Hi Olivier, 

The first error message seems to indicate that Galaxy can't install the 
samtools version 0.1.11 dependency because you don't have zlib1g installed on 
your server. Maybe something like executing this command line on the Galaxy 
server will fix this issue : 

sudo apt-get install zlib1g-dev 

Best Regards, 

Yvan 

----- Mail original -----

> De: "Olivier CLAUDE" <o.cla...@outlook.fr>
> À: galaxy-dev@lists.galaxyproject.org
> Envoyé: Vendredi 30 Octobre 2015 08:42:53
> Objet: [galaxy-dev] new to galaxy

> Hello,

> My name is olivier, I am a PhD student in biology.

> I have to run bioinformatical prediction on protein sequences and i chose
> galaxy to do it.

> I have some basic skills with linux, and I may have missed some steps.

> My galaxy server is running for more than one week now; the installation was
> ok, but I am facing some problems to install some dependencies:

> - Samtools 0.1.18 returns errors everytime I try to install it:

> “this tool dependency’s required tool dependency samtools version 0.1.18 has
> status error”

> “In file included from bgzf.c:32:0: bgzf.h:33:18: fatal error: zlib.h: No
> such file or directory #include <zlib.h> ^ compilation terminated. make[2]:
> *** [bgzf.o] Error 1 make[1]: *** [lib-recur] Error 1 make: *** [all-recur]
> Error 1 ”

> - Atlas 3.10.2 2 won’t install correctly neither : ” mkdir: cannot create
> directory ‘ATLAS/build’: No such file or directory”

> - Same goes for Numpy 1.7.1, samtools 1.2, tophat 1.4.0, rsem 1.1.17

> Do you have any idea? Or tips?

> Thank you and have a nice day,

> M Olivier CLAUDE- PhD Student

> INSERM/UPMC UMRS ICAN 1166 – Equipe 2

> Faculté de médecine Pitié-Salpêtrière

> 91, bld de l'Hôpital - 3ème étage - Porte 305

> 75013 Paris - FRANCE

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-- 
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
 
Yvan Le Bras, PhD @Yvan2935 <°))))>< 
e-Biogenouest project http://www.e-biogenouest.org 
CNRS UMR 6074 IRISA-INRIA, Campus de Beaulieu, 35042 Rennes Cedex 
tél.: +33 (0) 2 99 84 71 79 / +33 (0) 6.10.43.96.51 
yvan.le_b...@irisa.fr 
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