Hello Olivier,

Ivan is right. In addition, have a look here to a list of required packages
that galaxy often assumes to be installed:
https://wiki.galaxyproject.org/Admin/Config/ToolDependenciesList

If you have more trouble, we're at the UPMC, 7th floor, Batiment B.

Cheers,
Marius

On 30 October 2015 at 09:42, Yvan Le Bras <yvan.le_b...@irisa.fr> wrote:

> 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
>
> ------------------------------
>
> *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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>
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