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 08:42, Olivier CLAUDE <o.cla...@outlook.fr> wrote:

>
>
> 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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>
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>



-- 
Marius van den Beek, PhD

Drosophila Genetics and Epigenetics
Institut de Biologie Paris Seine
<http://www.ibps.upmc.fr/fr/Recherche/umr-biologie-developpement/genetique-et-epigenetique-de-la-drosophile>
9, Quai St Bernard, Boîte courrier 24
75252 Paris Cedex 05
Tel +33 01 44 27 34 01

marius.van_den_b...@upmc.fr
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