Hi Eric, Thank you for your email. I have Galaxy installed in */home/galaxy/galaxy* and Apache Proxy is setup for *localhost:8080*. I modified the Apache config file further for GIE:
*RewriteEngine onRewriteRule ^/static/style/(.*) /home/galaxy/galaxy/static/june_2007_style/blue/$1 [L]RewriteRule ^/static/scripts/(.*) /home/galaxy/galaxy/static/scripts/packed/$1 [L]RewriteRule ^/static/(.*) /home/galaxy/galaxy/static/$1 [L]RewriteRule ^/favicon.ico /home/galaxy/galaxy/static/favicon.ico [L]RewriteRule ^/robots.txt /home/galaxy/galaxy/static/robots.txt [L]RewriteRule ^(.*) http://localhost:8080$1 [P]# IPython specific. Other IEs may require their own routes.ProxyPass /gie_proxy/ipython/api/kernels ws://localhost:8800/gie_proxy/ipython/api/kernels# Global GIE configurationProxyPass /gie_proxy http://localhost:8800/gie_proxy http://localhost:8800/gie_proxyProxyPassReverse /gie_proxy http://localhost:8800/gie_proxy http://localhost:8800/gie_proxy# Normal Galaxy configurationProxyPass / http://localhost:8080 http://localhost:8080ProxyPassReverse / http://localhost:8080 http://localhost:8080* Did I modify the above files correctly?
*Thank you in advance,*
*Mic*
On Tue, Dec 22, 2015 at 4:15 AM, Eric Rasche esr@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 for bearing with us.
Cheers, Eric
2015-12-20 20:57 GMT-06:00 Mic mictadlo@gmail.com:
Hi all, I tried with *dynamic_proxy_manage=True* and *dynamic_proxy_manage=False*, but IE does not start inside Galaxy on a Annovar tab separated file (see attached).
I also tried the following commands, but without any luck:
$ node /home/galaxy/galaxy/lib/galaxy/web/proxy/js/lib/main.js --ip 0.0.0.0 --port 8800 --sessions /home/galaxy/galaxy/database/session_map.sqlite --cookie galaxysession --verbose Watching path /home/galaxy/galaxy/database/session_map.sqlite Listening on 0.0.0.0:8800
$ node /home/galaxy/galaxy/lib/galaxy/web/proxy/js/lib/main.js --ip 127.0.0.1 --port 8800 --sessions /home/galaxy/galaxy/database/session_map.sqlite --cookie galaxysession --verbose Watching path /home/galaxy/galaxy/database/session_map.sqlite Listening on 127.0.0.1:8800
$ node /home/galaxy/galaxy/lib/galaxy/web/proxy/js/lib/main.js --ip localhost --port 8800 --sessions /home/galaxy/galaxy/database/session_map.sqlite --cookie galaxysession --verbose Watching path /home/galaxy/galaxy/database/session_map.sqlite Listening on localhost:8800
My Galaxy is running on *0.0.0.0:8080 http://0.0.0.0:8080* view at *http://127.0.0.1:8080 http://127.0.0.1:8080*. I use Docker version 1.9.1, build a34a1d5.
Please find attached my *galaxy.ini* and apache proxy config file ( *000-default.conf*).
The following Apache modules I have enabled (*sudo a2enmod rewrite deflate expires proxy proxy_html xsendfile xml2enc proxy_wstunnel*)
What did I do wrong so I can not start Rstudio and IPython inside Galaxy?
Thank you in advance.
Mic
On Sat, Dec 19, 2015 at 1:12 PM, John Chilton jmchilton@gmail.com wrote:
dynamic_proxy_manage_proxy=True is a terrible hack, I would set it to False and use supervisord if you have any inclination to at all. Like sqlite or the local job runner, it is just an attempt to make sure things work out of the box but it isn't that robust.
-John
On Sat, Dec 19, 2015 at 1:20 AM, Eric Rasche esr@tamu.edu wrote:
- des. 2015 1.17 a.m. skrev "Mic" mictadlo@gmail.com:
Hi all, Thank you for the responses. If I would use "dynamic_proxy_manage_proxy=True" than Galaxy would execute
automatically:
/lib/galaxy/web/proxy/js/main.js --ip 0.0.0.0 \ --port 8800 --sessions $GALAXY_ROOT/database/session_map.sqlite \ --cookie galaxysession --verbose
without the need to use supervisors config?
Yes. That's the idea. I'm not sure I trust it quite as much as
supervisord,
but it has worked quite well for us so far :-)
Thank you in advance.
Mic
On Sat, Dec 19, 2015 at 12:26 AM, Eric Rasche esr@tamu.edu wrote:
Hi Mic,
Since you asked for the supervisord config... it would look something like this:]
[program:galaxy_proxy] command=/usr/local/bin/node /path/to/galaxy/lib/galaxy/web/proxy/js/main.js --ip 0.0.0.0 --port
8800
--sessions /path/to/galaxy/database/session_map.sqlite --cookie galaxysession --verbose numprocs=1 autostart=true autorestart=true startsecs=10 user=galaxy-user directory=/galaxy/home/directory umask=022
Galaxy can also automatically manage the proxy for you, if you set "dynamic_proxy_manage_proxy=True" in your galaxy.ini
On 12/18/2015 01:23 AM, Björn Grüning wrote: > Hi, > > you need to have node installed. > > And then simply run: ./lib/galaxy/web/proxy/js/main.js --ip
0.0.0.0 \
> --port 8800 --sessions $GALAXY_ROOT/database/session_map.sqlite \ > --cookie galaxysession --verbose > > from your Galaxy root dir. > > Cheers, > Bjoern > > Am 18.12.2015 um 06:58 schrieb Mic: >> Hello, >> I am using the latest stable Galaxy with PostgreSQL and Apache
Proxy.
>> I am >> trying to follow this instruction >> >>
http://galaxy.readthedocs.org/en/master/admin/interactive_environments.html
>> in order to be able to setup IE (Rstudio and Ipython). However,
I do
>> not >> know how to setup automatically 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 >> >> >> >> ___________________________________________________________ >> Please keep all replies on the list by using "reply all" >> in your mail client. To manage your subscriptions to this >> and other Galaxy lists, please use the interface at: >> https://lists.galaxyproject.org/ >> >> To search Galaxy mailing lists use the unified search at: >> http://galaxyproject.org/search/mailinglists/ >> > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/
-- Eric Rasche Programmer II
Center for Phage Technology Rm 312A, BioBio Texas A&M University College Station, TX 77843 404-692-2048 esr@tamu.edu
Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Eric Rasche Programmer II
Center for Phage Technology Rm 312A, BioBio Texas A&M University College Station, TX 77843 404-692-2048 esr@tamu.edu