Dear Sir, Madam,

I am working on the integration of sartools_1_1_0 in our local galaxy instance. This tool can be found at:
http://toolshed.france-bioinformatique.fr/repository

When we use deseq2 from this package, the temporary working directory located in the "job_working_directory" seems to be deleted too early, and so the "rsync" commands from "abims_sartools_deseq2_wrapper.py" script can't be executed because the files do not exist anymore.

Here is the error message:
rsync: change_dir "/work/galaxy-dev/database/job_working_directory/038/38633/figures" failed: No such file or directory (2)
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1039) [sender=3.0.6]
rsync: change_dir "/work/galaxy-dev/database/job_working_directory/038/38633/tables" failed: No such file or directory (2)
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1039) [sender=3.0.6]
rsync: link_stat "/work/galaxy-dev/database/job_working_directory/038/38633/Project.RData" failed: No such file or directory (2)
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1039) [sender=3.0.6]
rsync: link_stat "/work/galaxy-dev/database/job_working_directory/038/38633/Project_report.html" failed: No such file or directory (2)
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1039) [sender=3.0.6]

Could you please help us on this problem?

Thank you very much in advance.

Best regards,

Sabrina

Sabrina LEGOUEIX RODRIGUEZ
Responsable Plateau Bioinformatique

Tél. : +33 (0) 5 61 28 57 92
sabrina.legoueix@toulouse.inra.fr
www.toulouse-white-biotechnology.com

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