Hi all,
Is there any log files which could show what did go wrong or is there any
documentation how to install IEs?
Thank you in advance.
Mic
On Mon, Nov 9, 2015 at 9:12 AM, Mic <micta...@gmail.com> wrote:
> Hi Bjoern,
> Thank you for your email. I tried the attached Annovar
0_5>*
):
*Error downloading from URL*
*http://tukaani.org/xz/xz-5.0.5.tar.bz2
<http://tukaani.org/xz/xz-5.0.5.tar.bz2>:*
*HTTP Error 403: Forbidden*
How is it possible to fix it?
Thank you in advance.
Mic
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.
Mic
On Fri, Nov 6, 2015 at 1:13 AM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:
> Hi Mic and Olivier,
>
> if there is broader interest in OpenMS please let me know.
> We have new wrappers and new installation instructions here:
>
> https://github.com/bgruening/galax
Hi Eric,
Thank you for the update. I look forward to try the updated JBrowse package.
Best wishes,
Mic
On Sun, Nov 8, 2015 at 11:11 PM, Eric Rasche <e...@tamu.edu> wrote:
> Hi Mic,
>
> Maintainer of the JBrowse tool here. The XZ developers removed downloads
> of their
Hi Bjoern,
Thank you for your email. I tried the attached Annovar output which is
tabular separated. Unfortunately, Rstudio and Ipython still did not show up.
Thank you in advance.
Best wishes,
Mic
On Sat, Nov 7, 2015 at 9:58 AM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:
&g
Hi all,
Thank you for the link. I did not know about the link.
@Bjoern: Few month back I saw somewhere a website where it was possible to
download a VM with Galaxy. By any chance, do you remember the link?
Thank you in advance.
Mic
On Wed, Nov 11, 2015 at 10:29 PM, Björn Grüning <bjoern.gr
you in advance.
Mic
On Thu, Nov 12, 2015 at 9:42 PM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:
> Hi Mic,
>
> Am 12.11.2015 um 01:22 schrieb Mic:
> > Hello,
> > I installed all tools from the toolshed which I needed for Galaxy (15.10)
> > and noticed that I
m 4.0K Nov 4 02:21 uk*
What do I miss out?
Thank you in advance.
Mic
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o put it back the old one in *galaxy.ini*, but Galaxy does not
pick it from *master_api_key*.
Thank you in advance.
Mic
On Tue, Nov 17, 2015 at 12:28 PM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:
> Hi Mic,
>
> do you have Java installed?
>
> cheers,
> Bjoern
&
*
Unfortunately, I do not know how to connect the ProFTPD with Galaxy's
SQLite.
Thank you in advance.
Mic
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Hi Peter,
Thank you for you response.
Mic
On Tue, Nov 17, 2015 at 5:54 PM, Peter Cock <p.j.a.c...@googlemail.com>
wrote:
> Hi Mic,
>
> There is no single answer. Note I am answering this from
> the perspective of the Galaxy server administrator (who
> likely will
Hello,
After I migrated Galaxy installation to Postgresql my API key got lost. I
still know it and would like to add it to the database, but I am not quite
sure how to do it.
How is it possible to add an API key to the database.
Thank you in advance.
Mic
2.5/pjbriggs/ceas/82df5af2995f/lib/python
--install-scripts
/home/lorencm/galaxy/tool_dependency/python_mysqldb/1.2.5/pjbriggs/ceas/82df5af2995f/bin
STDERR
zip_safe flag not set; analyzing archive contents...
What did I miss?
Thank you
y rpy2*
*pip install pyzmq ipython==2.4 jinja2 tornado pygments numpy biopython
scikit-learn pandas*
However, clicking the *visualize* icon no iPython and RStudio are visible.
Galaxy is in my home folder installed */home/lorencm/galaxy.*
What am I missing?
...
or is there is another way to start automatically nodejs without to use
Supervisord?
On Fri, Dec 18, 2015 at 3:58 PM, Mic <micta...@gmail.com> wrote:
> Hello,
> I am using the latest stable Galaxy with PostgreSQL and Apache Proxy. I am
> trying to follow this ins
Supervisord for this command:
node $GALAXY_ROOT/lib/galaxy/web/proxy/js/main.js --ip 0.0.0.0 \
--port 8800 --sessions $GALAXY_ROOT/database/session_map.sqlite \
--cookie galaxysession --verbose
Thank you in advance
Mic
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Hello,
Where could I find INIT script for Ubuntu (14.04) and how to set is up?
Thank you in advance.
Mic
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9721 ).
Thank you in advance.
Mic
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/plugins/interactive_environments/rstudio/configrstudio.ini.sample
rstudio.xmlroot@77fcf1e4b798:~# ls
/galaxy-central/config/plugins/interactive_environments/ipython/configipython.ini.sample
ipython.xml*
What did I do wrong?
Thank you in advance.
Mic
On Fri, Jan 1, 2016 at 10:21 PM, Björn
Hi all,
I found the following Nginx configuration here (
https://github.com/fredhutchio/docker-galaxy/issues/1 ).
Unfortunately, I could not start the docker container (
https://github.com/fredhutchio/docker-galaxy/issues/1 ).
Thank you in advance.
Mic
On Tue, Nov 17, 2015 at 9:32 AM, Eric
Hi all,
I found the following Nginx configuration here (
https://github.com/fredhutchio/docker-galaxy/blob/master/nginx.conf ).
Unfortunately, I could not start the docker container (
https://github.com/fredhutchio/docker-galaxy/issues/1 ).
Thank you in advance.
Mic
On Thu, Dec 31, 2015 at 9
Hi Bjoern,
I tried *sudo docker ps, *but it shows nothing is running and I tried it
multiple times to refresh Galaxy*. *Maybe I have to change docker to use
without sudo?
Thank you in advance.
Mic
On Wed, Dec 23, 2015 at 10:03 AM, Mic <micta...@gmail.com> wrote:
> Hello Eric,
ProxyPassReverse http://localhost:8800/ipython/
Require all granted
What did I do wrong?
Thank you in advance.
Mic
On Wed, Dec 23, 2015 at 10:19 AM, Mic <micta...@gmail.com> wrote:
> Hi Bjoern,
> I tried *sudo docker ps, *but it shows nothing is running and I tried it
> multiple ti
* ie_request*.*url_template*(*
'${PROXY_URL}/rstudio/auth-public-key'*)*
Module galaxy.web.base.interactive_environments:*171* in url_template
<http://localhost/visualization/show/rstudio?dataset_id=ba7576120c38e626#>
view
<http://localhost/visualization/show/rstudio?dataset_id=ba757612
t the need to use supervisors config?
Thank you in advance.
Mic
On Sat, Dec 19, 2015 at 12:26 AM, Eric Rasche <e...@tamu.edu> wrote:
> Hi Mic,
>
> Since you asked for the supervisord config... it would look something
> like this:]
>
> [program:galaxy_proxy]
> command=
HI Keith,
Thank you for the links. In both links they use *universe_wsgi.ini*, but I
am using *galaxy.ini*. Do I have to change to* universe_wsgi.ini *and does
it has any advantages over *galaxy.ini*?
Thank you in advance.
Best wishes,
Mic
On Sat, Dec 19, 2015 at 1:51 AM, Suderman Keith <su
Hello,
Which Rstudio and Jupyter/ipython versions are supported by IE?
Thank you in advance.
Mic
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Hello,
Is there any docker container which include working IE with Apache Proxy?
Thank you in advance.
Best wishes,
Mic
On Wed, Dec 23, 2015 at 10:49 AM, Mic <micta...@gmail.com> wrote:
> Hello,
> The images have been downloaded and stated, but now I get the follo
he above files correctly?
*Thank you in advance,*
*Mic*
On Tue, Dec 22, 2015 at 4:15 AM, Eric Rasche <e...@tamu.edu> wrote:
> I'll look at this tonight, if no one else replies earlier today. Sorry to
> hear you're having these troubles Mic. GIEs can be tough to deploy. Thanks
>
Hello,
I was trying more, but still no luck. Please find attached the new config
files.
Thank you in advance.
Best wishes,
Mic
On Tue, Dec 22, 2015 at 11:26 AM, Mic <micta...@gmail.com> wrote:
> Hi Eric,
> Thank you for your email. I have Galaxy installed in */home/galaxy/galaxy*
Hi Boern,
Thank you. I changed to Postgresql and proFTPd and it works.
Cheers,
Mic
On Fri, Nov 13, 2015 at 12:57 AM, Björn Grüning <bjoern.gruen...@gmail.com>
wrote:
> Hi Mic,
>
> you can always dive into a container and get access to everything.
> Please read about `
Hi all,
Thank you for all response. I setup galaxy, postgresql and proFTPd from
scratch and installed all tools. Now everything it is working.
Thank you in advance.
Best wishes,
Mic
On Tue, Nov 17, 2015 at 2:23 PM, Mic <micta...@gmail.com> wrote:
> HI Eric,
> I compared yo
Hi all,
Thank you for all response. I setup galaxy, postgresql and proFTPd from
scratch and now it is everything working.
Thank you in advance.
Best wishes,
Mic
On Tue, Nov 17, 2015 at 11:21 PM, Hans-Rudolf Hotz <h...@fmi.ch> wrote:
> Hi Mic
>
> You said, you had migrat
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