Hello Evan,
this looks suspiciously like a bug that Matthias Bernt has fixed on the
development branch a while back.
I have backported this to Galaxy release 17.01 and release 17.05.
If you update your galaxy branch to the latest commit it should work (or
you should receive a more instructive err
Hi Peter,
indeed the defaults channel should now be the lowest priority of all conda
channels.
This recommended setting in galaxy.ini is now
conda_ensure_channels = iuc,bioconda,conda-forge,defaults,r
Unfortunately these changes appear as changes are made within bioconda,
which usually
do not co
I just ran across an issue when attempting to load galaxy. I am not sure
how to fix this issue or what could be causing it. Conda is installed
properly.
File
"/var/web_services/galaxy/lib/galaxy/webapps/galaxy/buildapp.py", line
58, in paste_app_factory
app = galaxy.app.UniverseApplicat
Presuming SGE runs this on a remote node, it's likely the file hasn't been
flushed to disk. Have you checked to see if the files eventually show up?
Sent from my iPhone
> On 17. Aug 2017, at 17:49, Yip, Miu ki wrote:
>
> Hi,
>
> We’re having a bit of an error where the GUI shows that a job ha
Hi,
We’re having a bit of an error where the GUI shows that a job had an error.
When the user submits the job, the job is seen to have run via terminal and
uge. The job working directory exists and the out and error file is in there.
Once the job completes, it seems like the GUI will say that i
Dear devs
I've recently encountered some strange issues when running the htseq-count and
deseq2 tools installed from the toolshed onto our production instance. In both
cases there have been problems with a couple of the conda dependency
installations.
Specifically:
- For htseq-count, runs fa
Hi Evan
I assume you are talking about the 'reports' tool?
Have a look here:
https://galaxyproject.org/admin/usage-reports/
https://docs.galaxyproject.org/en/latest/admin/reports.html
Additional (system) information about each executed job can be logged by
activating plugins in the "./config/
I remember there previously being an additional tool that ran on a
different port from galaxy that allowed for monitoring of performance
and jobs running. Is this tool still packaged with galaxy and if so how
can it be activated.
___
Pleas