Hi Markus,

I think that you need to install 
- zlib1g (compression library - runtime) and 
- zlib1g-dev (compression library - development).

Laurent

--
Laurent Gatto
DNAVision SA


-----Original Message-----
From: bioconductor-bounces@stat.math.ethz.ch on behalf of Markus Schmidberger
Sent: Tue 26/06/2007 18:10
To: bioconductor@stat.math.ethz.ch
Subject: [BioC] Problems installing BioC, zlib.h
 
Hello,

we have installed R-2.5.0 at a Debian 4.0
./configure --with-x=no && make && make checks && make install

There are no problems and R is running very well.
 >sessionInfo()
R version 2.5.0 (2007-04-23)
i686-pc-linux-gnu
locale:
LC_CTYPE=de_DE.UTF-8;LC_NUMERIC=C;LC_TIME=de_DE.UTF-8;LC_COLLATE=de_DE.UTF-8;LC_MONETARY=de_DE.UTF-8;LC_MESSAGES=de_DE.UTF-8;LC_PAPER=de_DE.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=de_DE.UTF-8;LC_IDENTIFICATION=C 

attached base packages:
[1] "stats"     "graphics"  "grDevices" "utils"     "datasets"  "methods"
[7] "base"

But when we install Bioconductor or only the library(affyio) we get the 
error:
==================================================
downloaded 57Kb
* Installing *source* package 'affyio' ...
creating cache ./config.cache
checking how to run the C preprocessor... cc -E
checking for main in -lz... no
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
gcc -std=gnu99 -I/usr/local/lib/R/include -I/usr/local/lib/R/include  
-I/usr/local/include    -fpic  -g -O2 -c read_abatch.c -o read_abatch.o
read_abatch.c:153:18: error: zlib.h: Datei oder Verzeichnis nicht gefunden
read_abatch.c:1246: error: expected declaration specifiers or ā...ā 
before āgzFileā
read_abatch.c: In function āReadgzFileLineā:
read_abatch.c:1247: warning: implicit declaration of function āgzgetsā
read_abatch.c:1247: error: ācurrentFileā undeclared (first use in this 
function)
read_abatch.c:1247: error: (Each undeclared identifier is reported only 
once

I think that there is missing a zlib library, but zlib-bin and zlibc are 
installed.
What is wrong?

Thanks a lot
Markus

-- 
Dipl.-Tech. Math. Markus Schmidberger

Ludwig-Maximilians-Universität München
IBE - Institut für medizinische Informationsverarbeitung,
Biometrie und Epidemiologie
Marchioninistr. 15, D-81377 Muenchen
URL: http://ibe.web.med.uni-muenchen.de 
Mail: Markus.Schmidberger [at] ibe.med.uni-muenchen.de

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