Hi Nate. Thank you for the reply. So I installed uWSGI inside my Python virtual environment since that was one of the options listed in the documentation, like so: cd ~/galaxy_env/ source bin/activate pip install uwsgi It looks like uWSGI was successfully installed. I then exited/deactivated the virtual environment via 'deactivate'. Next, I tried to start uWSGI: ~/galaxy-dist$ PYTHONPATH=eggs/PasteDeploy-1.5.0-py2.7.egg uwsgi --ini-paste config/galaxy.ini ... but it returned this: realpath() of config/galaxy.ini failed: No such file or directory [core/utils.c line 3607] So, I pointed it to universe_wsgi.ini instead, like so: ~/galaxy-dist$ PYTHONPATH=eggs/PasteDeploy-1.5.0-py2.7.egg uwsgi --ini-paste universe_wsgi.ini ...and this was returned: [uWSGI] getting INI configuration from universe_wsgi.ini At that point, Terminal just kinda sits there and does not display any output, error messages, etc. Questions: 1. Was I correct in specifying universe_wsgi.ini ? 2. Nothing is returned after "[uWSGI] getting INI configuration from universe_wsgi.ini". Is that normal? 3. Should I activate the Python virtual environment first (via "source bin/activate") before executing "~/galaxy-dist$ PYTHONPATH=eggs/PasteDeploy-1.5.0-py2.7.egg uwsgi --ini-paste universe_wsgi.ini" ? 4. Is the next step to start Galaxy, like so? cd galaxy-dist GALAXY_RUN_ALL=1 sh run.sh --daemon I appreciate your help. On Mon, Jan 26, 2015 at 5:22 PM, Nate Coraor <nate@bx.psu.edu> wrote:
Hi Nicholas,
Sorry for the somewhat misleading text in the documentation. The part about "no extra modules or recompiling" refers to nginx itself - uWSGI protocol support is built in to the core functionality of nginx. This does not mean that uWSGI itself is installed. Installing uWSGI is addressed a bit further up:
You will also need to have uWSGI installed. There are a variety of ways to do this. It can be installed system-wide by installing from your system's package manager (on Debian and Ubuntu systems, the uwsgi and uwsgi-plugin-python provide the necessary components), or with theeasy_install or pip commands (which will install it to the system's Python site-packages directory). Alternatively, if you are already running Galaxy from a Python virtualenv, you can use pip install uwsgi with that virtualenv's copy of pip to install to that virtualenv as your unprivileged Galaxy user.
In the case of Ubuntu sudo apt-get install uwsgi uwsgi-plugin-python should provide the necessary components.
--nate
On Mon, Jan 26, 2015 at 2:46 PM, Nicholas Kline <nxk60@case.edu> wrote:
Hello,
I am trying to setup a local production Galaxy server for our department. Our Galaxy server environment is as follows:
- Ubuntu 14.04 64-bit - 94 GB Memory - Intel Xeon - Python virtual environment - Nginx - PostgreSQL - ProFTPd
Today I tried starting the Galaxy server for the first time. I think the first step in that process is starting uWSGI, correct? To do so, I executed these commands:
cd ~/galaxy-dist/ PYTHONPATH=eggs/PasteDeploy-1.5.0-py2.7.egg uwsgi --ini-paste config/galaxy.ini
However, it appears something failed. This information is returned:
The program 'uwsgi' can be found in the following packages: * uwsgi-core * uwsgi-plugin-alarm-curl * uwsgi-plugin-alarm-xmpp * uwsgi-plugin-curl-cron * uwsgi-plugin-emperor-pg * uwsgi-plugin-erlang * uwsgi-plugin-geoip * uwsgi-plugin-graylog2 * uwsgi-plugin-jvm-openjdk-6 * uwsgi-plugin-jvm-openjdk-7 * uwsgi-plugin-ldap * uwsgi-plugin-lua5.1 * uwsgi-plugin-lua5.2 * uwsgi-plugin-php * uwsgi-plugin-psgi * uwsgi-plugin-python * uwsgi-plugin-python3 * uwsgi-plugin-rack-ruby1.9.1 * uwsgi-plugin-router-access * uwsgi-plugin-sqlite3 * uwsgi-plugin-v8 * uwsgi-plugin-xslt Ask your administrator to install one of them
According to the galaxy documentation at https://wiki.galaxyproject.org/Admin/Config/Performance/Scaling , "uWSGI support is built in to nginx, so no extra modules or recompiling should be required".
Also, should '--ini-paste config/galaxy.ini' really be configured like this instead: --ini-paste universe_wsgi.ini ?
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