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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