[galaxy-dev] Re: trouble running the new galaxy instance

Thanks Marius for your quick reply,

I will check the yml and send you the full report once I have feedback from my sysadmin.

Cheer Jochen

On 23.07.19 10:03, Marius van den Beek wrote:

Hi Jochen,

can you post out the full logs ?

Jul 15 10:23:11 green-galaxy galaxy[5957]: yaml.scanner.ScannerError: mappin...e Jul 15 10:23:11 green-galaxy galaxy[5957]: in "/opt/galaxy/galaxy/config/gal...0

probably means that you have syntax error in galaxy.yml, but the full logs will tell you more.

Best, Marius

On Tue, 23 Jul 2019 at 09:26, Jochen Bick <jochen.bick@usys.ethz.ch mailto:jochen.bick@usys.ethz.ch> wrote:

Hi

since we updated some loc files our galaxy (19.01) does start but is
unavailable in the browser.

# systemctl status galaxy
? galaxy.service - SYSV: Galaxy http://galaxyproject.org/
   Loaded: loaded (/etc/rc.d/init.d/galaxy; bad; vendor preset:
disabled)
   Active: active (exited) since Mon 2019-07-15 10:23:11 CEST; 1
weeks 0
days ago
     Docs: man:systemd-sysv-generator(8)
  Process: 5840 ExecStop=/etc/rc.d/init.d/galaxy stop (code=exited,
status=0/SUCCESS)
  Process: 5957 ExecStart=/etc/rc.d/init.d/galaxy start (code=exited,
status=0/SUCCESS)

Jul 15 10:23:11 green-galaxy galaxy[5957]: File
"/opt/galaxy/galaxy/.venv/li...n
Jul 15 10:23:11 green-galaxy galaxy[5957]: self.fetch_more_tokens()
Jul 15 10:23:11 green-galaxy galaxy[5957]: File
"/opt/galaxy/galaxy/.venv/li...s
Jul 15 10:23:11 green-galaxy galaxy[5957]: return self.fetch_value()
Jul 15 10:23:11 green-galaxy galaxy[5957]: File
"/opt/galaxy/galaxy/.venv/li...e
Jul 15 10:23:11 green-galaxy galaxy[5957]: self.get_mark())
Jul 15 10:23:11 green-galaxy galaxy[5957]: yaml.scanner.ScannerError:
mappin...e
Jul 15 10:23:11 green-galaxy galaxy[5957]: in
"/opt/galaxy/galaxy/config/gal...0
Jul 15 10:23:11 green-galaxy galaxy[5957]: ...done.
Jul 15 10:23:11 green-galaxy systemd[1]: Started SYSV: Galaxy
http://galaxyp....
Hint: Some lines were ellipsized, use -l to show in full.


Has anyone a good hint?

Cheers Jochen

-- 
ETH Zurich
*Jochen Bick*
Animal Physiology
Institute of Agricultural Sciences
Postal address: Universitätstrasse 2 / LFW B 58.1
8092 Zurich, Switzerland
Office: Eschikon 27
8315 Lindau, Switzerland

Phone +41 52 354 92 06
jochen.bick@usys.ethz.ch <mailto:jochen.bick@usys.ethz.ch>
<mailto:jochen.bick@usys.ethz.ch <mailto:jochen.bick@usys.ethz.ch>>
www.ap.ethz.ch <http://www.ap.ethz.ch>

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