It's un-commented in both local and production. Still there is no icon in
production.

Cheers,
Oksana

On Mon, Jan 25, 2016 at 9:52 AM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:

> Hi,
>
> can you please check this setting?
>
>
> https://github.com/galaxyproject/galaxy/blob/dev/config/galaxy.ini.sample#L270
>
> Thanks,
> Bjoern
>
> Am 25.01.2016 um 15:46 schrieb Oksana Korol:
> > Thanks, Bjoern!
> >
> > For my local install of Galaxy, logging in as a user worked and the icon
> > is showing up (although I still had to manually go and change
> > permissions on all the mako templates in ./database/compiled_templates
> > directory). But our production instance of Galaxy (also v15.07 on CentOS
> > 6.7) does not show the chart-symbol for Phyloviz, even when I'm logged
> > in as a user. In production, it is not a clean install, but an upgrade
> > from previous versions, so it is harder to figure out what's going on.
> > There are no errors in the logs, so I'm still looking for any kind of
> > clues of what could have gone wrong with the visualization.
> >
> > Cheers,
> > Oksana
> >
> >     Message: 1
> >     Date: Sat, 23 Jan 2016 19:55:47 +0100
> >     From: Björn Grüning <bjoern.gruen...@gmail.com
> >     <mailto:bjoern.gruen...@gmail.com>>
> >     To: Oksana Korol <oko...@gmail.com <mailto:oko...@gmail.com>>,
> >             galaxy-dev@lists.galaxyproject.org
> >     <mailto:galaxy-dev@lists.galaxyproject.org>
> >     Subject: Re: [galaxy-dev] Setting up visualization on Galaxy on
> CentOS
> >     Message-ID: <56a3ccb3.9020...@gmail.com
> >     <mailto:56a3ccb3.9020...@gmail.com>>
> >     Content-Type: text/plain; charset=utf-8
> >
> >     Hi Oksana,
> >
> >     this work for me in 16.01 (upcoming). Please make sure you are logged
> >     into your Galaxy as some user, not anonymous and than the Phyloviz
> >     Visualisation will be available from the small chart-symbol next to
> the
> >     (i) symbol.
> >
> >     Hope this helps,
> >     Bjoern
> >
> >     Am 22.01.2016 um 23:53 schrieb Oksana Korol:
> >     > Hi,
> >     >
> >     > I'm having trouble getting visualization icons, like Phyloviz, to
> show
> >     > up on my Galaxy instance running in CentOS 6.7. Here are the steps
> I
> >     > took, expecting it to work:
> >     >
> >     > 1. cloned Galaxy tag v15.07 (that's the version we need to run in
> >     > production)
> >     >
> >     >  2. Followed the steps in
> >     https://wiki.galaxyproject.org/VisualizationSetup
> >     >   - Renamed datatypes_conf.xml.sample to
> >     > datatypes_conf.xml
> >     >   - Downloaded wigToBigWig, bedGraphToBigWig, and faToTwoBit
> >     >   - Installed BED Tools
> >     >   - Added above tools to my user path (galaxy_utils dir is where
> >     > wigToBigWig and others are):
> >     >
> >
>  
> /usr/lib64/qt-3.3/bin:/usr/local/bin:/usr/bin:/bin:/usr/local/sbin:/usr/sbin:/sbin:/home/galaxyuser/bin:/home/galaxyuser/bin:/home/galaxyuser/galaxy_utils:/home/galaxyuser/bin:/*home/galaxyuser/galaxy_utils:/home/galaxyuser/galaxy_utils/BEDTools/bedtools2/bin
> >     > *
> >     > 3. Started Galaxy.
> >     >
> >     > 4. Uploaded a newick tree file (nhx), which is known to be
> displayable
> >     > in phyloviz on a Ubuntu instance of Galaxy
> >     >
> >     > 5. Made sure the datatype is nhx
> >     >
> >     > 6. Expecting to see a Phyloviz "graph" icon on the left, when I
> expand
> >     > the file in history, but there is nothing there.
> >     >
> >     > At this point I don't know where to dig to find how I can fix it.
> Any
> >     > feedback, including your own stories for visualization setup or
> how I
> >     > can debug what's not being picked up where, would be greatly
> >     appreciated.
> >     >
> >     > Cheers,
> >     > Oksana
> >     > --
>
>
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