
The downloaded source packages are in
    $$$ /tmp/RtmphODjkn/downloaded_packages $$$
Warning message:
In install.packages("XML") :
  installation of package $$$ XML $$$ had non-zero exit status

Je n'ai jamais rencontré ce type de problèmes sur mes précédentes machines... Merci pour le coup de main.

Ah, oui, j'ai aussi des problèmes d'encodage (cf les $$$) !