Oups I made a mistake.... I have problems with the tophat wrapper, not bowtie. Bowtie runs fine... Tophat - fast splice junction mapper for RNA-Seq reads 4eb3c3beb9c7 Devteam Packages package_bowtie_2_2_5 and package_2_0_14 are installed... Thanks Martin De : Laforest, Martin Envoyé : 13 janvier 2016 09:43 À : 'galaxy-dev@lists.galaxyproject.org' Objet : Bowtie2 Hello, Please excuse my simple question since I'm a newbie... I've searched the mailing list but did not find the appropriate answer... I have a new Galaxy installation. I installed the tool "Bowtie2: Fast and sensitive read alignment" (Revision 019c2a81547a, Owner: devteam). The tool apparently runs fine and I can download the BAM file at the end and see its content (with IGV for example). The problem is that my dataset is red and when I check the error, I get "OSError: [Errno 2] No such file or directory"... Maybe it is when Galaxy tries to set the data type, I don't know. Many thanks for your help. Martin