Hi Marius,

Now I ran in to some problems. 

When trying to change metadata of a file, the python path changes (these tools run using drmaa) to the normal system version. Here tools are ending in error becaus sqlalchemy.orm cannot be found. I can ofcourse install sqlarchemy-python systemwide. But this woudn't make me very happy.

in File: <galaxy>/lib/galaxy_ext/metadata/set_metadata.py

a sys.path.insert to .venv/lib should be added. I don't know what the right plcae for this is.

Do you hava any better ideas for this matter?

Eric

 

On 8 April 2016 at 16:15, Eric Kuyt <eric.kuijt@wur.nl> wrote:

​Thanks, works like a charm!​ Clean easy fix, Now why I couldn't come up with this myself.

On 2 April 2016 at 11:49, Marius van den Beek <m.vandenbeek@gmail.com> wrote:

ld have been mentioned with the release notes.
I didn't test this, but it might be sufficient to replace PYTHON="/usr/bin/python"
with PYTHON="<path/to/venv/bin/python>".
If that is sufficient for you, let us know and we will update the wiki and adjust the script in

--

Central Veterinary Institute of Wageningen UR (CVI)
Department of Infection Biology
PO box 65, 8200 AB Lelystad, NL
Visiting address: ASG, Edelhertweg 15, 8219 PH Lelystad
 
Tel:  +31-(0)320-293391
Fax: +31-(0)320-238153
E-mail: eric.kuijt@wur.nl
Web: http://www.cvi.wur.nl

--

Central Veterinary Institute of Wageningen UR (CVI)
Department of Infection Biology
PO box 65, 8200 AB Lelystad, NL
Visiting address: ASG, Edelhertweg 15, 8219 PH Lelystad
 
Tel:  +31-(0)320-293391
Fax: +31-(0)320-238153
E-mail: eric.kuijt@wur.nl
Web: http://www.cvi.wur.nl